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-  <td width=100%  id="p1" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('1')" id=AREF>The GeneNetwork and WebQTL :
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-  <td width=100%  id="p2" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('2')" id=AREF>Slide 2</a></b></font></td>
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-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID4 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p4" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('4')" id=AREF><font face=Verdana>Discovering
-  upstream modulatory loci</font></a></b></font></td>
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- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID5 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p5" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('5')" id=AREF>WebQTL searches for upstream
-  controllers</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID6 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p6" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('6')" id=AREF>Genetic versus Physical maps
-  for App expression</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID7 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p7" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('7')" id=AREF>Physical map for distal
-  chromosome 7</a></b></font></td>
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-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID8 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p8" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('8')" id=AREF>Evaluating candidate genes</a></b></font></td>
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-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID9 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p9" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('9')" id=AREF>Physical maps are zoomable</a></b></font></td>
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-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID10 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p10" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('10')" id=AREF>Evaluating Ctbp2 as a
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-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID11 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p11" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('11')" id=AREF>Evaluating Ctbp2 using
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-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID12 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p12" ><font face=Arial size=2><b><a
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-  <td width=100%  id="p13" ><font face=Arial size=2><b><a
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-  <td width=100%  id="p14" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('14')" id=AREF>Contact for comments and
-  improvements:</a></b></font></td>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/outline_expand.gif b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/outline_expand.gif
deleted file mode 100755
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/outline_expanded.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/outline_expanded.htm
deleted file mode 100755
index c33cf334..00000000
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-<head>
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-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
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-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
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-<meta name=Robots content=NoIndex>
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-<body bgcolor=black text=white link=white vlink=white alink=white
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-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID1 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p1" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('1')" id=AREF>The GeneNetwork and WebQTL :
-  PART 2<span style="mso-spacerun: yes">&nbsp;&nbsp; </span><br>
-  link to www.genenetwork.org</a></b></font></td>
- </tr>
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- </tr>
- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>Part 1. How to study expression
-  variation and genetic correlation (slides 2&#8211;17)</font></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>Part 2. Discovering upstream modulators
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-<br>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID2 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p2" ><font face=Arial size=2><b><a
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- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID3 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p3" ><font face=Arial size=2><b><a
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- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID4 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p4" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('4')" id=AREF><font face=Verdana>Discovering
-  upstream modulatory loci</font></a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID5 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p5" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('5')" id=AREF>WebQTL searches for upstream
-  controllers</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID6 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p6" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('6')" id=AREF>Genetic versus Physical maps
-  for App expression</a></b></font></td>
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-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID7 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p7" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('7')" id=AREF>Physical map for distal
-  chromosome 7</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID8 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p8" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('8')" id=AREF>Evaluating candidate genes</a></b></font></td>
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-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID9 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p9" ><font face=Arial size=2><b><a
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-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID10 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p10" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('10')" id=AREF>Evaluating Ctbp2 as a
-  candidate QTL for App</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID11 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p11" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('11')" id=AREF>Evaluating Ctbp2 using
-  other resources</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID12 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p12" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('12')" id=AREF>&quot;Summary of Part 2&quot;</a></b></font></td>
- </tr>
-</table>
-<table>
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>Summary of Part 2</font></td>
- </tr>
-</table>
-<br>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID13 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p13" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('13')" id=AREF>Test Questions</a></b></font></td>
- </tr>
-</table>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID14 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p14" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('14')" id=AREF>Contact for comments and
-  improvements:</a></b></font></td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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deleted file mode 100755
index 85b11c52..00000000
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-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_active.gif b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_active.gif
deleted file mode 100755
index 004a872f..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_active.gif
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_disabled.gif b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_disabled.gif
deleted file mode 100755
index 8a467185..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/prev_disabled.gif
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/script.js b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/script.js
deleted file mode 100755
index 8110ab9a..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/script.js
+++ /dev/null
@@ -1,1343 +0,0 @@
-var CtxAlwaysOn = false;
-function LoadSld( slideId )
-{
-	if( !g_supportsPPTHTML ) return
-	if( slideId )
-		parent.base.SldUpdated(slideId)
-	g_origSz=parseInt(SlideObj.style.fontSize)
-	g_origH=SlideObj.style.posHeight
-	g_origW=SlideObj.style.posWidth
-	g_scaleHyperlinks=(document.all.tags("AREA").length>0)
-	if ( IsWin("PPTSld") && !parent.IsFullScrMode() )
-		parent.base.highlite();	
-	if( g_scaleHyperlinks )
-		InitHLinkArray()
-	if( g_scaleInFrame||(IsWin("PPTSld") && parent.IsFullScrMode() ) )
-		document.body.scroll="no"
-	_RSW()
-	if( IsWin("PPTSld") && (parent.IsFullScrMode() || CtxAlwaysOn ) )	{
-		document.oncontextmenu=parent._CM;
-	self.focus(); 
-
-	}
-}
-function MakeSldVis( fTrans ) 
-{
-	fTrans=fTrans && g_showAnimation
-	if( fTrans )
-	{
-		if( g_bgSound ) {
-			idx=g_bgSound.indexOf(",");
-			pptSound.src=g_bgSound.substr( 0, idx );
-			pptSound.loop= -(parseInt(g_bgSound.substr(idx+1)));
-		}
-		SlideObj.filters.revealtrans.Apply()
-	}
-	SlideObj.style.visibility="visible"
-	if( fTrans )
-		SlideObj.filters.revealtrans.Play()
-}
-function MakeNotesVis() 
-{
-	if( !IsNts() ) return false 
-	SlideObj.style.display="none"
-	nObj = document.all.item("NotesObj")
-	parent.SetHasNts(0)
-	if( nObj ) { 
-		nObj.style.display=""
-		parent.SetHasNts(1)
-	}
-	return 1
-}
-function Redirect( frmId,sId )
-{
-	var str=document.location.hash,idx=str.indexOf('#')
-	if(idx>=0) str=str.substr(1);
-	if( window.name != frmId && ( sId != str) ) {
-		obj = document.all.item("Main-File")
-		window.location.href=obj.href+"#"+sId
-		return 1
-	}
-	return 0
-}
-function HideMenu() { if( frames["PPTSld"] && PPTSld.document.all.item("ctxtmenu") && PPTSld.ctxtmenu.style.display!="none" ) { PPTSld.ctxtmenu.style.display='none'; return true } return false }
-function IsWin( name ) { return window.name == name }
-function IsNts() { return IsWin("PPTNts") }
-function IsSldOrNts() { return( IsWin("PPTSld")||IsWin("PPTNts") ) }
-function SupportsPPTAnimation() { return( navigator.platform == "Win32" && navigator.appVersion.indexOf("Windows")>0 ) }
-function SupportsPPTHTML()
-{
-	var appVer=navigator.appVersion, msie=appVer.indexOf( "MSIE " ), inex = appVer.indexOf( "Internet Explorer " ), ver=0
-	if( msie >= 0 )
-		ver=parseFloat( appVer.substring( msie+5, appVer.indexOf(";",msie) ) )
-	else if( inex >= 0 )
-		ver=parseFloat( appVer.substring( inex+18, appVer.indexOf(";",inex) ) )
-	else
-		ver=parseInt(appVer)
-
-	return( ver >= 4  )
-}
-var MHTMLPrefix = CalculateMHTMLPrefix(); 
-function CalculateMHTMLPrefix()
-{
-	if ( document.location.protocol == 'mhtml:') { 
-		href=new String(document.location.href) 
-		Start=href.indexOf('!')+1 
-		End=href.lastIndexOf('/')+1 
-		if (End < Start) 
-			return href.substring(0, Start) 
-		else 
-		return href.substring(0, End) 
-	}
-	return '';
-}
-
-function LoadNavSld(slideId) {
-playList();
-parent.createCM();
-	if( !g_supportsPPTHTML ) return
-	if( IsWin("PPTSld") && slideId )
-		parent.base.SldUpdated(slideId)
-	self.focus(); 
-
-}
-var hasNarration = false;
-function _RSW()
-{
-	if( !g_supportsPPTHTML || IsNts() ||
-	  ( !g_scaleInFrame && (( window.name != "PPTSld" ) ) ) )
-		return
-
-	cltWidth=document.body.clientWidth
-	cltHeight=document.body.clientHeight
-	factor=(1.0*cltWidth)/g_origW
-	if( cltHeight < g_origH*factor )
-		factor=(1.0*cltHeight)/g_origH
-
-	newSize = g_origSz * factor
-	if( newSize < 1 ) newSize=1
-
-	s=SlideObj.style
-	s.fontSize=newSize+"px"
-	s.posWidth=g_origW*factor
-	s.posHeight=g_origH*factor
-	s.posLeft=(cltWidth-s.posWidth)/2
-	s.posTop=(cltHeight-s.posHeight)/2
-
-	if ( hasNarration ) {
-		obj = document.all.NSPlay.style;
-		mySld = document.all.SlideObj.style;
-		obj.position = 'absolute';
-		obj.posTop = mySld.posTop + mySld.posHeight - 20;
-		obj.posLeft = mySld.posLeft + mySld.posWidth - 20;
-	}
-	if( g_scaleHyperlinks )
-		ScaleHyperlinks( factor );	
-}
-function IsMac() {
-	return (window.navigator.platform.indexOf("Mac") >= 0 );
-}
-
-function HitOK( evt ) {
-	//Nav Only function
-	return (evt.which == 1 || (IsMac() && evt.which == 3) );
-}
-function _KPH(event)
-{ 
-
-  if ( parent.base.msie < 0 )  {
-    
-    	if ( ( (event.target.name && event.target.name == "hasMap" ) || (event.target.href && event.target.href != "") ) && parent.g_docTable[0].type != "jpeg" && HitOK( event )  ) {
-    		return; /* to make hyperlinks in fullscreen mode traversable */
-    	}
-	if( IsContextMenu() )
-		return parent.KPH(event);
-  	if ( parent.IsFullScrMode()  && event.which == 27 )
-  		parent.base.CloseFullScreen();
-  	else if ( parent.base.IsFullScrMode() && ( (!IsMac() && event.which == 3) || ( IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 ) ) )
-  		return parent.KPH(event);
-  	else if( (event.which == 32) ||  (event.which == 13) || HitOK( event )  ) {
-	    if( window.name == "PPTSld" )
-	      parent.PPTSld.DocumentOnClick();
-	    else
-	      parent.M_GoNextSld();
-      }	
-      else if ( parent.IsFullScrMode() && ((event.which == 78)  || (event.which == 110) || (event.which == 29) || (event.which == 31) || (event.which == 12)) )
-  		parent.M_GoNextSld();
-      else if ( parent.IsFullScrMode() && ( (event.which == 80)  || (event.which == 112) || (event.which == 30) || (event.which == 28) || (event.which == 11) || (event.which == 8)) )
-  		parent.M_GoPrevSld();
-
-      return;
-   }
-  	
-  if( IsNts() ) return;
-
-  if(parent.IsFullScrMode()  && event.keyCode == 27 && !parent.HideMenu() )
-    parent.base.CloseFullScreen();
-  else if( (event.keyCode == 32) || (event.keyCode == 13) )
-  {
-    if( window.name == "PPTSld" )
-      parent.PPTSld.DocumentOnClick();
-   else
-      parent.M_GoNextSld();
-  }
-  else if ( parent.IsFullScrMode() && ((event.keyCode == 78)  || (event.keyCode == 110)) )
-  	parent.M_GoNextSld();
-  else if ( parent.IsFullScrMode() && ((event.keyCode == 80)  || (event.keyCode == 112)) )
-  	parent.M_GoPrevSld();
-}
-
-function DocumentOnClick(event)
-{
-		if ( g_doAdvOnClick && !parent.IsFullScrMode() ) {
-			parent.base.TP_GoToNextSld();	
-			return;
-		}
-		
-	if ( parent.base.msie < 0 ) 
-	{
-		if( ( g_allowAdvOnClick  && parent.IsFullScrMode() ) || g_doAdvOnClick ||
-		    (event && ( (event.which == 32) || (event.which == 13) ) ) )
-			parent.M_GoNextSld();
-			return;
-	}		
-	if( IsNts() || (parent.IsFullScrMode() && parent.HideMenu() ) ) return;
-	if( ( g_allowAdvOnClick && parent.IsFullScrMode() ) || g_doAdvOnClick ||
-	    (event && ( (event.keyCode==32) || (event.keyCode == 13) ) ) )
-		parent.M_GoNextSld();
-}
-
-
-var g_supportsPPTHTML = SupportsPPTHTML(), g_scaleInFrame = true, gId="", g_bgSound="",
-    g_scaleHyperlinks = false, g_allowAdvOnClick = true, g_showInBrowser = false, g_doAdvOnClick = false;
-
- var g_showAnimation = 0;
-var g_hasTrans = false, g_autoTrans = false, g_transSecs = 0;
-var g_animManager = null;
-
-var ENDSHOW_MESG="End of slide show, click to exit.", SCREEN_MODE="Frames", gIsEndShow=0, NUM_VIS_SLDS=14, SCRIPT_HREF="script.js", FULLSCR_HREF="fullscreen.htm";
-var gCurSld = gPrevSld = 1, g_offset = 0, gNtsOpen = gHasNts = gOtlTxtExp = gNarrationPaused = false, gOtlOpen = true
-window.gPPTHTML=SupportsPPTHTML()
-var g_hideNav = 0;
-function UpdNtsPane(){ PPTNts.location.replace( MHTMLPrefix+GetHrefObj( gCurSld ).mNtsHref ) }
-function UpdNavPane( sldIndex ){ if(gNavLoaded) PPTNav.UpdNav() }
-function UpdOtNavPane(){ if(gOtlNavLoaded) PPTOtlNav.UpdOtlNav() }
-function UpdOtlPane(){ if(gOtlLoaded) PPTOtl.UpdOtl() }
-function SetHasNts( fVal )
-{
-	if( gHasNts != fVal ) {
-		gHasNts=fVal
-		UpdNavPane()
-	}
-}
-
-function ToggleVNarration()
-{
-	if ( base.msie < 0 ) {
-		PPTSld.ToggleSound( false, PPTSld.document.NSPlay );
-		return;
-	}
-	
-	rObj=PPTSld.document.all("NSPlay")
-	if( rObj ) {
-		if( gNarrationPaused )
-			rObj.Play()
-		else
-			rObj.Pause()
-
-		gNarrationPaused=!gNarrationPaused
-	}
-}
-
-function PrevSldViewed(){ GoToSld( GetHrefObj(gPrevSld).mSldHref ) }
-function HasPrevSld() { return ( gIsEndShow || ( g_currentSlide != 1 && GetHrefObj( g_currentSlide-1 ).mVis == 1 )||( GetCurrentSlideNum() > 1 ) ) }
-function HasNextSld() { return (GetCurrentSlideNum() != GetNumSlides()) }
-function StartEndShow()
-{
-//	g_hideNav = 1;
-//	PPTNav.location.reload();
-	if( PPTSld.event ) PPTSld.event.cancelBubble=true
-
-	doc=PPTSld.document
-	doc.open()
-	doc.writeln('<html><head><script > /*defer>*/ g_ctxmenu = 0; ' +
-	'if( parent.base.msie < 0 )  { document.captureEvents(Event.KEYPRESS); document.captureEvents(Event.MOUSEDOWN); document.onkeypress = _KPH; document.onmousedown = _KPH; } ' +
-	'function DocumentOnClick(event) { return _KPH(event); }  function IsContextMenu() { return (g_ctxmenu ==1); } ' +
-	'function _KPH(event)' +
-	'{  ' +
-	'if ( parent.base.msie < 0  && (parent.IsFullScrMode() ) && event ) { if ( (!parent.IsMac() && event.which == 3) || ( parent.IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 ) )  { return parent.KPH(event); } ' + 
-	' else if (event.which == 27 || event.which == 32 || event.which == 13 || parent.HitOK( event ) || (event.which == 78)  || (event.which == 110) || (event.which == 29) || (event.which == 31) || (event.which == 12) ) { if ( IsContextMenu() ) { return parent.KPH(event); }  parent.base.CloseFullScreen(); return; } ' +
-	' else if ( (event.which == 80)  || (event.which == 112) || (event.which == 30) || (event.which == 28) || (event.which == 11) || (event.which == 8) ) { parent.M_GoPrevSld(); } } ' +
-	'if( parent.HideMenu() ) return; if( (parent.IsFullScrMode() ) && event) { if ( (event.keyCode==27 || event.keyCode == 13 || event.keyCode==32 || event.type=="click" ) || (event.keyCode == 78)  || (event.keyCode == 110) ) { parent.base.CloseFullScreen(); }' +
-	' else if ( (event.keyCode == 80)  || (event.keyCode == 112) ) { parent.M_GoPrevSld(); } } } function Unload() { parent.gIsEndShow=0; } function SetupEndShow() {    if ( !parent.IsFullScrMode() ) { return; } else { parent.PPTNav.location.reload(); }  parent.gIsEndShow=1; if ( parent.g_docTable[0].type != "jpeg" ) { if ( parent.base.msie < 0 ) {parent.createCM(); } document.oncontextmenu=parent._CM; } }</script></head><body scroll=\"no\" onclick=\"DocumentOnClick(event)\" onkeypress=\"_KPH(event)\" bgcolor=\"black\" onload=\"SetupEndShow()\" onunload=\"Unload()\"><center><p><font face=Tahoma color=white size=2><br><b>' + ENDSHOW_MESG + '</b></font></p></center></body></html>')
-	doc.close()
-}
-function SetSldVisited(){ gDocTable[gCurSld-1].mVisited=true }
-function IsSldVisited(){ return gDocTable[gCurSld-1].mVisited }
-function hrefList( sldHref, visible, sldIdx )
-{
-	this.mSldHref= this.mNtsHref = sldHref
-	this.mSldIdx = sldIdx
-	this.mOrigVis= this.mVis = visible
-	this.mVisited= false
-}
-var gDocTable = new Array(
-   new hrefList("slide0001.htm", 1, 1),
-   new hrefList("slide0002.htm", 1, 2),
-   new hrefList("slide0003.htm", 1, 3),
-   new hrefList("slide0004.htm", 1, 4),
-   new hrefList("slide0005.htm", 1, 5),
-   new hrefList("slide0006.htm", 1, 6),
-   new hrefList("slide0007.htm", 1, 7),
-   new hrefList("slide0008.htm", 1, 8),
-   new hrefList("slide0009.htm", 1, 9),
-   new hrefList("slide0010.htm", 1, 10),
-   new hrefList("slide0011.htm", 1, 11),
-   new hrefList("slide0012.htm", 1, 12),
-   new hrefList("slide0013.htm", 1, 13),
-   new hrefList("slide0014.htm", 1, 14)
-);
-
-function ImgBtn( oId,bId,w,action )
-{
-	var t=this
-	t.Perform    = _IBP
-	t.SetActive  = _IBSetA
- t.SetInactive= _IBSetI
-	t.SetPressed = _IBSetP
-	t.SetDisabled= _IBSetD
-	t.Enabled    = _IBSetE
-	t.ChangeIcon = null
-	t.UserAction = action
-	t.ChgState   = _IBUI
-	t.mObjId   = oId
-	t.mBorderId= bId
-	t.mWidth   = w
-	t.mIsOn    = t.mCurState = 0
-}
-function _IBSetA()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gHiliteClr,gShadowClr,2 )
-		obj.style.posTop=0
-	}
-}
-function _IBSetI()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gFaceClr,gFaceClr,1 )
-		obj.style.posTop=0 
-	}
-}
-function _IBSetP()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gShadowClr,gHiliteClr,2 )
-		obj.style.posLeft+=1; obj.style.posTop+=1
-	}
-}
-function _IBSetD()
-{  
-	obj=this.ChgState( gFaceClr,gFaceClr,0 )
-	obj.style.posTop=0 
-}
-function _IBSetE( state )
-{
-	var t=this
-	GetObj( t.mBorderId ).style.visibility="visible"
-	if( state != t.mIsOn ) {
-		t.mIsOn=state
-		if( state )
-			t.SetInactive()
-		else
-			t.SetDisabled()
-	}
-}
-function _IBP()
-{
-	var t=this
-	if( t.mIsOn ) {
-		if( t.UserAction != null )
-			t.UserAction()
-		if( t.ChangeIcon ) {
-			obj=GetObj(t.mObjId)
-			if( t.ChangeIcon() )
-				obj.style.posLeft=obj.style.posLeft+(t.mCurState-4)*t.mWidth
-			else
-				obj.style.posLeft=obj.style.posLeft+(t.mCurState-0)*t.mWidth
-		}
-		t.SetActive()
-	}  
-}
-function _IBUI( clr1,clr2,nextState )
-{
-	var t=this
-	SetBorder( GetObj( t.mBorderId ),clr1,clr2 )
-	obj=GetObj( t.mObjId )
-	obj.style.posLeft=obj.style.posLeft+(t.mCurState-nextState)*t.mWidth-obj.style.posTop
-	t.mCurState=nextState
-	return obj
-}
-function TxtBtn( oId,oeId,action,chkState )
-{
-	var t=this
-	t.Perform    = _TBP
-	t.SetActive  = _TBSetA
-	t.SetInactive= _TBSetI
-	t.SetPressed = _TBSetP
-	t.SetDisabled= _TBSetD
-	t.SetEnabled = _TBSetE
-	t.GetState   = chkState
-	t.UserAction = action
-	t.ChgState   = _TBUI
-	t.mObjId      = oId
-	t.m_elementsId= oeId
-	t.mIsOn       = 1
-}
-function _TBSetA()
-{
-	var t=this
-	if( t.mIsOn && !t.GetState() )
-		t.ChgState( gHiliteClr,gShadowClr,0,0 )
-}
-function _TBSetI()
-{
-	var t=this
-	if( t.mIsOn && !t.GetState() )
-		t.ChgState( gFaceClr,gFaceClr,0,0 )
-}
-function _TBSetP()
-{
-	if( this.mIsOn )
-		this.ChgState( gShadowClr,gHiliteClr,1,1 )
-}
-function _TBSetD()
-{   
-	this.ChgState( gFaceClr,gFaceClr,0,0 )
-	this.mIsOn = 0
-}
-function _TBSetE()
-{
-	var t=this
-	if( !t.GetState() )
-		t.ChgState( gFaceClr,gFaceClr,0,0 )
-	else
-		t.ChgState( gShadowClr,gHiliteClr,1,1 )
-	t.mIsOn = 1
-}
-function _TBP()
-{
-	var t=this
-	if( t.mIsOn ) { 
-		if( t.UserAction != null )
-			t.UserAction()
-		if( t.GetState() )
-			t.SetPressed()
-		else
-			t.SetActive()
-	}  
-}
-function _TBUI( clr1,clr2,lOffset,tOffset )
-{
-	SetBorder( GetObj( this.mObjId ),clr1,clr2 )
-	Offset( GetObj( this.m_elementsId ),lOffset,tOffset )
-}
-function GetObj( objId ){ return document.all.item( objId ) }
-function Offset( obj, top, left ){ obj.style.top=top; obj.style.left=left }
-function SetBorder( obj, upperLeft, lowerRight )
-{
-	s=obj.style;
-	s.borderStyle      = "solid"
-	s.borderWidth      = 1 
-	s.borderLeftColor  = s.borderTopColor = upperLeft
-	s.borderBottomColor= s.borderRightColor = lowerRight
-}
-function GetBtnObj(){ return gBtnArr[window.event.srcElement.id] }
-function BtnOnOver(){ b=GetBtnObj(); if( b != null ) b.SetActive() }
-function BtnOnDown(){ b=GetBtnObj(); if( b != null ) b.SetPressed() }
-function BtnOnOut(){ b=GetBtnObj(); if( b != null ) b.SetInactive() }
-function BtnOnUp()
-{
-	b=GetBtnObj()
-	if( b != null )
-		b.Perform()
-	else
-		Upd()
-}
-function GetNtsState(){ return parent.gNtsOpen }
-function GetOtlState(){ return parent.gOtlOpen }
-function GetOtlTxtState(){ return parent.gOtlTxtExp }
-function NtsBtnSetFlag( fVal )
-{
-	s=document.all.item( this.m_flagId ).style
-	s.display="none"
-	if( fVal )
-		s.display=""
-	else
-		s.display="none"
-}
-
-var gHiliteClr="THREEDHIGHLIGHT",gShadowClr="THREEDSHADOW",gFaceClr="THREEDFACE"
-var gBtnArr = new Array()
-gBtnArr["nb_otl"] = new TxtBtn( "nb_otl","nb_otlElem",parent.ToggleOtlPane,GetOtlState )
-gBtnArr["nb_nts"] = new TxtBtn( "nb_nts","nb_ntsElem",parent.ToggleNtsPane,GetNtsState )
-gBtnArr["nb_prev"]= new ImgBtn( "nb_prev","nb_prevBorder",30,parent.GoToPrevSld )
-gBtnArr["nb_next"]= new ImgBtn( "nb_next","nb_nextBorder",30,parent.GoToNextSld )
-gBtnArr["nb_sldshw"]= new ImgBtn( "nb_sldshw","nb_sldshwBorder",18,parent.FullScreen )
-gBtnArr["nb_voice"]  = new ImgBtn( "nb_voice","nb_voiceBorder",18,parent.ToggleVNarration )
-gBtnArr["nb_otlTxt"]= new ImgBtn( "nb_otlTxt","nb_otlTxtBorder",23,parent.ToggleOtlText )
-gBtnArr["nb_nts"].m_flagId= "notes_flag"
-gBtnArr["nb_nts"].SetFlag = NtsBtnSetFlag
-gBtnArr["nb_otlTxt"].ChangeIcon= GetOtlTxtState
-var sNext="Next",sPrev="Previous",sEnd="End Show",sFont="Arial", alwaysOn = false
-function ShowMenu()
-{
-	BuildMenu();
-	var doc=PPTSld.document.body,x=PPTSld.event.clientX+doc.scrollLeft,y=PPTSld.event.clientY+doc.scrollTop
-
-	m = PPTSld.document.all.item("ctxtmenu")
-	m.style.pixelLeft=x
-	if( (x+m.scrollWidth > doc.clientWidth)&&(x-m.scrollWidth > 0) )
-		m.style.pixelLeft=x-m.scrollWidth
-
-	m.style.pixelTop=y
-	if( (y+m.scrollHeight > doc.clientHeight)&&(y-m.scrollHeight > 0) )
-		m.style.pixelTop=y-m.scrollHeight
-
-	m.style.display=""
-}
-function _CM()
-{
-	if( !parent.IsFullScrMode() && !alwaysOn) return;
-	
-	if(!PPTSld.event.ctrlKey) {
-		ShowMenu()
-		return false
-	} else
-		HideMenu()
-}
-
-function processNavKPH(event) {
-   if ( PPTSld &&  (event.keyCode != 13 || !event.srcElement.href || event.srcElement.href == "" ) )
-	return PPTSld._KPH(event);
-}
-function processNavClick() {
-	HideMenu();
-	return true;
-}
-function BuildMenu()
-{
-	if( PPTSld.document.all.item("ctxtmenu") ) return
-
-	var mObj=CreateItem( PPTSld.document.body )
-mObj.id="ctxtmenu"
-	var s=mObj.style
-	s.position="absolute"
- s.cursor="default"
-	s.width="100px"
-	SetCMBorder(mObj,"menu","black")
-
-	var iObj=CreateItem( mObj )
-	SetCMBorder( iObj, "threedhighlight","threedshadow" )
-	iObj.style.padding=2
-	if ( self.IsFullScrMode() ) {
-		CreateMenuItem( iObj,sNext,M_GoNextSld,M_True )
-		CreateMenuItem( iObj,sPrev,M_GoPrevSld,M_HasPrevSld )
-	}
-	else {
-		CreateMenuItem( iObj,sNext, base.TP_GoToNextSld, base.HasNextSld )
-		CreateMenuItem( iObj,sPrev,base.GoToPrevSld, base.HasPrevSld )
-	}
-	var sObj=CreateItem( iObj )
-	SetCMBorder(sObj,"menu","menu")
-	var s=sObj.style
-	s.borderTopColor="threedshadow"
-	s.borderBottomColor="threedhighlight"
-	s.height=1
-	s.fontSize="0px"
-	if ( self.IsFullScrMode() ) 
-		CreateMenuItem( iObj,sEnd,M_End,M_True )
-	else
-		CreateMenuItem( iObj,sEnd,M_End,M_False )
-}
-function Highlight() { ChangeClr("activecaption","threedhighlight") }
-function Deselect() { ChangeClr("threedface","menutext") }
-function Perform()
-{
-	e=PPTSld.event.srcElement
-	if( e.type=="menuitem" && e.IsActive() )
-		e.Action()
-	else
-		PPTSld.event.cancelBubble=true
-}
-function ChangeClr( bg,clr )
-{
-	e=PPTSld.event.srcElement
-	if( e.type=="menuitem" && e.IsActive() ) {
-		e.style.backgroundColor=bg
-		e.style.color=clr
-	}
-}
-
-function M_HasPrevSld() { return( base.HasPrevSld() ) }
-function M_GoNextSld() { 
-	base.SetFSMode(1);
-	if( gIsEndShow )
-		 M_End();
-	else {
-		if ( base.HasNextSld() )
-		 base.GoToNextSld();
-		else if (  base.EndSlideShow ) {
-		 StartEndShow();
-		 gIsEndShow = 1;
-		 
-		 PPTNav.location.reload();
-		}
-		else
-			base.CloseFullScreen();
-	}
-}
-function M_GoPrevSld() {
-	base.SetFSMode(1);
-	g_hideNav = 0;
-	if( gIsEndShow ) { 
-		gIsEndShow = 0;
-		if ( base.msie > 0 && IsMac() ) 
-			ChangeFrame( SLIDE_FRAME, GetHrefObj( g_currentSlide ).m_slideHref );
-		else	
-		PPTSld.history.back();
-		
-		 PPTNav.location.reload();
-		if( PPTSld.event )
-			 PPTSld.event.cancelBubble=true;
-	}
-	else
-	 	base.GoToPrevSld();
-}
-function M_True() { return true }
-function M_False() { return false }
-
-function M_End() {
-	base.CloseFullScreen();
-	/*PPTSld.event.cancelBubble=true;
-	window.close( self )*/
-}
-
-function CreateMenuItem( node,text,action,eval )
-{
-	var e=CreateItem( node )
-	e.type="menuitem"
-	e.Action=action
-	e.IsActive=eval
-	e.innerHTML=text
-
-	if( !e.IsActive() )
-		e.style.color="threedshadow"
-	e.onclick=Perform
-	e.onmouseover=Highlight
-	e.onmouseout=Deselect
-	s=e.style;
-	s.fontFamily=sFont
-	s.fontSize="8pt"
-	s.paddingLeft=2
-}
-function CreateItem( node )
-{
-	var elem=PPTSld.document.createElement("DIV")
-	node.insertBefore( elem )
-	return elem
-}
-function SetCMBorder( o,ltClr,rbClr )
-{
-	var s=o.style
-	s.backgroundColor="menu"
-	s.borderStyle="solid"
-	s.borderWidth=1
-	s.borderColor=ltClr+" "+rbClr+" "+rbClr+" "+ltClr
-}
-
-/* netscape context menu */
-g_ctxmenu = 0;
-function setRect( obj, X, Y, W, H ) {
-	obj.top = Y;
-	obj.left = X;
-	obj.clip.top = 0;
-	obj.clip.left = 0;
-	obj.clip.bottom = H;
-	obj.clip.right = W;
-}	
-
-function KPH(event) {
-	if ( ! base.IsFullScrMode() && !alwaysOn )
-		return true;
-		
-	if ( (!IsMac() &&event.which == 3) || ( IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 )   ) {
-		PPTSld.g_ctxmenu = 1;
-		PPTSld.stripUobj.visibility = "show";
-		PPTSld.stripDobj.visibility = "show";
-		PPTSld.shadeUobj.visibility = "show";
-		PPTSld.shadeDobj.visibility = "show";
-		PPTSld.panelobj.visibility = "show";
-		PPTSld.Fobj.visibility = "show";
-		PPTSld.Bobj.visibility = "show";
-		PPTSld.Eobj.visibility = "show";
-
-		setRect(PPTSld.shadeUobj, event.pageX-2, event.pageY-2, 82, 67 );		
-		setRect(PPTSld.shadeDobj, event.pageX, event.pageY, 82, 67 );		
-		setRect(PPTSld.panelobj, event.pageX, event.pageY, 80, 65 );		
-		setRect(PPTSld.Fobj, event.pageX, event.pageY, 80, 20 );
-		setRect(PPTSld.Bobj, event.pageX, event.pageY+20, 80, 20 );
-		setRect(PPTSld.stripUobj, event.pageX, event.pageY+41, 80, 1 );		
-		setRect(PPTSld.stripDobj, event.pageX, event.pageY+43, 80, 1 );		
-		setRect(PPTSld.Eobj, event.pageX, event.pageY+45, 80, 20 );
-		return false;
-	}
-	if ( HitOK( event ) ) {
-	PPTSld.g_ctxmenu = 0;
-		PPTSld.stripUobj.visibility = "hide";
-		PPTSld.stripDobj.visibility = "hide";
-		PPTSld.shadeUobj.visibility = "hide";
-		PPTSld.shadeDobj.visibility = "hide";
-		PPTSld.panelobj.visibility = "hide";
-		PPTSld.Fobj.visibility = "hide";
-		PPTSld.Bobj.visibility = "hide";
-		PPTSld.Eobj.visibility = "hide";
-	}
-	return true;
-}
-
-function overMe() {
-	this.bgColor = "blue";
-}
-
-function outMe() {
-	this.bgColor = "#AAAAAA"; 
-}
-
-function makeElement( whichEl, whichContainer ) {
-	if ( arguments.length == 1 ) {
-		whichContainer = PPTSld;
-	}
-	tmp = new Layer(100,whichContainer);
-	eval( whichEl + " = tmp" );
-	return eval(whichEl);
-}
-
-function initMe( obj, clr, text ) {
-	obj.bgColor = clr;
-//	obj.document.write("<a href='javascript:return false'>" + text + "</a>");
-	obj.document.write( "<font size=2 face=Arial " );
-	if ( !M_HasPrevSld() && (obj == PPTSld.Bobj )  ) {
-		obj.document.write( " color='#808080' " );
-	}
-	else {
-		obj.onmouseover = overMe;
-		obj.onmouseout = outMe;
-	}	
-	obj.document.write( " > &nbsp " + text +"</font> <layer top=0 left=0 width=100 height=40 ></layer>");
-	obj.document.close();
-	obj.captureEvents(Event.CLICK);
-	obj.color = "black";		
-}
-
-function createCM() {
-  if ( base.IsFullScrMode() ) {
-  	var clr = "#AAAAAA";
-	PPTSld.shadeUobj = makeElement("SHADEU");
-	PPTSld.shadeDobj = makeElement("SHADED");
-	PPTSld.panelobj = makeElement("PANEL");
-	PPTSld.stripUobj = makeElement("STRIPU");
-	PPTSld.stripDobj = makeElement("STRIPD");
-	PPTSld.shadeUobj.bgColor = "#BBBBBB";
-	PPTSld.shadeDobj.bgColor = "#888888";
-	PPTSld.stripUobj.bgColor = "#777777";
-	PPTSld.stripDobj.bgColor = "#CCCCCC";
-	PPTSld.panelobj.bgColor = clr;
-	PPTSld.Fobj = makeElement("Next");
-	PPTSld.Bobj = makeElement("Previous");
-	PPTSld.Eobj = makeElement("EndShow");
-	initMe( PPTSld.Fobj, clr, "Next" );
-	PPTSld.Fobj.onclick = M_GoNextSld;
-
-	initMe( PPTSld.Bobj, clr, "Previous" );
-	PPTSld.Bobj.onclick = M_GoPrevSld;
-
-	initMe( PPTSld.Eobj, clr, "End Show");
-	PPTSld.Eobj.onclick = base.CloseFullScreen;
-  }
-}
-
-function IsContextMenu() {
-	return (g_ctxmenu == 1)
-}
-var g_notesTable = new Array()
-var g_hiddenSlide = new Array()
-makeSlide( 0,1,1);
-makeSlide( 1,1,1);
-makeSlide( 2,1,1);
-makeSlide( 3,1,1);
-makeSlide( 4,1,1);
-makeSlide( 5,1,1);
-makeSlide( 6,1,1);
-makeSlide( 7,1,1);
-makeSlide( 8,1,1);
-makeSlide( 9,1,1);
-makeSlide( 10,1,1);
-makeSlide( 11,0,1);
-makeSlide( 12,0,1);
-makeSlide( 13,1,1);
-
-var END_SHOW_HREF         = "endshow.htm",
-    OUTLINE_EXPAND_HREF   = "outline_expanded.htm",
-    OUTLINE_COLLAPSE_HREF = "outline_collapsed.htm",
-    OUTLINE_NAVBAR_HREF  = "outline_navigation_bar.htm",
-    NAVBAR_HREF           = "navigation_bar.htm",
-    BLANK_NOTES_HREF	  = "blank_notes.htm",
-    NUM_VISIBLE_SLIDES    = 14,
-    SIMPLE_FRAMESET       = 0,
-    SLIDE_FRAME	        = "PPTSld",
-    NOTES_FRAME           = "PPTNts",
-    OUTLINE_FRAME         = "PPTOtl",
-    OUTLINE_NAVBAR_FRAME  = "PPTOtlNav",
-    NAVBAR_FRAME          = "PPTNav",
-	MAIN_FRAME			  = "MainFrame",
-	FS_NAVBAR_HREF		  = "fs_navigation_bar.htm",
-	isIEFiles 			= 2,
-	isNAVFiles 			= 8,
-	isFLATFiles 			= 16,
-	includeNotes			= 1,
-	PPTPRESENTATION     = 1;
-var  INITSLIDENUM   = 1;
-
-var EndSlideShow = 0;
-var g_outline_href = OUTLINE_COLLAPSE_HREF;	
-var g_fullscrMode = 0;	
-var FSWin = null;
-var gtmpstr = document.location.href;
-var g_baseURL = gtmpstr.substr(0, gtmpstr.lastIndexOf("/") ) + "/" + "webqtl_demo2.ppt_files";
-var g_showoutline = 1;
-var g_shownotes = includeNotes;
-var g_currentSlide = INITSLIDENUM, g_prevSlide = INITSLIDENUM;
-var saveFSSlideNum = saveTPSlideNum = g_currentSlide;
-var saveFSprevSlide = saveTPprevSlide = g_prevSlide;
-var g_slideType="ie";
-var appVer = navigator.appVersion;
-var msie = appVer.indexOf( "MSIE " ) + appVer.indexOf( "Internet Explorer " );
-var isnav = ( navigator.appName.indexOf( "Netscape" ) >= 0 );
-var msieWin31 = (appVer.indexOf( "Windows 3.1" ) > 0);
-var ver = 0;
-var g_done = 0;
-var g_prevotlobjidx = 0;
-var g_ShowFSDefault = 0;
-var g_lastVisibleSld = 1;
-var g_allHidden = false;
-function IsIE() {
-	return (msie >= 0 );
-}
-
-function IsNav() {
-	return (isnav);
-}
-var msiePos = appVer.indexOf( "MSIE " );
-var inexPos = appVer.indexOf( "Internet Explorer " );
-if ( msiePos >= 0 )
-  ver = parseFloat( appVer.substring( msiePos+5, appVer.indexOf ( ";", msiePos ) ) );
-else if( inexPos >= 0 )
-  ver=parseFloat( appVer.substring( inexPos+18, appVer.indexOf(";",inexPos) ) )
-else
-  ver = parseInt( appVer );
-
-//var g_supportsPPTHTML = 0; //!msieWin31 && ( ( msie >= 0 && ver >= 3.02 ) || ( msie < 0 && ver >= 3 ) );
-
-function GetCurrentSlideNum()
-{   
-  obj = GetHrefObj( g_currentSlide );
-  if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 )
-    return obj.m_slideIdx;
-  else   
-    return g_currentSlide;
-}
-
-function GetNumSlides()
-{
-  if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 )
-    return NUM_VISIBLE_SLIDES;
-  else
-    return g_docTable.length;
-}
-
-function GetHrefObj( slideIdx )
-{ return g_docTable[slideIdx - 1];
-}
-
-function GetSlideNum( slideHref )
-{
-  for (ii=0; ii<g_docTable.length; ii++) {
-    if ( g_docTable[ii].m_slideHref == slideHref )
-      return ii+1;
-  }
-  return 1;
-}
-
-function GoToNextSld()
-{   
-  targetIdx = g_currentSlide + 1;
-  if ( GetHrefObj( targetIdx-1 ).m_origVisibility == 0 ) {
-    if ( targetIdx<=g_docTable.length ) {
-      obj = GetHrefObj( targetIdx );
-      obj.m_visibility = 1;
-      GoToSld( obj.m_slideHref );
-    }
-  }
-  else {
-    obj = GetHrefObj( targetIdx );
-    while ( obj && ( obj.m_origVisibility == 0 ) && ( targetIdx<=g_docTable.length ) )
-      obj = GetHrefObj( targetIdx++ );
-    if( obj && obj.m_origVisibility )
-      GoToSld( obj.m_slideHref );
-  }
-}
-
-function GoToPrevSld()
-{
-  targetIdx = g_currentSlide - 1;
-  if ( targetIdx > 0 ) {
-    obj = GetHrefObj( targetIdx );
-    while ( ( obj.m_visibility == 0 ) && ( targetIdx>0 ) )
-      obj = GetHrefObj( targetIdx-- );
-    GoToSld( obj.m_slideHref );
-  }
-}
-
-function GoToLast()
-{
-  targetIdx = g_docTable.length;
-  if ( targetIdx != g_currentSlide )
-    GoToSld( GetHrefObj( targetIdx ).m_slideHref );
-}
-
-function GoToFirst()
-{ GoToSld( GetHrefObj(1).m_slideHref );
-}
-
-function highlite() {
-	if ( IsFullScrMode() )
-		return;
-	index = GetCurrentSlideNum();
-	if ( !frames[MAIN_FRAME].frames[OUTLINE_FRAME] )
-		return;
-	if ( msie < 0 ) {
-		if ( g_prevotlobjidx != 0 ) {
-			eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + g_prevotlobjidx );
-			otlobj.hidden = true;
-		}
-		else
-			index = GetCurrentSlideNum();
-		eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + index );
-		otlobj.hidden = false;
-	
-		g_prevotlobjidx = index;
-		
-		return;
-	}
-	if ( !g_showoutline )
-		return;
-		
-		backclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.bgColor;
-		textclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.text;
-	if ( g_prevotlobjidx != 0 ) {
-		eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + g_prevotlobjidx );
-		otlobj.style.backgroundColor = backclr;
-		otlobj.style.color = textclr;
-		otlobj.all.AREF.style.color = textclr;
-	}
-	else
-		index = GetCurrentSlideNum();
-	eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + index );
-	otlobj.style.backgroundColor = textclr;
-	otlobj.style.color = backclr;
-	otlobj.all.AREF.style.color = backclr;
-	g_prevotlobjidx = index;
-}
-
-function ChangeFrame( frame, href )
-{
-if ( IsFramesMode() ) {
-  if ( NAVBAR_FRAME == frame || OUTLINE_NAVBAR_FRAME ==  frame ) {
-	    frames[frame].location.replace(href);
-  }
-  else if( ! ( ( OUTLINE_FRAME == frame && !g_showoutline)  || (NOTES_FRAME == frame && !g_shownotes ) ) ){
-	    frames[MAIN_FRAME].frames[frame].location.href = href;
-  }
- }
- else {
- 	if ( frame == NAVBAR_FRAME || frame == SLIDE_FRAME ) {
- 	  if( frame == NAVBAR_FRAME ) {
- 	  	 href = FS_NAVBAR_HREF;
- 	  	
- 	  }	    
- 	  if( frame == NAVBAR_FRAME ) 
-	      window.frames[frame].location.replace(href);
-	 else
-	      window.frames[frame].location.href = href;
- 	}
- }
-  
-}
-
-function shutEventPropagation() {
-	if ( IsNav() )
-		return;
-		
-	var slideFrame;
-	if ( IsFramesMode() )
-		slideFrame = frames[MAIN_FRAME].frames[SLIDE_FRAME];
-	else
-		slideFrame = window.frames[SLIDE_FRAME];
-	if ( slideFrame.event ) 
-		slideFrame.event.cancelBubble=true;
-}
-				
-function GoToSld( slideHref )
-{
-  shutEventPropagation();
-  if ( slideHref != GetHrefObj( g_currentSlide ).m_slideHref || g_slideType != GetHrefObj( g_currentSlide ).type) {
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( slideHref );
-	g_slideType = GetHrefObj( g_currentSlide ).type;
-    obj = GetHrefObj( g_currentSlide );
-    obj.m_visibility = 1;
-    ChangeFrame( SLIDE_FRAME, slideHref );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-	    
-  }
-}
-
-function PrevSldViewed()
-{ GoToSld( GetHrefObj( g_prevSlide ).m_slideHref );
-}
-
-function NoHref() {}
-
-function ExpandOutline( )
-{ 
- g_outline_href = OUTLINE_EXPAND_HREF;
- ChangeFrame( OUTLINE_FRAME, OUTLINE_EXPAND_HREF );
- frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF);
-}
-
-function CollapseOutline()
-{ 
- g_outline_href = OUTLINE_COLLAPSE_HREF;
- ChangeFrame( OUTLINE_FRAME, OUTLINE_COLLAPSE_HREF );
- frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF);
- }
-
-function SlideUpdated( id )
-{
-  if ( id != GetHrefObj( g_currentSlide ).m_slideHref )  {
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( id );
-    obj = GetHrefObj( g_currentSlide );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-  }
-}
-
-function hrefList( slideHref, notesHref, visible, slideIdx, type )
-{
-  this.m_slideHref  = slideHref;
-  this.m_notesHref  = notesHref;
-  this.m_navbarHref = NAVBAR_HREF;
-  this.m_origVisibility = visible;
-  this.m_visibility = visible;
-  this.m_slideIdx = slideIdx;
-  this.type = type;
-}
-
-function IsFullScrMode() {
-	return g_fullscrMode;
-}
-
-
-function IsFramesMode() {
-	return (1 - g_fullscrMode);
-}
-
-function SldUpdated( id )
-{
-  if ( ( id != GetHrefObj( g_currentSlide ).m_slideHref )  || ( g_currentSlide == g_lastVisibleSld ) ){
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( id );
-    obj = GetHrefObj( g_currentSlide );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-  }
-}
-
-function ToggleOutline() {
-	g_showoutline = 1 - g_showoutline;
-	writeMyFrame();
-}
-
-function ShowHideNotes() {
-	g_shownotes = 1 - g_shownotes;
-	writeMyFrame();
-}
-
-function writeMyFrame() {
-		SetFSMode(0);
-		obj = frames[MAIN_FRAME];
-		
-		var curslide = g_baseURL + "/" +  GetHrefObj( g_currentSlide ).m_slideHref;
-		var curnotes = g_baseURL + "/" +  GetHrefObj( g_currentSlide ).m_notesHref;
-		var otlhref = g_baseURL + "/" +  g_outline_href;
-		if ( msie < 0 ) {			
-		if ( ! g_showoutline && g_shownotes ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset rows=\"*,20%\" id=\"frameset2\" > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				<frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \
-				</frameset> </html>' );
-		}
-		else if( g_showoutline && g_shownotes  ){
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset cols=\"20%,*\" id=\"frameset1\"> \
-				<frame src=\"' + otlhref + '\" name=PPTOtl> \
-				<frameset rows=\"*,20%\" id=\"frameset2\" > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				<frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \
-				</frameset> </frameset></html>' );
-		}		
-		else if ( !g_shownotes && !g_showoutline ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset rows="*,0" frameborder=0 > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				</frameset> </html>' );
-		}
-		else if( !g_shownotes  && g_showoutline ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset cols=\"20%,*\" id=\"frameset1\"> \
-				<frame src=\"' + otlhref + '\" name=PPTOtl> \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				</frameset></html>' );
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001.htm
deleted file mode 100755
index 11938baa..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001.htm
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
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-56;position:absolute;top:0%;left:0%;width:100.0%;height:51.68%'><span
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-1. How to study </span></span><span style='position:absolute;top:23.57%;
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-3'>expression variation </span></span><span style='position:absolute;
-top:47.15%;left:9.66%;width:90.33%'><span style='font-size:94%;color:#E9EB5D;
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-style='position:absolute;top:70.73%;left:9.66%;width:79.13%'><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'>(slides 2&#8211;17)<br>
-</span></span></div>
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-56;position:absolute;top:60.5%;left:0%;width:93.63%;height:39.91%'><span
-style='position:absolute;top:0%;left:0%;width:95.1%'><span style='mso-special-format:
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-2. Discovering </span></span><span style='position:absolute;top:30.52%;
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-3'>upstream modulators </span></span><span style='position:absolute;top:61.05%;
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-3'>(slides 18&#8211;29)</span></span></div>
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-</span></div>
-<div style='mso-line-spacing:"-346 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'></div>
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-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
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- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Part 2: Discovering
-  upstream modulators and quantitative trait loci (QTLs). A quantitative trait
-  locus is a chromosomal region that harbors one or a few polymorphic gene loci
-  that influence a trait. We are going to be looking for QTLs that modulate the
-  steady state expression level of App in the adult mouse forebrain.</font><br>
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deleted file mode 100755
index a1cb20e4..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_image001.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_image002.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_image002.png
deleted file mode 100755
index e06bd0db..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_image002.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_notes_pane.htm
deleted file mode 100755
index 9e0445f3..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
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-  <td align=left colspan=1><font face=Helvetica size=2>Part 2: Discovering
-  upstream modulators and quantitative trait loci (QTLs). A quantitative trait
-  locus is a chromosomal region that harbors one or a few polymorphic gene loci
-  that influence a trait. We are going to be looking for QTLs that modulate the
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002.htm
deleted file mode 100755
index b40dd6e1..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002.htm
+++ /dev/null
@@ -1,25 +0,0 @@
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-</span></div>
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-</span></div>
-<div style='text-align:center;mso-line-spacing:"-160 0 0";mso-margin-left-alt:
-16;mso-text-indent-alt:16;position:absolute;top:62.06%;left:6.37%;width:87.37%;
-height:37.93%'><span style='font-family:Arial;font-size:150%;color:aqua;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image003.png" style='position:absolute;top:28.79%;
-left:45.43%;width:18.14%;height:1.06%'><img border=0
-src="slide0002_image004.png" style='position:absolute;top:20.31%;left:28.21%;
-width:1.98%;height:11.83%'>
-<div style='position:absolute;top:15.01%;left:25.03%;width:19.47%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:6.8%;width:93.19%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>C57BL/6J (B)<br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:83.21%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image005.png" style='position:absolute;top:20.31%;
-left:30.46%;width:1.98%;height:11.83%'>
-<div style='position:absolute;top:15.01%;left:62.25%;width:16.55%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:8.0%;width:92.8%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>DBA/2J (D)<br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:82.75%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image006.png" style='position:absolute;top:20.31%;
-left:66.62%;width:4.23%;height:11.83%'><img border=0
-src="slide0002_image007.png" style='position:absolute;top:35.51%;left:23.97%;
-width:50.86%;height:1.23%'><img border=0 src="slide0002_image008.png"
-style='position:absolute;top:35.68%;left:24.1%;width:.66%;height:4.06%'><img
-border=0 src="slide0002_image009.png" style='position:absolute;top:35.68%;
-left:40.92%;width:.52%;height:4.06%'><img border=0 src="slide0002_image010.png"
-style='position:absolute;top:35.68%;left:57.61%;width:.52%;height:4.06%'><img
-border=0 src="slide0002_image011.png" style='position:absolute;top:35.68%;
-left:74.3%;width:.52%;height:3.88%'>
-<div style='position:absolute;top:42.75%;left:5.69%;width:6.49%;height:12.36%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:8.57%;left:20.4%;width:73.46%;
-height:84.28%'>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:49.15%'><span
-style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F1<br>
-</b></span></div>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:50.84%;left:0%;width:83.33%;height:49.15%'><span
-style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><b><br>
-</b></span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image012.png" style='position:absolute;top:39.92%;
-left:22.25%;width:4.23%;height:11.83%'><img border=0
-src="slide0002_image013.png" style='position:absolute;top:39.92%;left:38.94%;
-width:4.23%;height:11.83%'><img border=0 src="slide0002_image014.png"
-style='position:absolute;top:39.92%;left:55.62%;width:4.23%;height:11.83%'><img
-border=0 src="slide0002_image015.png" style='position:absolute;top:39.39%;
-left:72.84%;width:4.23%;height:11.83%'><img border=0
-src="slide0002_image016.png" style='position:absolute;top:43.46%;left:43.97%;
-width:11.12%;height:3.53%'><img border=0 src="slide0002_image017.png"
-style='position:absolute;top:60.95%;left:20.66%;width:9.8%;height:3.53%'>
-<div style='position:absolute;top:71.73%;left:58.41%;width:20.26%;height:26.67%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:12.58%;left:6.53%;width:88.23%;
-height:83.44%'>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:0%;width:100.0%;
-height:69.84%'><span style='position:absolute;top:0%;left:0%;width:99.25%'><span
-style='font-family:Arial;font-size:117%;color:#FFFF99'><b>20 generations </b></span></span><span
-style='position:absolute;top:39.77%;left:0%;width:100.0%'><span
-style='font-family:Arial;font-size:117%;color:#FFFF99'><b>brother-sister </b></span></span><span
-style='position:absolute;top:80.68%;left:0%;width:99.25%'><span
-style='font-family:Arial;font-size:117%;color:#FFFF99'><b>matings</b></span><span
-style='font-family:Arial;font-size:233%;color:#FFFF99;display:none'><b><br>
-</b></span></span></div>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:73.8%;left:0%;width:99.25%;
-height:26.98%'><span style='font-family:Arial;font-size:233%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image018.png" style='position:absolute;top:60.95%;
-left:50.72%;width:9.93%;height:3.53%'><img border=0 src="slide0002_image019.png"
-style='position:absolute;top:62.72%;left:54.03%;width:4.37%;height:28.97%'><img
-border=0 src="slide0002_image020.png" style='position:absolute;top:61.13%;
-left:79.86%;width:10.86%;height:3.53%'><img border=0
-src="slide0002_image021.png" style='position:absolute;top:62.36%;left:83.97%;
-width:4.1%;height:28.79%'>
-<div style='position:absolute;top:92.93%;left:21.72%;width:9.27%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:12.85%;width:85.71%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD1</span><span
-style='font-family:Arial;font-size:150%;color:#484848;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:83.33%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#484848;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:92.75%;left:51.78%;width:9.27%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:12.85%;width:85.71%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD2<br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:83.33%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:92.93%;left:80.79%;width:10.99%;height:5.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;position:absolute;top:15.62%;left:12.04%;width:87.95%;
-height:68.75%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD80</span></div>
-</div>
-<div style='position:absolute;top:90.45%;left:64.1%;width:17.74%;height:17.49%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:6.06%;left:7.46%;width:92.53%;
-height:88.88%'>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.86%'><span
-style='font-family:Arial;font-size:300%;color:#FFFF99'>+ � +<br>
-</span></div>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:50.0%;left:0%;width:83.87%;height:48.86%'><span
-style='font-family:Arial;font-size:300%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:62.89%;left:4.9%;width:6.49%;height:12.36%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:7.14%;left:20.4%;width:73.46%;
-height:84.28%'>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:49.15%'><span
-style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F2<br>
-</b></span></div>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:50.84%;left:0%;width:83.33%;height:49.15%'><span
-style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><b><br>
-</b></span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image022.png" style='position:absolute;top:54.24%;
-left:18.01%;width:75.62%;height:1.06%'><img border=0
-src="slide0002_image023.png" style='position:absolute;top:54.06%;left:17.88%;
-width:.66%;height:3.88%'><img border=0 src="slide0002_image024.png"
-style='position:absolute;top:54.24%;left:32.45%;width:.52%;height:3.88%'><img
-border=0 src="slide0002_image025.png" style='position:absolute;top:54.24%;
-left:48.07%;width:.52%;height:4.06%'><img border=0 src="slide0002_image026.png"
-style='position:absolute;top:54.24%;left:62.78%;width:.52%;height:4.06%'><img
-border=0 src="slide0002_image027.png" style='position:absolute;top:54.24%;
-left:77.74%;width:.52%;height:4.06%'><img border=0 src="slide0002_image028.png"
-style='position:absolute;top:54.59%;left:92.71%;width:.52%;height:3.71%'><img
-border=0 src="slide0002_image029.png" style='position:absolute;top:44.87%;
-left:49.13%;width:.79%;height:10.07%'><img border=0 src="slide0002_image030.png"
-style='position:absolute;top:57.59%;left:15.89%;width:4.23%;height:11.83%'><img
-border=0 src="slide0002_image031.png" style='position:absolute;top:57.59%;
-left:30.86%;width:4.37%;height:11.83%'><img border=0
-src="slide0002_image032.png" style='position:absolute;top:57.59%;left:46.35%;
-width:4.23%;height:11.83%'><img border=0 src="slide0002_image033.png"
-style='position:absolute;top:57.59%;left:60.92%;width:4.23%;height:11.83%'><img
-border=0 src="slide0002_image034.png" style='position:absolute;top:57.59%;
-left:75.62%;width:4.23%;height:11.83%'><img border=0
-src="slide0002_image035.png" style='position:absolute;top:57.59%;left:90.86%;
-width:4.23%;height:11.83%'><img border=0 src="slide0002_image036.png"
-style='position:absolute;top:84.09%;left:56.42%;width:1.98%;height:1.41%'><img
-border=0 src="slide0002_image037.png" style='position:absolute;top:80.21%;
-left:25.96%;width:1.98%;height:11.83%'><img border=0
-src="slide0002_image038.png" style='position:absolute;top:84.98%;left:86.09%;
-width:1.85%;height:2.12%'>
-<div style='position:absolute;top:75.61%;left:1.58%;width:13.9%;height:13.78%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:7.69%;left:.95%;width:99.04%;
-height:85.89%'>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:7.69%;width:83.65%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'><b>BXD
-RI<br>
-</b></span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:32.83%;left:0%;width:100.0%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'><b>Strain
-set<br>
-</b></span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:67.16%;left:7.69%;width:83.65%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image039.png" style='position:absolute;top:12.36%;
-left:14.17%;width:10.59%;height:6.36%'><img border=0
-src="slide0002_image040.png" style='position:absolute;top:10.6%;left:76.42%;
-width:14.3%;height:8.3%'>
-<div style='position:absolute;top:20.84%;left:17.48%;width:9.53%;height:13.78%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:7.69%;left:6.94%;width:88.88%;
-height:85.89%'>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:7.81%;width:82.81%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>fully<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:32.83%;left:0%;width:100.0%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>inbred<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:67.16%;left:7.81%;width:82.81%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:38.16%;left:2.91%;width:11.78%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:3.37%;width:94.38%;
-height:81.81%'>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:0%;width:100.0%;
-height:48.88%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>isogenic<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:51.11%;left:8.33%;width:83.33%;
-height:48.88%'><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:54.41%;left:1.85%;width:12.18%;height:13.78%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:7.69%;left:2.17%;width:95.65%;
-height:85.89%'>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:7.95%;width:84.09%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>hetero-<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:32.83%;left:0%;width:100.0%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>geneous<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:67.16%;left:7.95%;width:84.09%;
-height:32.83%'><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:74.91%;left:29.0%;width:21.98%;height:21.73%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:4.06%;left:5.42%;width:89.15%;
-height:91.86%'>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:0%;width:100.0%;
-height:79.64%'><span style='position:absolute;top:0%;left:.67%;width:99.32%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>Recombined </span></span><span
-style='position:absolute;top:25.55%;left:.67%;width:99.32%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>chromosomes </span></span><span
-style='position:absolute;top:51.11%;left:0%;width:100.0%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>are needed for </span></span><span
-style='position:absolute;top:75.55%;left:.67%;width:99.32%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>mapping<br>
-</span></span></div>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:80.53%;left:.67%;width:99.32%;
-height:19.46%'><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:10.24%;left:25.56%;width:10.46%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:12.65%;width:87.34%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>female<br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:84.05%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:10.24%;left:64.5%;width:7.94%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:9.09%;left:15.0%;width:83.33%;
-height:81.81%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99'>male<br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:51.11%;left:0%;width:84.0%;height:48.88%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:30.56%;left:78.01%;width:19.47%;height:9.71%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:16.36%;left:6.12%;width:93.19%;
-height:74.54%'>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:41.46%'><span
-style='font-family:Arial;font-size:117%;color:#FFFF99'>chromosome pair</span><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:46.34%;left:0%;width:83.21%;height:53.65%'><span
-style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image041.png" style='position:absolute;top:31.09%;
-left:65.82%;width:12.84%;height:2.82%'>
-<div style='position:absolute;top:86.21%;left:3.97%;width:9.8%;height:14.13%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:5.0%;left:5.4%;width:90.54%;
-height:87.5%'>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:8.95%;width:82.08%;
-height:24.28%'><span style='font-family:Arial;font-size:117%;color:#E9EB5D'>Inbred<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:25.71%;left:0%;width:100.0%;
-height:24.28%'><span style='font-family:Arial;font-size:117%;color:#E9EB5D'>Isogenic<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:50.0%;left:4.47%;width:89.55%;
-height:24.28%'><span style='font-family:Arial;font-size:117%;color:#E9EB5D'>siblings</span><span
-style='font-family:Arial;font-size:117%;color:aqua;display:none'><br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:75.71%;left:8.95%;width:82.08%;
-height:24.28%'><span style='font-family:Arial;font-size:117%;color:aqua;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0002_image042.png" style='position:absolute;top:79.32%;
-left:83.84%;width:1.98%;height:11.83%'><img border=0
-src="slide0002_image043.png" style='position:absolute;top:84.8%;left:83.7%;
-width:1.85%;height:2.12%'><img border=0 src="slide0002_image044.png"
-style='position:absolute;top:79.85%;left:53.5%;width:1.98%;height:11.83%'><img
-border=0 src="slide0002_image045.png" style='position:absolute;top:83.92%;
-left:53.5%;width:1.98%;height:1.41%'><img border=0 src="slide0002_image046.png"
-style='position:absolute;top:80.21%;left:23.44%;width:1.98%;height:11.83%'>
-<div style='position:absolute;top:18.72%;left:43.04%;width:13.77%;height:9.54%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;position:absolute;top:11.11%;left:9.61%;width:90.38%;
-height:79.62%'><span style='font-family:Arial;font-size:300%;color:aqua'>B</span><span
-style='font-family:Arial;font-size:300%;color:#FFFF99'>X</span><span
-style='font-family:Arial;font-size:300%;color:#FF1911'>D</span></div>
-</div>
-<img border=0 src="slide0002_image047.png" style='position:absolute;top:27.2%;
-left:32.98%;width:31.39%;height:4.06%'><img border=0
-src="slide0002_image048.png" style='position:absolute;top:66.25%;left:60.92%;
-width:1.98%;height:3.18%'><img border=0 src="slide0002_image049.png"
-style='position:absolute;top:64.31%;left:15.89%;width:1.98%;height:5.3%'><img
-border=0 src="slide0002_image050.png" style='position:absolute;top:57.59%;
-left:75.62%;width:1.98%;height:5.65%'><img border=0 src="slide0002_image051.png"
-style='position:absolute;top:28.44%;left:48.87%;width:.92%;height:8.12%'><img
-border=0 src="slide0002_image052.png" style='position:absolute;top:62.19%;
-left:23.84%;width:3.57%;height:16.96%'><img border=0
-src="slide0002_image053.png" style='position:absolute;top:61.48%;left:63.17%;
-width:1.98%;height:8.12%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The next few slides
-  provide a short introduction to mapping the loci that are responsible for
-  variation in a trait such as App expression level. These modulatory regions
-  of the genome are sometimes called quantitative trait loci or QTLs. You may
-  want to do some independent reading on this topic if this is your first
-  exposure to QTL analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The genetic reference
-  population (GRP) of BXD recombinant inbred strains were originally generated
-  about 25 years ago by Benjamin Taylor at The Jackson Laboratory. He crossed
-  female C57BL/6J mice with male DBA/2J mice to generate the F1 and F2 progeny.
-  At the bottom of this slide we have schematized one chromosome pair from
-  three of the BXD RI strains.<span style="mso-spacerun: yes">&nbsp; </span>The
-  dashed vertical lines that lead to the final BXD RI lines involve 21 full sib
-  matings (about 7 years of breeding). Some lines die out during inbreeding.
-  For example, there is no longer any BXD3 strain.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>1. Over the last decade,
-  our group (Lu Lu and Rob Williams) and Jeremy Peirce and Lee Silver at
-  Princeton have enlarged Ben Taylor�s set. There are now just over 80 BXD
-  strains. They have all been genotyped using about 13,700 markers (SNPs and
-  microsatellites). These markers are used to define the �blue� and �red�
-  regions of the chromosomes as shown in the figure above.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2. Chromosomes of RI GRPs
-  usually have about 4 times as many recombinations as those of F2 animals.
-  However, unlike an F2, both chromosomes of an RI are identical. Therefore, 50
-  RI strains contain as many recombinations as 100 F2 animals.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>3. BXD43 through BXD100
-  were generated using a special method that resulted in a further doubling of
-  the average recombination density per chromosome. The entire set of 80 BXDs
-  therefore contains as many recombinations as about 260 F2 animals.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002_notes_pane.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0002_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The next few slides
-  provide a short introduction to mapping the loci that are responsible for
-  variation in a trait such as App expression level. These modulatory regions
-  of the genome are sometimes called quantitative trait loci or QTLs. You may
-  want to do some independent reading on this topic if this is your first
-  exposure to QTL analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The genetic reference
-  population (GRP) of BXD recombinant inbred strains were originally generated
-  about 25 years ago by Benjamin Taylor at The Jackson Laboratory. He crossed
-  female C57BL/6J mice with male DBA/2J mice to generate the F1 and F2 progeny.
-  At the bottom of this slide we have schematized one chromosome pair from
-  three of the BXD RI strains.<span style="mso-spacerun: yes">&nbsp; </span>The
-  dashed vertical lines that lead to the final BXD RI lines involve 21 full sib
-  matings (about 7 years of breeding). Some lines die out during inbreeding.
-  For example, there is no longer any BXD3 strain.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. Over the last decade,
-  our group (Lu Lu and Rob Williams) and Jeremy Peirce and Lee Silver at
-  Princeton have enlarged Ben Taylor�s set. There are now just over 80 BXD
-  strains. They have all been genotyped using about 13,700 markers (SNPs and
-  microsatellites). These markers are used to define the �blue� and �red�
-  regions of the chromosomes as shown in the figure above.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. Chromosomes of RI GRPs
-  usually have about 4 times as many recombinations as those of F2 animals.
-  However, unlike an F2, both chromosomes of an RI are identical. Therefore, 50
-  RI strains contain as many recombinations as 100 F2 animals.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. BXD43 through BXD100
-  were generated using a special method that resulted in a further doubling of
-  the average recombination density per chromosome. The entire set of 80 BXDs
-  therefore contains as many recombinations as about 260 F2 animals.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
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-gId="slide0003.htm"
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-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
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-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0003_image054.png" style='position:absolute;top:40.45%;
-left:73.24%;width:14.56%;height:5.3%'>
-<div class=O style='position:absolute;top:40.81%;left:74.56%;width:11.92%;
-height:7.24%'>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:60.97%'><span
-style='font-family:Gadget;font-size:150%;color:white'>aa<br>
-</span></div>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:41.46%;left:0%;width:100.0%;height:60.97%'><span
-style='font-family:Gadget;font-size:150%;color:white;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<img border=0 src="slide0003_image055.png" style='position:absolute;top:16.6%;
-left:73.24%;width:14.56%;height:5.3%'>
-<div class=O style='position:absolute;top:16.96%;left:74.56%;width:11.92%;
-height:7.24%'>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:60.97%'><span
-style='font-family:Gadget;font-size:150%;color:white'>aaaa<br>
-</span></div>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:41.46%;left:0%;width:100.0%;height:60.97%'><span
-style='font-family:Gadget;font-size:150%;color:white;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:20.31%;left:71.65%;width:25.96%;height:19.43%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:10.0%;left:5.1%;width:95.4%;
-height:84.54%'>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:45.16%'><span
-style='font-size:267%;color:#E2EBF0'>D2 strain</span><span style='font-family:
-Palatino;font-size:333%;color:#FBFDB8;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:49.46%;left:0%;width:88.77%;height:50.53%'><span
-style='font-family:Palatino;font-size:333%;color:#FBFDB8;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:43.81%;left:71.65%;width:25.56%;height:19.43%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:10.9%;left:5.18%;width:94.81%;
-height:84.54%'>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:45.16%'><span
-style='font-size:267%;color:#F6BF69'>B6 strain</span><span style='font-family:
-Palatino;font-size:333%;color:#F6BF69;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:48.38%;left:0%;width:87.43%;height:50.53%'><span
-style='font-family:Palatino;font-size:333%;color:#F6BF69;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0003_image056.png" style='position:absolute;top:17.31%;
-left:31.25%;width:1.32%;height:42.22%'><img border=0
-src="slide0003_image057.png" style='position:absolute;top:40.63%;left:31.39%;
-width:39.86%;height:3.53%'>
-<div style='position:absolute;top:20.67%;left:38.27%;width:30.19%;height:26.32%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:6.04%;left:4.38%;width:92.1%;
-height:89.93%'>
-<div style='mso-line-spacing:"-320 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:58.2%'><span
-style='position:absolute;top:0%;left:0%;width:100.0%'><span style='font-size:
-233%;color:#E9EB5D'><i>amount of </i></span></span><span style='position:absolute;
-top:53.84%;left:0%;width:100.0%'><span style='font-size:233%;color:#E9EB5D'><i>transcript</i></span><span
-style='font-family:Palatino;font-size:367%;color:#E9EB5D;display:none'><br>
-</span></span></div>
-<div style='mso-line-spacing:"-422 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:61.19%;left:0%;width:100.0%;height:38.8%'><span
-style='font-family:Palatino;font-size:367%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:6.0%;left:72.45%;width:21.05%;height:19.43%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:10.0%;left:6.28%;width:88.67%;
-height:84.54%'>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:45.16%'><span
-style='font-size:267%;color:white'>4 </span><span style='font-size:233%;
-color:white'>units</span><span style='font-family:Palatino;font-size:333%;
-color:#E9EB5D;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:49.46%;left:0%;width:100.0%;height:50.53%'><span
-style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div style='position:absolute;top:29.5%;left:72.45%;width:21.05%;height:19.43%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:10.9%;left:6.28%;width:88.67%;
-height:84.54%'>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:45.16%'><span
-style='font-size:267%;color:white'>2</span><span style='font-size:233%;
-color:white'> units</span><span style='font-family:Palatino;font-size:333%;
-color:#E9EB5D;display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:48.38%;left:0%;width:100.0%;height:50.53%'><span
-style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<img border=0 src="slide0003_image058.png" style='position:absolute;top:15.72%;
-left:31.25%;width:40.26%;height:5.47%'>
-<div class=O style='position:absolute;top:17.84%;left:9.93%;width:4.76%;
-height:16.43%'>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:50.53%'><span
-style='font-size:300%;color:#E2EBF0'>D<br>
-</span></div>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:49.46%;left:0%;width:83.33%;height:50.53%'><span
-style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-<div class=O style='position:absolute;top:17.84%;left:17.88%;width:4.23%;
-height:16.43%'>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:50.53%'><span
-style='font-size:300%;color:#F6BF69'>B<br>
-</span></div>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:49.46%;left:0%;width:84.37%;height:50.53%'><span
-style='font-size:300%;color:#F6BF69;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:79.5%;left:5.43%;width:104.1%;height:13.6%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=O style='mso-line-spacing:"-256 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;position:absolute;top:3.89%;left:1.27%;width:98.72%;
-height:93.5%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-size:233%;color:#E2EBF0'>D</span><span style='font-size:233%;
-color:#E9EB5D'> </span><span style='font-size:200%;color:#E9EB5D'>and </span><span
-style='font-size:233%;color:#F6BF69'>B</span><span style='font-size:233%;
-color:#E9EB5D'> </span><span style='font-size:200%;color:#E9EB5D'>may be
-SNP-like variants in the promoter </span></span><span style='position:absolute;
-top:34.72%;left:0%;width:99.74%'><span style='font-size:200%;color:#E9EB5D'>itself
-(cis QTL) or in </span><span style='font-size:200%;color:#EAEC5E'>upstream
-genes (trans QTLs)</span><span style='font-size:300%;color:#E9EB5D'>.</span></span></div>
-</div>
-<div class=O style='position:absolute;top:7.59%;left:4.23%;width:22.78%;
-height:16.25%'>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:0%;left:1.74%;width:97.09%;
-height:33.69%'><span style='font-size:200%;color:#E9EB5D'>UPSTREAM<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:32.6%;left:0%;width:100.0%;
-height:33.69%'><span style='font-size:200%;color:#E9EB5D'>modulators<br>
-</span></div>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17;position:absolute;top:66.3%;left:4.65%;width:90.69%;
-height:33.69%'><span style='font-size:200%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:7.59%;left:44.5%;width:16.95%;height:17.84%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:3.96%;left:7.03%;width:85.15%;
-height:92.07%'>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:0%;left:0%;width:100.0%;height:50.53%'><span
-style='font-size:300%;color:#E2EBF0'>High<br>
-</span></div>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16;position:absolute;top:49.46%;left:0%;width:100.0%;height:50.53%'><span
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-17;position:absolute;top:49.46%;left:0%;width:83.33%;height:50.53%'><span
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-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
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-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
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-  <td align=left colspan=1><font face=Helvetica size=3>This slide is
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-  trait. For example, a polymorphism in the promoter that affects binding of a
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-  in the gene itself. The most blatant type of trans QTL would be a
-  polymorphism in a transcription factor. But in the majority of cases, the
-  trans QTLs can be far removed in a mechanistic sense from the actual events
-  modulating transcript abundance. That is why there are three overlapping
-  arrows in the figure.<span style="mso-spacerun: yes">&nbsp; </span>The way in
-  which an upstream polymorphism influences a downstream difference in mRNA
-  abundance can be indirect. Effects can:</font><br>
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-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0004_image063.png" style='position:absolute;top:38.86%;
-left:5.03%;width:84.9%;height:45.75%'>
-<div style='position:absolute;top:5.47%;left:2.51%;width:93.64%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:20.4%;
-left:1.41%;width:97.31%;height:75.51%'><span style='font-family:Verdana;
-font-size:64%'>Discovering upstream modulatory loci</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0004_image064.png" style='position:absolute;top:20.31%;
-left:18.01%;width:19.2%;height:25.97%'><img border=0
-src="slide0004_image065.png" style='position:absolute;top:32.5%;left:78.01%;
-width:19.2%;height:25.97%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Please bring the Trait
-  Data and Analysis window to the front and look for the Interval Mapping
-  button. Confirm that you are back to the trait amyloid beta precursor
-  protein.<span style="mso-spacerun: yes">&nbsp; </span>If so, then just click
-  the button.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Notice that the default
-  for:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Select Chrs (chromosomes)
-  is ALL</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Select Mapping Scale is
-  set to GENETIC</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Options: Permutation test
-  YES<span style="mso-spacerun: yes">&nbsp; </span>(2000 is the default number)</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Options: Bootstrap test
-  YES (2000 is the default number)</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Please bring the Trait
-  Data and Analysis window to the front and look for the Interval Mapping
-  button. Confirm that you are back to the trait amyloid beta precursor
-  protein.<span style="mso-spacerun: yes">&nbsp; </span>If so, then just click
-  the button.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notice that the default
-  for:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Select Chrs (chromosomes)
-  is ALL</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Select Mapping Scale is
-  set to GENETIC</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Options: Permutation test
-  YES<span style="mso-spacerun: yes">&nbsp; </span>(2000 is the default number)</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Options: Bootstrap test
-  YES (2000 is the default number)</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description
-content="Aug-15-05: WebQTL searches for upstream controllers">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0005.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
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-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
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-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-.53%;left:1.72%;width:101.19%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.91%;width:98.95%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'><i>WebQTL
-searches for upstream controllers</i></span><span style='font-family:Verdana;
-font-size:73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<div style='position:absolute;top:71.02%;left:34.96%;width:45.96%;height:19.78%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:3.57%;left:2.3%;width:97.69%;
-height:91.96%'><span style='position:absolute;top:0%;left:0%;width:98.82%'><span
-style='font-size:167%;color:#E9EB5D'><i>App maps on Chr 16 (blue </i></span></span><span
-style='position:absolute;top:25.24%;left:0%;width:100.0%'><span
-style='font-size:167%;color:#E9EB5D'><i>arrow points to the orange </i></span></span><span
-style='position:absolute;top:49.51%;left:0%;width:86.72%'><span
-style='font-size:167%;color:#E9EB5D'><i>triangle) but the best </i></span></span><span
-style='position:absolute;top:74.75%;left:0%;width:86.72%'><span
-style='font-size:167%;color:#E9EB5D'><i>locus is on Chr 7.</i></span><span
-style='font-size:233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-</div>
-<img border=0 src="slide0005_image066.png" style='position:absolute;top:8.83%;
-left:1.19%;width:98.27%;height:53.88%'><img border=0
-src="slide0005_image067.png" style='position:absolute;top:46.64%;left:15.76%;
-width:15.89%;height:53.35%'><img border=0 src="slide0005_image068.png"
-style='position:absolute;top:46.64%;left:80.0%;width:10.99%;height:53.35%'><img
-border=0 src="slide0005_image069.png" style='position:absolute;top:41.34%;
-left:76.02%;width:11.65%;height:22.79%'><img border=0
-src="slide0005_image070.png" style='position:absolute;top:41.51%;left:29.13%;
-width:12.71%;height:24.38%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>This is a major output
-  type: a so-called full-genome interval map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The X-axis represents all
-  19 autosomes and the X chromosome as if they were laid end to end with short
-  gaps between the telomere of one chromosome and the centromere of the next
-  chromosome (mouse chromosomes only have a single long arm and the centromere
-  represents the origin of each chromosome for numerical purpose: 0
-  centimorgans at almost 0 megabases). The blue labels along the bottom of the
-  figure list a subset of the 3795 markers that were used in mapping.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The thick blue wavy line
-  running across chromosomes summarizes the strength of association between
-  variation in the phenotype (App expression differences) and the two genotypes
-  of all markers and the intervals between markers (hence, interval mapping).<span
-  style="mso-spacerun: yes">&nbsp; </span>The height of the wave (blue Y-axis
-  to the left) provides the likelihood ratio statistic (LRS). Divide by 4.61 to
-  convert these values to LOD scores.<span style="mso-spacerun: yes">&nbsp;
-  </span>Or you can read them as a chi-square-like statistic.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The red line and the red
-  axis to the far right provide an estimate of the effect that a QTL has on
-  expression of App (this estimate of the so-called additive effect tends to be
-  too high). If the red line is below the X-axis then this means that the allele
-  inherited from C57BL/6J (B6 or B) at a particular marker is associated with
-  higher values. If the red line is above the X-axis then the DBA/2J allele (D2
-  or D) is associated with higher trait values. Multiply the additive effect
-  size by 2 to estimate the difference between the set of strains that have the
-  B/B genotype and those that have the D/D genotype at a specific marker. For
-  example, on distal Chr 7 the red line peaks at a value of about 0.2. That
-  means that this region of chromosome 2 is responsible for a 0.4 unit
-  expression difference between B/B strains and the D/D strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The yellow histogram bars:
-  These summarize the results of a whole-genome bootstrap of the trait that is
-  performed 1000 times. What is a bootstrap? A bootstrap provides a method to
-  evaluate whether results are robust. If we drop out one strain, do we still
-  get the same results? When mapping quantitative traits, each strain normally
-  gets one equally weighted vote. But using the bootstrap procedure, we give
-  each strain a random weighting factor of between 0 and 1.<span
-  style="mso-spacerun: yes">&nbsp; </span>We then remap the trait and find THE
-  SINGLE BEST LRS VALUE per bootstrap. We do this 1000 times. In this example,
-  most bootstrap results cluster on Chr 3 and Chr 7 under the LRS peaks. That
-  is somewhat reassuring. But notice that a substantial number of bootstrap are
-  scattered around on other chromosomes. About 30% of the bootstrap resamples
-  have a peak on Chr 7. That is pretty good, but does makes us realize that the
-  sample we are working with is still quite small and fragile.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The horizontal dashed
-  lines at 10.5 and 17.3 are the likelihood ratio statistic (LRS) values
-  associated with the suggestive and significant genome-wide probabilities that
-  were established by permutations of phenotypes across genotypes. We shuffle
-  randomly 2000 times and obtain a distribution of peak LRS scores to generate
-  a null distribution. Five percent of the time, one of these permuted data
-  sets will have a peak LRS higher than 17.3. We call that level the 0.05
-  significance threshold for a whole genome scan. The p = 0.67 point is the
-  suggestive level, and corresponds to the green dashed line.<span
-  style="mso-spacerun: yes">&nbsp; </span>These thresholds are conservative for
-  transcripts that have expression variation that is highly heritable. The putative
-  or suggestive QTL on Chr 3 is probably more than just suggestive.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>One other point: the
-  mapping procedure we use is computationally very fast, but it is relatively
-  simple. We are not looking for gene-gene interactions and we are not fitting
-  multiple QTLs in combinations. Consider this QTL analysis a first pass that
-  will highlight hot spots and warm spots that are worth following up on using
-  more sophisticated models.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>CLICKABLE REGIONS:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>1. If you click on the
-  Chromosome number then you will generate a new map just for that chromosome.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2. If you click on the
-  body of the map, say on the blue line, then you will generate a view on a 10
-  Mb window of that part of the genome from the UCSC Genome Browser web site.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>3. If you click on a
-  marker symbol, then you will generate a new Trait data and Analysis window
-  with the genotypes loaded into the window just like any other trait. More on
-  this in Section 3.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>4. You can drag these maps
-  off of the browser window and onto your desktop. They will be saved as PNG or
-  PDF files. You can import them into Photoshop or other programs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>5. There is also an option
-  at the bottom of the page to download a 2X higher resolution image of this
-  plot for papers and presentations.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>6. You can also download
-  the results of the analysis in a text format</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>This is a major output
-  type: a so-called full-genome interval map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The X-axis represents all
-  19 autosomes and the X chromosome as if they were laid end to end with short
-  gaps between the telomere of one chromosome and the centromere of the next
-  chromosome (mouse chromosomes only have a single long arm and the centromere
-  represents the origin of each chromosome for numerical purpose: 0
-  centimorgans at almost 0 megabases). The blue labels along the bottom of the
-  figure list a subset of the 3795 markers that were used in mapping.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The thick blue wavy line
-  running across chromosomes summarizes the strength of association between
-  variation in the phenotype (App expression differences) and the two genotypes
-  of all markers and the intervals between markers (hence, interval mapping).<span
-  style="mso-spacerun: yes">&nbsp; </span>The height of the wave (blue Y-axis
-  to the left) provides the likelihood ratio statistic (LRS). Divide by 4.61 to
-  convert these values to LOD scores.<span style="mso-spacerun: yes">&nbsp;
-  </span>Or you can read them as a chi-square-like statistic.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The red line and the red
-  axis to the far right provide an estimate of the effect that a QTL has on
-  expression of App (this estimate of the so-called additive effect tends to be
-  too high). If the red line is below the X-axis then this means that the allele
-  inherited from C57BL/6J (B6 or B) at a particular marker is associated with
-  higher values. If the red line is above the X-axis then the DBA/2J allele (D2
-  or D) is associated with higher trait values. Multiply the additive effect
-  size by 2 to estimate the difference between the set of strains that have the
-  B/B genotype and those that have the D/D genotype at a specific marker. For
-  example, on distal Chr 7 the red line peaks at a value of about 0.2. That
-  means that this region of chromosome 2 is responsible for a 0.4 unit
-  expression difference between B/B strains and the D/D strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The yellow histogram bars:
-  These summarize the results of a whole-genome bootstrap of the trait that is
-  performed 1000 times. What is a bootstrap? A bootstrap provides a method to
-  evaluate whether results are robust. If we drop out one strain, do we still
-  get the same results? When mapping quantitative traits, each strain normally
-  gets one equally weighted vote. But using the bootstrap procedure, we give
-  each strain a random weighting factor of between 0 and 1.<span
-  style="mso-spacerun: yes">&nbsp; </span>We then remap the trait and find THE
-  SINGLE BEST LRS VALUE per bootstrap. We do this 1000 times. In this example,
-  most bootstrap results cluster on Chr 3 and Chr 7 under the LRS peaks. That
-  is somewhat reassuring. But notice that a substantial number of bootstrap are
-  scattered around on other chromosomes. About 30% of the bootstrap resamples
-  have a peak on Chr 7. That is pretty good, but does makes us realize that the
-  sample we are working with is still quite small and fragile.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The horizontal dashed
-  lines at 10.5 and 17.3 are the likelihood ratio statistic (LRS) values
-  associated with the suggestive and significant genome-wide probabilities that
-  were established by permutations of phenotypes across genotypes. We shuffle
-  randomly 2000 times and obtain a distribution of peak LRS scores to generate
-  a null distribution. Five percent of the time, one of these permuted data
-  sets will have a peak LRS higher than 17.3. We call that level the 0.05
-  significance threshold for a whole genome scan. The p = 0.67 point is the
-  suggestive level, and corresponds to the green dashed line.<span
-  style="mso-spacerun: yes">&nbsp; </span>These thresholds are conservative for
-  transcripts that have expression variation that is highly heritable. The putative
-  or suggestive QTL on Chr 3 is probably more than just suggestive.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>One other point: the
-  mapping procedure we use is computationally very fast, but it is relatively
-  simple. We are not looking for gene-gene interactions and we are not fitting
-  multiple QTLs in combinations. Consider this QTL analysis a first pass that
-  will highlight hot spots and warm spots that are worth following up on using
-  more sophisticated models.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>CLICKABLE REGIONS:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. If you click on the
-  Chromosome number then you will generate a new map just for that chromosome.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. If you click on the
-  body of the map, say on the blue line, then you will generate a view on a 10
-  Mb window of that part of the genome from the UCSC Genome Browser web site.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. If you click on a
-  marker symbol, then you will generate a new Trait data and Analysis window
-  with the genotypes loaded into the window just like any other trait. More on
-  this in Section 3.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4. You can drag these maps
-  off of the browser window and onto your desktop. They will be saved as PNG or
-  PDF files. You can import them into Photoshop or other programs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5. There is also an option
-  at the bottom of the page to download a 2X higher resolution image of this
-  plot for papers and presentations.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>6. You can also download
-  the results of the analysis in a text format</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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@@ -1,25 +0,0 @@
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-<script>
-if ( ! top.PPTPRESENTATION ) {
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-</script>
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-content="Aug-15-05: Genetic versus Physical maps for App expression">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
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-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-.53%;left:1.72%;width:116.02%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.79%;width:99.2%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'><i>Genetic
-versus Physical maps for App expression</i></span><span style='font-family:
-Verdana;font-size:73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0006_image071.png" style='position:absolute;top:8.83%;
-left:1.72%;width:98.27%;height:39.92%'><img border=0
-src="slide0006_image072.png" style='position:absolute;top:35.51%;left:1.85%;
-width:98.27%;height:54.06%'>
-<div class=O style='position:absolute;top:91.69%;left:5.96%;width:95.23%;
-height:7.42%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-size:117%;color:#E9EB5D'><i>The difference between genetic and
-physical scale is analogous to measuring the </i></span></span><span
-style='position:absolute;top:42.85%;left:0%;width:96.66%'><span
-style='font-size:117%;color:#E9EB5D'><i>separation between New York and Boston
-in either travel hours or kilometers</i></span><span style='font-size:150%;
-color:#E9EB5D'><i>.</i></span><span style='font-size:167%;color:#E9EB5D;
-mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The map on the top has an
-  X-axis scale based on frequency of recombinations events between markers (B
-  to D transitions, see slide 19 for a color-coded example). These so-called
-  genetic maps are scaled in centimorgan (recombinations per 100 gametes). In contrast,
-  the physical map shown below the genetic map has an X-axis scale based on DNA
-  length measured in nucleotides or base-pairs. Notice the large difference
-  between the two maps in the size of Chr 19 (large on the genetic scale but
-  small on the physical scale).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Also notice the large
-  difference in the width of the chromosome 7 QTL peak. In mice, recombinations
-  occur with higher frequency toward the telomeric side (right side) of each
-  chromosome. As a result, genetic maps are stretched out more toward the
-  telomere relative to a physical map. The QTL on distal Chr 7 is therefore
-  actually more precisely mapped than might appear looking at the genetic map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>The physical scale is
-  becoming more useful than the genetic scale primarily because many other data
-  types can be easily superimposed on a physical map. You will see more
-  examples in the next several slides.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
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-<script>
-if ( ! top.PPTPRESENTATION ) {
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-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The map on the top has an
-  X-axis scale based on frequency of recombinations events between markers (B
-  to D transitions, see slide 19 for a color-coded example). These so-called
-  genetic maps are scaled in centimorgan (recombinations per 100 gametes). In contrast,
-  the physical map shown below the genetic map has an X-axis scale based on DNA
-  length measured in nucleotides or base-pairs. Notice the large difference
-  between the two maps in the size of Chr 19 (large on the genetic scale but
-  small on the physical scale).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Also notice the large
-  difference in the width of the chromosome 7 QTL peak. In mice, recombinations
-  occur with higher frequency toward the telomeric side (right side) of each
-  chromosome. As a result, genetic maps are stretched out more toward the
-  telomere relative to a physical map. The QTL on distal Chr 7 is therefore
-  actually more precisely mapped than might appear looking at the genetic map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The physical scale is
-  becoming more useful than the genetic scale primarily because many other data
-  types can be easily superimposed on a physical map. You will see more
-  examples in the next several slides.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-.53%;left:1.72%;width:101.05%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.91%;width:97.9%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'>Physical map for
-distal chromosome 7</span><span style='font-family:Verdana;font-size:73%;
-mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<div style='position:absolute;top:7.77%;left:5.82%;width:94.03%;height:6.18%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:11.42%;left:1.12%;width:98.87%;
-height:74.28%'><span style='font-size:167%;color:#E9EB5D'>Distal Chr 7 from
-~120 and 132 Mb may modulate</span><span style='font-size:167%;color:#E9EB5D'><i>
-App</i></span><span style='font-size:200%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0007_image073.png" style='position:absolute;top:93.28%;
-left:6.62%;width:75.23%;height:3.71%'><img border=0 src="slide0007_image075.png"
-style='position:absolute;top:15.54%;left:6.62%;width:68.34%;height:75.61%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Physical map of variation
-  in App expression in brain on distal Chr 7 (a blow up of the whole-genome map
-  on the previous slide).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Verdana
-  size=3> You can now see that the X-axis is on a physical scale of megabases
-  (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2. The small irregular
-  colored blocks and marks toward the top of the map mark the locations of
-  genes superimposed on the physical map. Neighboring genes are offset slightly
-  in the vertical axis for display purpose. Note one region of very high gene
-  density from about 120 to 123 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>3. The orange hash marks
-  along the X-axis represent the number of single nucleotide polymorphisms that
-  distinguish the two parental strains (C57BL/6J and DBA/2J) from each other.
-  We call this the SNP seismograph track (see Glossary for more details). Regions
-  with low numbers of SNPs have closely matched sequences and are less likely
-  to contain QTLs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>4. As before, the thin red
-  line shows the additive effect size. By convention the positive values
-  signify the D alleles are associated with higher expression of App in this
-  region of Chr 7 than the B alleles. The maximum effect size is about +0.20
-  log2 expression units per D allele. The differences been the BB and DD
-  genotypes (BB and DD because each strain has two alleles; one per chromosome)
-  is therefore about 2^0.4 = 1.32 or a 32% increment in DD relative to BB at
-  this locus.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>5. If you scroll just
-  under the Physical Map you will see text that reads �DISPLAY from XXX Mb TO
-  YYY Mb�..�<span style="mso-spacerun: yes">&nbsp; </span>These physical maps
-  are zoomable, a feature we will exploit to evaluate candidate genes in this
-  QTL interval.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image016.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image016.png
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+++ /dev/null
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deleted file mode 100755
index 9a3e3264..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image075.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_notes_pane.htm
deleted file mode 100755
index 24c42724..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Physical map of variation
-  in App expression in brain on distal Chr 7 (a blow up of the whole-genome map
-  on the previous slide).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Verdana
-  size=2> You can now see that the X-axis is on a physical scale of megabases
-  (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. The small irregular
-  colored blocks and marks toward the top of the map mark the locations of
-  genes superimposed on the physical map. Neighboring genes are offset slightly
-  in the vertical axis for display purpose. Note one region of very high gene
-  density from about 120 to 123 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. The orange hash marks
-  along the X-axis represent the number of single nucleotide polymorphisms that
-  distinguish the two parental strains (C57BL/6J and DBA/2J) from each other.
-  We call this the SNP seismograph track (see Glossary for more details). Regions
-  with low numbers of SNPs have closely matched sequences and are less likely
-  to contain QTLs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4. As before, the thin red
-  line shows the additive effect size. By convention the positive values
-  signify the D alleles are associated with higher expression of App in this
-  region of Chr 7 than the B alleles. The maximum effect size is about +0.20
-  log2 expression units per D allele. The differences been the BB and DD
-  genotypes (BB and DD because each strain has two alleles; one per chromosome)
-  is therefore about 2^0.4 = 1.32 or a 32% increment in DD relative to BB at
-  this locus.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5. If you scroll just
-  under the Physical Map you will see text that reads �DISPLAY from XXX Mb TO
-  YYY Mb�..�<span style="mso-spacerun: yes">&nbsp; </span>These physical maps
-  are zoomable, a feature we will exploit to evaluate candidate genes in this
-  QTL interval.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008.htm
deleted file mode 100755
index 8a9290b6..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content="Aug-15-05: Evaluating candidate genes">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
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-	width:6.0in !important;
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-	font-size:76% !important;}
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-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0008.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0008_image076.png" style='position:absolute;top:34.09%;
-left:1.72%;width:97.48%;height:61.48%'>
-<div style='position:absolute;top:-1.06%;left:.79%;width:93.64%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:18.36%;
-left:1.41%;width:97.31%;height:75.51%'><span style='font-family:Verdana;
-font-size:64%'>Evaluating candidate genes</span><span style='font-family:Verdana;
-font-size:73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0008_image077.png" style='position:absolute;top:8.83%;
-left:1.72%;width:34.83%;height:22.61%'>
-<div style='position:absolute;top:3.35%;left:69.53%;width:33.9%;height:17.84%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:3.96%;left:2.73%;width:93.75%;
-height:91.08%'>
-<div style='text-align:center;position:absolute;top:0%;left:0%;width:100.0%;
-height:33.69%'><span style='font-size:200%;color:#E9EB5D'><i>Right
-position<br>
-</i></span></div>
-<div style='text-align:center;position:absolute;top:32.6%;left:0%;width:100.0%;
-height:67.39%'><span style='position:absolute;top:0%;left:.41%;width:100.0%'><span
-style='font-size:200%;color:#E9EB5D'><i>and high </i></span></span><span
-style='position:absolute;top:50.0%;left:0%;width:100.0%'><span
-style='font-size:200%;color:#E9EB5D'><i>correlation</i></span></span></div>
-</div>
-</div>
-<div style='position:absolute;top:17.84%;left:75.89%;width:21.72%;height:14.31%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:3.7%;left:0%;width:100.0%;height:
-88.88%'>
-<div style='text-align:center;position:absolute;top:0%;left:6.7%;width:86.58%;
-height:58.33%'><span style='font-size:267%;color:#E9EB5D'><i><span
-style="mso-spacerun: yes">&nbsp;</span></i></span><span style='font-size:200%;
-color:#E9EB5D'><i>= better<br>
-</i></span></div>
-<div style='text-align:center;position:absolute;top:56.94%;left:0%;width:100.0%;
-height:43.05%'><span style='font-size:200%;color:#E9EB5D'><i>candidates</i></span></div>
-</div>
-</div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4><b>Evaluating
-  candidate genes (CHECKED BOXES) responsible for variability in APP
-  expression:</b></font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>A large number
-  of genes are usually in the QTL interval and are therefore POSITIONAL
-  CANDIDATES, but they will differ greatly in their biological and
-  bioinformatic plausibility. Assume that the QTL has been located between 119
-  and 131 Mb (12 Mb). There will typically be 12 to 15 genes per Mb, so we
-  might need to evaluate several hundred positional candidates. In this
-  particular case there are about 100 known genes in this interval. Eight of
-  these are highlighted in the table above with check marks in the boxes to the
-  left.<span style="mso-spacerun: yes">&nbsp; </span>We need to highlight and
-  objectively score the biologically relevant subset of all 100 positional
-  candidate genes. We could look through gene ontologies and expression levels
-  to help us shorten the list. An alternate way available using WebQTL is to
-  generate a list of those genes in this interval that have transcripts that
-  co-vary in expression with App expression. That is what the table shows.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. To replicate
-  this table go back to the Trait Data and Analysis Form. Choose to sort
-  correlations by POSITION and select RETURN = 500. Then scroll down the list
-  to Chr 7 and review the subset of positional candidates that share expression
-  with App. You should see a list similar to that shown above. Gtf3c1 is a good
-  biological candidate and has a high covariation in expression with App.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>2. Caveat:<span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>Of course, the gene or genes
-  that control App expression may not be in this list. A protein coding
-  difference might be the ultimate cause of variation in App transcript level
-  and the expression covariation might be close to zero. Our list may also
-  simply be missing the right transcript since the microarray is not truly
-  comprehensive. Furthermore, even if the list contains the QTL gene, an
-  expression difference may only have been expressed early in development or
-  even in another tissue such as liver. While it is important to recognize
-  these caveats, it is equally important to devise a rational way to rank
-  candidates given existing data. Coexpression is one of several criteria used
-  to evaluate positional candidates. We will see others in the next slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>3. We can also
-  assess the likelihood that candidates contain functional polymorphism in
-  promoters and enhancers that affect their expression simply by mapping the
-  transcripts of all candidate genes to see if they �map back� to the location
-  of gene itself. A transcript that maps to its own location is referred to as
-  a cis QTL. We essentially ask: Which of the transcripts listed in the
-  Correlation Table above (from Gtf3c1 to Zranb1) has variation in expression
-  that maps to Chr 7 at about 120 Mb?<span style="mso-spacerun: yes">&nbsp;
-  </span>The logic of this search is that if a gene controls the level of its
-  own expression it is also much more likely to generate other downstream
-  effects. The Gtf3c1 transcript is a weak cis QTL with a local LRS maximum of
-  about 7.0 (D alleles are high). That is just about sufficient to declare it
-  to be a cis QTL. [No whole genome correction is required and a point-wise
-  p-value of 0.05 is the appropriate test. A p-value of 0.05 is roughly
-  equivalent to an LRS of 6.0 (LOD = 1.3).]</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008_image018.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008_image018.png
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deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4><b>Evaluating
-  candidate genes (CHECKED BOXES) responsible for variability in APP
-  expression:</b></font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>A large number
-  of genes are usually in the QTL interval and are therefore POSITIONAL
-  CANDIDATES, but they will differ greatly in their biological and
-  bioinformatic plausibility. Assume that the QTL has been located between 119
-  and 131 Mb (12 Mb). There will typically be 12 to 15 genes per Mb, so we
-  might need to evaluate several hundred positional candidates. In this
-  particular case there are about 100 known genes in this interval. Eight of
-  these are highlighted in the table above with check marks in the boxes to the
-  left.<span style="mso-spacerun: yes">&nbsp; </span>We need to highlight and
-  objectively score the biologically relevant subset of all 100 positional
-  candidate genes. We could look through gene ontologies and expression levels
-  to help us shorten the list. An alternate way available using WebQTL is to
-  generate a list of those genes in this interval that have transcripts that
-  co-vary in expression with App expression. That is what the table shows.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. To replicate
-  this table go back to the Trait Data and Analysis Form. Choose to sort
-  correlations by POSITION and select RETURN = 500. Then scroll down the list
-  to Chr 7 and review the subset of positional candidates that share expression
-  with App. You should see a list similar to that shown above. Gtf3c1 is a good
-  biological candidate and has a high covariation in expression with App.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>2. Caveat:<span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>Of course, the gene or genes
-  that control App expression may not be in this list. A protein coding
-  difference might be the ultimate cause of variation in App transcript level
-  and the expression covariation might be close to zero. Our list may also
-  simply be missing the right transcript since the microarray is not truly
-  comprehensive. Furthermore, even if the list contains the QTL gene, an
-  expression difference may only have been expressed early in development or
-  even in another tissue such as liver. While it is important to recognize
-  these caveats, it is equally important to devise a rational way to rank
-  candidates given existing data. Coexpression is one of several criteria used
-  to evaluate positional candidates. We will see others in the next slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>3. We can also
-  assess the likelihood that candidates contain functional polymorphism in
-  promoters and enhancers that affect their expression simply by mapping the
-  transcripts of all candidate genes to see if they �map back� to the location
-  of gene itself. A transcript that maps to its own location is referred to as
-  a cis QTL. We essentially ask: Which of the transcripts listed in the
-  Correlation Table above (from Gtf3c1 to Zranb1) has variation in expression
-  that maps to Chr 7 at about 120 Mb?<span style="mso-spacerun: yes">&nbsp;
-  </span>The logic of this search is that if a gene controls the level of its
-  own expression it is also much more likely to generate other downstream
-  effects. The Gtf3c1 transcript is a weak cis QTL with a local LRS maximum of
-  about 7.0 (D alleles are high). That is just about sufficient to declare it
-  to be a cis QTL. [No whole genome correction is required and a point-wise
-  p-value of 0.05 is the appropriate test. A p-value of 0.05 is roughly
-  equivalent to an LRS of 6.0 (LOD = 1.3).]</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content="Aug-15-05: Physical maps are zoomable">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
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-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
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-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-.53%;left:1.72%;width:101.05%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.91%;width:97.9%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'>Physical maps
-are zoomable</span><span style='font-family:Verdana;font-size:73%;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0009_image078.png" style='position:absolute;top:8.83%;
-left:3.31%;width:89.93%;height:41.69%'><img border=0
-src="slide0009_image079.png" style='position:absolute;top:44.52%;left:7.54%;
-width:42.91%;height:48.76%'><img border=0 src="slide0009_image080.png"
-style='position:absolute;top:94.52%;left:0%;width:97.08%;height:3.71%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>An even higher blow-up of
-  part of the Chr 7 physical map of variation in App expression in brain.<span
-  style="mso-spacerun: yes">&nbsp; </span>The QTL region actually extends from
-  about 119 to 129.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. As mentioned
-  in the previous slide another important approach to ranking candidates is
-  based on the number of sequence variants that distinguish the parental
-  strains. If we were sure that the sequences of the gene, its promoter, and
-  its enhancers were identical between the strains then we could discount--but
-  not eliminate--that gene as a candidate. The Gtf3c1 candidate almost falls
-  into this category: of 663 known SNPs in and around this gene, only four
-  differ between C57BL/6J and DBA/2J. Gtf3c1 is essentially
-  identical-by-descent in these strains and is a less likely candidate. In
-  contrast, if the two alleles of the gene have dozens of functional variants
-  in exons, promoters, enhancers, and splice sites, then it becomes a higher
-  priority candidate.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Of course it
-  only takes a single critical sequence variant to generate downstream effects.
-  The argument above is really about the prior probabilities. Where would you
-  place your bets given the information at hand?</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2.<span
-  style="mso-spacerun: yes">&nbsp; </span>If you scroll down the INTERVAL
-  ANALYST you will find that Ctbp2 is a particularly interesting candidate that
-  contains lots of SNPs (n = 75 and a SNP density of 0.55 SNP/Kb). Ctbp2 is
-  also closer to our QTL peak than was Gtf3c1. Not only does Ctbp2 contain lots
-  of SNPs but it is also is associated with a powerful cis QTL with an LRS of
-  24.2 (divide by 4.61 to get the equivalent LOD score of 5.25).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>3.<span
-  style="mso-spacerun: yes">&nbsp; </span>At this high magnification,
-  individual genes are distinct. They are color coded by their density of SNPs.
-  Bright orange represents those genes that have a high SNP density (C57BL/6J
-  versus DBA/2J), black represents genes with low SNP density. Roll the cursor
-  over a gene block and its name will pop up, along with information on exon
-  number.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>4.<span
-  style="mso-spacerun: yes">&nbsp; </span>Beneath the physical map you will
-  find an INTERVAL ANALYST table that lists information on known genes in the
-  region on which you have zoomed the Physical Map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>5.<span
-  style="mso-spacerun: yes">&nbsp; </span>As always: error-checking is
-  important. Some genes may be missing from the Interval Analyst (recent
-  additions or errors of omission). In this case the Zranb1 gene that is
-  located just proximal to Ctbp2 is not listed in the INTERVAL ANALYST.
-  Double-check the interval using the Genome Browser links (blue and beige
-  horizontal bars) at the top of the PHYSICAL MAP.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image022.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image022.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_notes_pane.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>An even higher blow-up of
-  part of the Chr 7 physical map of variation in App expression in brain.<span
-  style="mso-spacerun: yes">&nbsp; </span>The QTL region actually extends from
-  about 119 to 129.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. As mentioned
-  in the previous slide another important approach to ranking candidates is
-  based on the number of sequence variants that distinguish the parental
-  strains. If we were sure that the sequences of the gene, its promoter, and
-  its enhancers were identical between the strains then we could discount--but
-  not eliminate--that gene as a candidate. The Gtf3c1 candidate almost falls
-  into this category: of 663 known SNPs in and around this gene, only four
-  differ between C57BL/6J and DBA/2J. Gtf3c1 is essentially
-  identical-by-descent in these strains and is a less likely candidate. In
-  contrast, if the two alleles of the gene have dozens of functional variants
-  in exons, promoters, enhancers, and splice sites, then it becomes a higher
-  priority candidate.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Of course it
-  only takes a single critical sequence variant to generate downstream effects.
-  The argument above is really about the prior probabilities. Where would you
-  place your bets given the information at hand?</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2.<span
-  style="mso-spacerun: yes">&nbsp; </span>If you scroll down the INTERVAL
-  ANALYST you will find that Ctbp2 is a particularly interesting candidate that
-  contains lots of SNPs (n = 75 and a SNP density of 0.55 SNP/Kb). Ctbp2 is
-  also closer to our QTL peak than was Gtf3c1. Not only does Ctbp2 contain lots
-  of SNPs but it is also is associated with a powerful cis QTL with an LRS of
-  24.2 (divide by 4.61 to get the equivalent LOD score of 5.25).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3.<span
-  style="mso-spacerun: yes">&nbsp; </span>At this high magnification,
-  individual genes are distinct. They are color coded by their density of SNPs.
-  Bright orange represents those genes that have a high SNP density (C57BL/6J
-  versus DBA/2J), black represents genes with low SNP density. Roll the cursor
-  over a gene block and its name will pop up, along with information on exon
-  number.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4.<span
-  style="mso-spacerun: yes">&nbsp; </span>Beneath the physical map you will
-  find an INTERVAL ANALYST table that lists information on known genes in the
-  region on which you have zoomed the Physical Map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5.<span
-  style="mso-spacerun: yes">&nbsp; </span>As always: error-checking is
-  important. Some genes may be missing from the Interval Analyst (recent
-  additions or errors of omission). In this case the Zranb1 gene that is
-  located just proximal to Ctbp2 is not listed in the INTERVAL ANALYST.
-  Double-check the interval using the Genome Browser links (blue and beige
-  horizontal bars) at the top of the PHYSICAL MAP.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0010.htm
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@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description
-content="Aug-15-05: Evaluating Ctbp2 as a candidate QTL for App">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
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-	font-size:76% !important;}
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-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0010.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
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-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
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-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:1.72%;width:106.35%;height:7.24%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:12.19%;left:.87%;width:99.12%;
-height:90.24%'><span style='font-family:Verdana;font-size:64%'>Evaluating </span><span
-style='font-family:Verdana;font-size:64%'><i>Ctbp2</i></span><span
-style='font-family:Verdana;font-size:64%'> as a candidate QTL for </span><span
-style='font-family:Verdana;font-size:64%'><i>App</i></span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0010_image082.png" style='position:absolute;top:94.52%;
-left:3.31%;width:96.68%;height:4.24%'><img border=0 src="slide0010_image083.png"
-style='position:absolute;top:7.77%;left:3.31%;width:48.34%;height:40.28%'>
-<div class=O style='position:absolute;top:52.82%;left:55.23%;width:35.76%;
-height:37.98%'><span style='position:absolute;top:0%;left:0%;width:94.81%'><span
-style='font-size:233%;color:#E9EB5D'>This is</span><span style='font-size:233%;
-color:#E9EB5D'><i> the </i></span></span><span style='position:absolute;
-top:16.74%;left:0%;width:95.92%'><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2
-</i></span><span style='font-size:233%;color:#E9EB5D'>cis QTL, </span></span><span
-style='position:absolute;top:33.48%;left:0%;width:98.14%'><span
-style='font-size:233%;color:#E9EB5D'>but is detected </span></span><span
-style='position:absolute;top:49.76%;left:0%;width:94.81%'><span
-style='font-size:233%;color:#E9EB5D'>only in the </span></span><span
-style='position:absolute;top:66.51%;left:0%;width:100.0%'><span
-style='font-size:233%;color:#E9EB5D'>Rosen striatum </span></span><span
-style='position:absolute;top:83.25%;left:0%;width:94.81%'><span
-style='font-size:233%;color:#E9EB5D'>data set.</span><span style='font-size:
-233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-<div class=O style='position:absolute;top:16.25%;left:56.02%;width:48.21%;
-height:12.72%'><span style='position:absolute;top:0%;left:0%;width:94.78%'><span
-style='font-size:233%;color:#E9EB5D'>This is</span><span style='font-size:233%;
-color:#E9EB5D'><i> the App QTL </i></span></span><span style='position:absolute;
-top:48.61%;left:0%;width:100.0%'><span style='font-size:233%;color:#E9EB5D'>in
-the INIA data set. </span><span style='font-size:233%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></span></div>
-<img border=0 src="slide0010_image084.png" style='position:absolute;top:39.39%;
-left:3.31%;width:48.47%;height:53.35%'><img border=0
-src="slide0010_image085.png" style='position:absolute;top:10.95%;left:35.36%;
-width:.39%;height:72.79%'><img border=0 src="slide0010_image086.png"
-style='position:absolute;top:10.95%;left:31.52%;width:.39%;height:72.79%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>This slide illustrates one
-  reason why Ctbp2 should be considered a high priority positional candidate
-  gene that may modulate the expression level of App.<span style="mso-spacerun:
-  yes">&nbsp; </span>Ctbp2 is a strong cis QTL in some brain regions (here the
-  data are taken from the striatum).<span style="mso-spacerun: yes">&nbsp;
-  </span>If Ctbp2 contains variants that modulate its own expression then these
-  expression differences may produce many downstream effects. Of course, we now
-  want to know much more about the known biology of Ctbp2. What kind of gene is
-  it? To begin to answer that question we can use a number of resources listed
-  in the LINKS page.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Verdana
-  size=3> The App QTL is bimodal. Perhaps there are actually two causal factors
-  in this region--one close to 123 Mb and the other close to 127 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2. The precision of QTL
-  mapping depends on several factors, including the effect size and
-  interactions among QTLs modulating a trait, the number of genetic individuals
-  that are studied, and the distribution of recombinations in the study
-  population.<span style="mso-spacerun: yes">&nbsp; </span>In the case above,
-  the QTL(s) are likely to be confined to the interval from 120 to 132 Mb. The
-  bootstrap test (yellow bars shown in some of the previous slides) can be
-  usual for estimating the consistency of QTL peaks.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0010_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
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-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>This slide illustrates one
-  reason why Ctbp2 should be considered a high priority positional candidate
-  gene that may modulate the expression level of App.<span style="mso-spacerun:
-  yes">&nbsp; </span>Ctbp2 is a strong cis QTL in some brain regions (here the
-  data are taken from the striatum).<span style="mso-spacerun: yes">&nbsp;
-  </span>If Ctbp2 contains variants that modulate its own expression then these
-  expression differences may produce many downstream effects. Of course, we now
-  want to know much more about the known biology of Ctbp2. What kind of gene is
-  it? To begin to answer that question we can use a number of resources listed
-  in the LINKS page.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Verdana
-  size=2> The App QTL is bimodal. Perhaps there are actually two causal factors
-  in this region--one close to 123 Mb and the other close to 127 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. The precision of QTL
-  mapping depends on several factors, including the effect size and
-  interactions among QTLs modulating a trait, the number of genetic individuals
-  that are studied, and the distribution of recombinations in the study
-  population.<span style="mso-spacerun: yes">&nbsp; </span>In the case above,
-  the QTL(s) are likely to be confined to the interval from 120 to 132 Mb. The
-  bootstrap test (yellow bars shown in some of the previous slides) can be
-  usual for estimating the consistency of QTL peaks.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
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-content="Aug-15-05: Evaluating Ctbp2 using other resources">
-<link rel=Stylesheet href="master03_stylesheet.css">
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-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:1.72%;width:101.05%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.91%;width:97.9%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'>Evaluating </span><span
-style='font-family:Verdana;font-size:64%'><i>Ctbp2</i></span><span
-style='font-family:Verdana;font-size:64%'> using other resources</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</div>
-<img border=0 src="slide0011_image087.png" style='position:absolute;top:10.07%;
-left:1.72%;width:48.21%;height:53.35%'><img border=0
-src="slide0011_image088.png" style='position:absolute;top:40.81%;left:19.2%;
-width:78.54%;height:54.77%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Ctbp2 should also be
-  considered a high priority biological candidate gene responsible for
-  modulating App expression levels. The C-terminal binding protein 2 is a
-  transcriptional co-repressor also known as Ribeye.</font><font
-  face=Times-Roman size=3> The gene produces two transcripts encoding distinct
-  proteins. The short form is a transcriptional repressor that binds a
-  Pro-X-Asp-Leu-Ser peptide motif and interacts with several transcription
-  factors including EVI1, ZFPM1, and ZFHX1A (aka TCF8, deltaEF1). The longer
-  isoform is a major component of specialized synapses in photoreceptors. Both
-  proteins contain a NAD+ binding domain similar to NAD+-dependent
-  2-hydroxyacid dehydrogenases.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>1. To find out more about
-  CTBP2 protein and the Ctbp2 gene, link to iHOP at
-  http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>Try Arrowsmith at
-  http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>2. Both APP and CTBP2 are
-  involved in oxidoreducatase activity or Notch signaling. To establish this
-  common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
-  </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene and enter each gene
-  symbol.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>3. You can get interesting
-  hints regarding Ctbp2 expression partners by examining the genetic
-  correlations between Ctbp2 probe set 1422887_a_at and all other transcripts
-  on the M430 Affymetrix array. Use the Striatum data set because we already
-  know from previous work (the previous slide) that this gene is a cis
-  QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to show
-  that Ctbp2 and Notch3 have antagonistic expression patterns in striatum. The
-  negative genetic correlation with E2f4 is even stronger. The transcript also
-  has a high positive genetic correlation with Rdh14. Of particular interest
-  with respect to APP protein processing, Ctbp2 covaries positively with Bace2
-  (the transcript of the beta site APP-cleaving enzyme 2).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0011_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
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-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
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-href="webqtl_demo2.ppt.ppt">
-<script>
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-	window.location.replace( "endshow.htm" );
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-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Ctbp2 should also be
-  considered a high priority biological candidate gene responsible for
-  modulating App expression levels. The C-terminal binding protein 2 is a
-  transcriptional co-repressor also known as Ribeye.</font><font
-  face=Times-Roman size=2> The gene produces two transcripts encoding distinct
-  proteins. The short form is a transcriptional repressor that binds a
-  Pro-X-Asp-Leu-Ser peptide motif and interacts with several transcription
-  factors including EVI1, ZFPM1, and ZFHX1A (aka TCF8, deltaEF1). The longer
-  isoform is a major component of specialized synapses in photoreceptors. Both
-  proteins contain a NAD+ binding domain similar to NAD+-dependent
-  2-hydroxyacid dehydrogenases.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. To find out more about
-  CTBP2 protein and the Ctbp2 gene, link to iHOP at
-  http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Try Arrowsmith at
-  http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. Both APP and CTBP2 are
-  involved in oxidoreducatase activity or Notch signaling. To establish this
-  common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
-  </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene and enter each gene
-  symbol.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. You can get interesting
-  hints regarding Ctbp2 expression partners by examining the genetic
-  correlations between Ctbp2 probe set 1422887_a_at and all other transcripts
-  on the M430 Affymetrix array. Use the Striatum data set because we already
-  know from previous work (the previous slide) that this gene is a cis
-  QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to show
-  that Ctbp2 and Notch3 have antagonistic expression patterns in striatum. The
-  negative genetic correlation with E2f4 is even stronger. The transcript also
-  has a high positive genetic correlation with Rdh14. Of particular interest
-  with respect to APP protein processing, Ctbp2 covaries positively with Bace2
-  (the transcript of the beta site APP-cleaving enzyme 2).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012.htm
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-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
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-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-.35%;left:3.31%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292;
-mso-text-indent-alt:0;position:absolute;top:0%;left:1.13%;width:97.59%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Summary of Part 2</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:15.01%;left:5.96%;width:101.19%;height:31.09%'>
-<div class=O1 style='mso-margin-left-alt:432'></div>
-<div class=O2 style='mso-margin-left-alt:720'></div>
-<div class=O3 style='mso-margin-left-alt:1008'></div>
-<div class=O4 style='mso-margin-left-alt:1296'></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:0%;
-left:0%;width:86.25%;height:14.2%'><span style='position:absolute;top:0%;
-left:2.88%;width:97.11%'><span style='font-family:"Gill Sans";font-size:167%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.96%;font-family:Arial'>1.</span></span><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>Covered the basics of QTL
-analysis and mapping.<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:14.2%;
-left:0%;width:86.25%;height:14.2%'><span style='position:absolute;top:0%;
-left:2.88%;width:97.11%'><span style='font-family:"Gill Sans";font-size:167%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.96%;font-family:Arial'>2.</span></span><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>Reviewed difference between
-genetic and physical maps.<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:28.4%;
-left:0%;width:100.0%;height:42.61%'><span style='position:absolute;top:0%;
-left:2.48%;width:97.51%'><span style='font-family:"Gill Sans";font-size:167%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.55%;font-family:Arial'>3.</span></span><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>Discussed interpreting features
-of QTL maps including the LRS function, </span></span><span style='position:
-absolute;top:33.33%;left:2.48%;width:91.23%'><span style='font-family:"Gill Sans";
-font-size:167%;color:#E9EB5D;mso-color-index:3'>the additive effect function,
-the bootstrap bars, and the permutation </span></span><span style='position:
-absolute;top:68.0%;left:2.48%;width:83.76%'><span style='font-family:"Gill Sans";
-font-size:167%;color:#E9EB5D;mso-color-index:3'>thresholds.<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:71.59%;
-left:0%;width:88.35%;height:14.2%'><span style='position:absolute;top:0%;
-left:2.81%;width:97.18%'><span style='font-family:"Gill Sans";font-size:167%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.89%;font-family:Arial'>4.</span></span><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>Illustrated techniques to
-generate a list of positional candidates.<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:85.79%;
-left:0%;width:86.25%;height:14.2%'><span style='position:absolute;top:0%;
-left:2.88%;width:97.11%'><span style='font-family:"Gill Sans";font-size:167%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.96%;font-family:Arial'>5.</span></span><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>Discussed some factors used to
-evaluate candidate genes.</span></span></div>
-</div>
-<div class=O style='position:absolute;top:58.65%;left:5.96%;width:106.22%;
-height:22.26%'><span style='position:absolute;top:0%;left:0%;width:84.53%'><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'>What does a QTL signify? A good QTL is a claim that a particular </span></span><span
-style='position:absolute;top:19.84%;left:0%;width:96.38%'><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'>chromosomal region contains a causal source of variation in the phenotype. </span></span><span
-style='position:absolute;top:39.68%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'>The importance of this hypothesis depends on the quality and relevance of
-the </span></span><span style='position:absolute;top:59.52%;left:0%;width:90.89%'><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'>phenotype and the statistical strength of the QTL. As usual, test and be </span></span><span
-style='position:absolute;top:79.36%;left:0%;width:84.53%'><span
-style='font-family:"Gill Sans";font-size:167%;color:#E9EB5D;mso-color-index:
-3'>skeptical.</span></span></div>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_image026.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_image026.png
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>By clicking on the
-  CORRELATION of the Atcay transcript to the App transcript, you can generate a
-  Correlation plot between these two transcripts. In this App and Atcay
-  scatterplot, each point is a strain mean value. For example, BXD33 and BXD8
-  have low App and Atcay expressions. The two parental strains and the F1 are
-  also included in this plot.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content="Aug-15-05: Test Questions">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0013.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:1.72%;width:101.05%;height:8.65%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;position:absolute;top:18.36%;left:.91%;width:97.9%;
-height:75.51%'><span style='font-family:Verdana;font-size:64%'>Test Questions</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</div>
-<div class=O style='position:absolute;top:11.83%;left:4.37%;width:108.34%;
-height:6.53%'><span style='font-size:233%;color:#E9EB5D'>1. Evaluate candidates
-for the Chr 3 </span><span style='font-size:233%;color:#E9EB5D'><i>App</i></span><span
-style='font-size:233%;color:#E9EB5D'> QTL.</span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-<div class=O style='position:absolute;top:24.02%;left:4.9%;width:100.92%;
-height:12.72%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-size:233%;color:#E9EB5D'>2. Do </span><span style='font-size:233%;
-color:#E9EB5D'><i>App</i></span><span style='font-size:233%;color:#E9EB5D'> and
-</span><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span
-style='font-size:233%;color:#E9EB5D'> expression share any </span></span><span
-style='position:absolute;top:50.0%;left:0%;width:93.43%'><span
-style='font-size:233%;color:#E9EB5D'>other QTLs beside that on Chr 7?</span><span
-style='font-size:233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-<div class=O style='position:absolute;top:43.99%;left:4.9%;width:102.91%;
-height:19.08%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-size:233%;color:#E9EB5D'>3. Can you exploit literature mining tools
-to </span></span><span style='position:absolute;top:33.33%;left:0%;width:98.45%'><span
-style='font-size:233%;color:#E9EB5D'>find a strong relationship between </span><span
-style='font-size:233%;color:#E9EB5D'><i>App</i></span><span style='font-size:
-233%;color:#E9EB5D'> and </span></span><span style='position:absolute;
-top:65.74%;left:0%;width:91.63%'><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span
-style='font-size:233%;color:#E9EB5D'>? </span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-<div class=O style='position:absolute;top:69.08%;left:4.9%;width:110.19%;
-height:12.72%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-size:233%;color:#E9EB5D'>4. Why might the cis QTL for </span><span
-style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span style='font-size:
-233%;color:#E9EB5D'> expression </span></span><span style='position:absolute;
-top:50.0%;left:0%;width:89.66%'><span style='font-size:233%;color:#E9EB5D'>only
-be detected in the striatum data set?</span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></div>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0013_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>A group of traits from
-  many different databases can be selected and brought together for joint
-  analysis. In this case all of the content of the BXD SELECTIONS is from a
-  single BRAIN database, the top 20 neighbors of the App transcript from the
-  Correlation Results table. Eight of these neighbors plus App is shown in the
-  slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2>All of items in the BXD SELECTIONS were selected using
-  the SELECT ALL button</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. The buttons at the
-  top (and bottom) of this page can do some cool stuff. We will work with
-  NETWORK GRAPH first.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. Think of the
-  SELECTIONS as your shopping cart. You go to different aisles in the
-  supermarket to acquire different types of items of interest. These could
-  include transcripts, classical phenotypes (longevity, brain weight, prepulse
-  inhibition, iron levels in midbrain). �Checking out� in this case involves
-  doing some analysis with the items in the cart.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>4. Different tools
-  handle different numbers of items. Most will handle up to 100 traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description
-content="Aug-15-05: Contact for comments and improvements:">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0014.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:2.29%;left:2.51%;width:94.43%;height:9.89%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:19.64%;
-left:1.4%;width:97.47%;height:69.64%'><span style='font-size:73%'><i>Contact
-for comments and improvements:</i></span><span style='font-size:82%;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:16.6%;left:6.62%;width:90.19%;height:24.38%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:0%;
-left:1.46%;width:97.35%;height:100.0%'><span style='position:absolute;
-top:0%;left:0%;width:100.0%'><span style='font-size:82%'>rwilliam@nb.utmem.edu<br>
-</span></span><span
-style='position:absolute;top:34.05%;left:4.67%;width:95.47%'><span
-style='font-size:82%'><br>
-</span></span><span style='position:absolute;
-top:68.11%;left:4.67%;width:95.47%'><span style='font-size:82%;mso-special-format:
-lastCR;display:none'><br>
-</span></span></div>
-</div>
-<div class=O style='position:absolute;top:27.56%;left:9.4%;width:50.59%;
-height:7.77%'><span style='font-family:"Gill Sans";font-size:300%;color:#E9EB5D'>kmanly@utmem.edu</span></div>
-<div class=O style='position:absolute;top:83.56%;left:4.37%;width:108.34%;
-height:15.9%'><span style='position:absolute;top:0%;left:0%;width:90.83%'><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'>The </span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'><i>App</i></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'> findings reviewed
-in this presentation are part of an </span></span><span style='position:absolute;
-top:33.33%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";
-font-size:200%;color:#E9EB5D'>ongoing study by R. Williams. R. Homayouni, and
-R. Clark (July 15, </span></span><span style='position:absolute;top:66.66%;
-left:0%;width:84.35%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D'>2005)</span><span style='font-family:"Gill Sans";font-size:300%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><br>
-</span></span></div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=3>END</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image034.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image034.png
deleted file mode 100755
index dafa2898..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image034.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image035.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image035.png
deleted file mode 100755
index 35566d47..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_image035.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_notes_pane.htm
deleted file mode 100755
index c4c4ec6d..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0015_notes_pane.htm
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@@ -1,5 +0,0 @@
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-  have already been measured in many of the same BXD strains.</font><br>
-  </td>
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- <tr>
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-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2>The number of common strains varies widely--in this
-  case from 14 to 23 strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. We can add these
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-  </td>
- </tr>
-</table>
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-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016.htm
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index ea69ff33..00000000
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-</script></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.08 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.02 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-134 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Times;font-size:117%;color:white;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.02 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-134 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Times;font-size:117%;color:white;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.35 * g_width; myheight = 0.05 * g_height; mywidth = 0.29 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.02 * g_height; mywidth = 0.29 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Times;font-size:117%;
-color:white;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.02 * g_height; mywidth = 0.29 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Times;font-size:117%;
-color:white;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.02 * g_height; myleft = -0.05 * g_width; myheight = 0.11 * g_height; mywidth = 1.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.1 * g_height; mywidth = 1.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-240 0 0";mso-margin-left-alt:
-16;mso-text-indent-alt:16'><span style='font-family:Arial;font-size:267%;
-color:#E9EB5D'>How to make recombinant inbred strains (RI)</span><span
-style='font-family:Arial;font-size:150%;color:aqua;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0.06 * g_width; myheight = 0.03 * g_height; mywidth = 0.92 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-160 0 0";mso-margin-left-alt:
-16;mso-text-indent-alt:16'><span style='font-family:Arial;font-size:150%;
-color:aqua;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.28 * g_height; myleft = 0.45 * g_width; myheight = 0.01 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.45 * g_width;
-yy = 0.28 * g_height;
-ht = 0.01 * g_height;
-wd = 0.18 * g_width;
-document.write(
-'<img border=0 src="slide0002_image003.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.28 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.28 * g_width;
-yy = 0.2 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0002_image004.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.15 * g_height; myleft = 0.25 * g_width; myheight = 0.09 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>C57BL/6J
-(B)<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.3 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.3 * g_width;
-yy = 0.2 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0002_image005.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.15 * g_height; myleft = 0.62 * g_width; myheight = 0.09 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>DBA/2J
-(D)<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.66 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.66 * g_width;
-yy = 0.2 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image006.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.23 * g_width; myheight = 0.01 * g_height; mywidth = 0.5 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.23 * g_width;
-yy = 0.35 * g_height;
-ht = 0.01 * g_height;
-wd = 0.5 * g_width;
-document.write(
-'<img border=0 src="slide0002_image007.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.24 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.24 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image008.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.4 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.4 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image009.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.57 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.57 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image010.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.74 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.74 * g_width;
-yy = 0.35 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image011.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.42 * g_height; myleft = 0.05 * g_width; myheight = 0.12 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F1<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.22 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.22 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image012.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.38 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.38 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image013.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.55 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.55 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image014.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.72 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.72 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image015.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.43 * g_height; myleft = 0.43 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.43 * g_width;
-yy = 0.43 * g_height;
-ht = 0.03 * g_height;
-wd = 0.11 * g_width;
-document.write(
-'<img border=0 src="slide0002_image016.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.6 * g_height; myleft = 0.2 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.2 * g_width;
-yy = 0.6 * g_height;
-ht = 0.03 * g_height;
-wd = 0.09 * g_width;
-document.write(
-'<img border=0 src="slide0002_image017.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.71 * g_height; myleft = 0.58 * g_width; myheight = 0.26 * g_height; mywidth = 0.2 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.03 * g_height; myleft = 0.01 * g_width; myheight = 0.22 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.15 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>20 generations </b></span></span></layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>brother-sister </b></span></span></layer><script>
-	mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>matings</b></span><span style='font-family:Arial;font-size:
-233%;color:#FFFF99;display:none'><b><br>
-</b></span></span></layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:233%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.6 * g_height; myleft = 0.5 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.5 * g_width;
-yy = 0.6 * g_height;
-ht = 0.03 * g_height;
-wd = 0.09 * g_width;
-document.write(
-'<img border=0 src="slide0002_image018.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.54 * g_width; myheight = 0.28 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.54 * g_width;
-yy = 0.62 * g_height;
-ht = 0.28 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image019.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.61 * g_height; myleft = 0.79 * g_width; myheight = 0.03 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.79 * g_width;
-yy = 0.61 * g_height;
-ht = 0.03 * g_height;
-wd = 0.1 * g_width;
-document.write(
-'<img border=0 src="slide0002_image020.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.83 * g_width; myheight = 0.28 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.83 * g_width;
-yy = 0.62 * g_height;
-ht = 0.28 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image021.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.21 * g_width; myheight = 0.09 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD1</span><span
-style='font-family:Arial;font-size:150%;color:#484848;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#484848;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.51 * g_width; myheight = 0.09 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD2<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.8 * g_width; myheight = 0.05 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>BXD80</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.9 * g_height; myleft = 0.64 * g_width; myheight = 0.17 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.15 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:300%;color:#FFFF99'>+ � +<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:300%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.04 * g_width; myheight = 0.12 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F2<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.18 * g_width; myheight = 0.01 * g_height; mywidth = 0.75 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.18 * g_width;
-yy = 0.54 * g_height;
-ht = 0.01 * g_height;
-wd = 0.75 * g_width;
-document.write(
-'<img border=0 src="slide0002_image022.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.17 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.17 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image023.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.32 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.32 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image024.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.48 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.48 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image025.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.62 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.62 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image026.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.77 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.77 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image027.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.92 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.92 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image028.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.44 * g_height; myleft = 0.49 * g_width; myheight = 0.1 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.49 * g_width;
-yy = 0.44 * g_height;
-ht = 0.1 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0002_image029.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.15 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.15 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image030.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.3 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.3 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image031.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.46 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.46 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image032.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.6 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.6 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image033.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.75 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.75 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image034.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.9 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.9 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0002_image035.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.84 * g_height; myleft = 0.56 * g_width; myheight = 0.01 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.56 * g_width;
-yy = 0.84 * g_height;
-ht = 0.01 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0002_image036.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.8 * g_height; myleft = 0.25 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.25 * g_width;
-yy = 0.8 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0002_image037.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.84 * g_height; myleft = 0.86 * g_width; myheight = 0.02 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.86 * g_width;
-yy = 0.84 * g_height;
-ht = 0.02 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0002_image038.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.75 * g_height; myleft = 0.01 * g_width; myheight = 0.13 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'><b>BXD RI<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'><b>Strain set<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.12 * g_height; myleft = 0.14 * g_width; myheight = 0.06 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.14 * g_width;
-yy = 0.12 * g_height;
-ht = 0.06 * g_height;
-wd = 0.1 * g_width;
-document.write(
-'<img border=0 src="slide0002_image039.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.76 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.76 * g_width;
-yy = 0.1 * g_height;
-ht = 0.08 * g_height;
-wd = 0.14 * g_width;
-document.write(
-'<img border=0 src="slide0002_image040.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.17 * g_width; myheight = 0.13 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>fully<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>inbred<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.38 * g_height; myleft = 0.02 * g_width; myheight = 0.09 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>isogenic<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.01 * g_width; myheight = 0.13 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>hetero-<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>geneous<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.74 * g_height; myleft = 0.29 * g_width; myheight = 0.21 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.19 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.15 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>Recombined </span></span></layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>chromosomes </span></span></layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>are needed for </span></span></layer><script>
-	mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>mapping<br>
-</span></span></layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.25 * g_width; myheight = 0.09 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>female<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.64 * g_width; myheight = 0.09 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>male<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.3 * g_height; myleft = 0.78 * g_width; myheight = 0.09 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:117%;color:#FFFF99'>chromosome
-pair</span><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.31 * g_height; myleft = 0.65 * g_width; myheight = 0.02 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.65 * g_width;
-yy = 0.31 * g_height;
-ht = 0.02 * g_height;
-wd = 0.12 * g_width;
-document.write(
-'<img border=0 src="slide0002_image041.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.86 * g_height; myleft = 0.03 * g_width; myheight = 0.14 * g_height; mywidth = 0.09 * g_width;
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-   <td align=left colspan=1><font face=Verdana size=3>The next few slides
-   provide a short introduction to mapping the loci that are responsible for
-   variation in a trait such as App expression level. These modulatory regions
-   of the genome are sometimes called quantitative trait loci or QTLs. You may
-   want to do some independent reading on this topic if this is your first
-   exposure to QTL analysis.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The genetic reference
-   population (GRP) of BXD recombinant inbred strains were originally generated
-   about 25 years ago by Benjamin Taylor at The Jackson Laboratory. He crossed
-   female C57BL/6J mice with male DBA/2J mice to generate the F1 and F2
-   progeny. At the bottom of this slide we have schematized one chromosome pair
-   from three of the BXD RI strains.<span style="mso-spacerun: yes">&nbsp;
-   </span>The dashed vertical lines that lead to the final BXD RI lines involve
-   21 full sib matings (about 7 years of breeding). Some lines die out during
-   inbreeding. For example, there is no longer any BXD3 strain.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. Over the last decade,
-   our group (Lu Lu and Rob Williams) and Jeremy Peirce and Lee Silver at
-   Princeton have enlarged Ben Taylor�s set. There are now just over 80 BXD
-   strains. They have all been genotyped using about 13,700 markers (SNPs and
-   microsatellites). These markers are used to define the �blue� and �red�
-   regions of the chromosomes as shown in the figure above.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. Chromosomes of RI GRPs
-   usually have about 4 times as many recombinations as those of F2 animals.
-   However, unlike an F2, both chromosomes of an RI are identical. Therefore,
-   50 RI strains contain as many recombinations as 100 F2 animals.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. BXD43 through BXD100
-   were generated using a special method that resulted in a further doubling of
-   the average recombination density per chromosome. The entire set of 80 BXDs
-   therefore contains as many recombinations as about 260 F2 animals.</font><br>
-   </td>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_image036.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_image036.png
deleted file mode 100755
index baa1d807..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_image036.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_notes_pane.htm
deleted file mode 100755
index f5776dad..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
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-  Network Graph, now using other types of traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Saline Hot Plate Latency
-  is the green node labeled 10020.</font><br>
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-  <td colspan=1></td>
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-  green node labeled 10447.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0017.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0017.htm
deleted file mode 100755
index cc8ff93a..00000000
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-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Gadget;font-size:150%;color:white'>aa<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Gadget;font-size:150%;color:white;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0.73 * g_width; myheight = 0.05 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.73 * g_width;
-yy = 0.16 * g_height;
-ht = 0.05 * g_height;
-wd = 0.14 * g_width;
-document.write(
-'<img border=0 src="slide0003_image055.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0.74 * g_width; myheight = 0.07 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Gadget;font-size:150%;color:white'>aaaa<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Gadget;font-size:150%;color:white;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.71 * g_width; myheight = 0.19 * g_height; mywidth = 0.25 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.24 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.24 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:#E2EBF0'>D2 strain</span><span
-style='font-family:Palatino;font-size:333%;color:#FBFDB8;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#FBFDB8;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.43 * g_height; myleft = 0.71 * g_width; myheight = 0.19 * g_height; mywidth = 0.25 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.02 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.24 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.24 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:#F6BF69'>B6 strain</span><span
-style='font-family:Palatino;font-size:333%;color:#F6BF69;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#F6BF69;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.17 * g_height; myleft = 0.31 * g_width; myheight = 0.42 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.31 * g_width;
-yy = 0.17 * g_height;
-ht = 0.42 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0003_image056.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.4 * g_height; myleft = 0.31 * g_width; myheight = 0.03 * g_height; mywidth = 0.39 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.31 * g_width;
-yy = 0.4 * g_height;
-ht = 0.03 * g_height;
-wd = 0.39 * g_width;
-document.write(
-'<img border=0 src="slide0003_image057.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.38 * g_width; myheight = 0.26 * g_height; mywidth = 0.3 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.23 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.13 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-320 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>amount of
-</i></span></span></layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>transcript</i></span><span
-style='font-family:Palatino;font-size:367%;color:#E9EB5D;display:none'><br>
-</span></span></layer></div>
-</layer><script>
-	mytop = 0.14 * g_height; myleft = 0 * g_width; myheight = 0.09 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-422 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:367%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0.72 * g_width; myheight = 0.19 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:white'>4 </span><span style='font-size:
-233%;color:white'>units</span><span style='font-family:Palatino;font-size:333%;
-color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.29 * g_height; myleft = 0.72 * g_width; myheight = 0.19 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.02 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:white'>2</span><span style='font-size:
-233%;color:white'> units</span><span style='font-family:Palatino;font-size:
-333%;color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.15 * g_height; myleft = 0.31 * g_width; myheight = 0.05 * g_height; mywidth = 0.4 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.31 * g_width;
-yy = 0.15 * g_height;
-ht = 0.05 * g_height;
-wd = 0.4 * g_width;
-document.write(
-'<img border=0 src="slide0003_image058.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.17 * g_height; myleft = 0.09 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0'>D<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.17 * g_height; myleft = 0.17 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69'>B<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.79 * g_height; myleft = 0.05 * g_width; myheight = 0.13 * g_height; mywidth = 1.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.12 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-256 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-256 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E2EBF0'>D</span><span
-style='font-size:233%;color:#E9EB5D'> </span><span style='font-size:200%;
-color:#E9EB5D'>and </span><span style='font-size:233%;color:#F6BF69'>B</span><span
-style='font-size:233%;color:#E9EB5D'> </span><span style='font-size:200%;
-color:#E9EB5D'>may be SNP-like variants in the promoter </span></span></layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:200%;color:#E9EB5D'>itself (cis
-QTL) or in </span><span style='font-size:200%;color:#EAEC5E'>upstream genes
-(trans QTLs)</span><span style='font-size:300%;color:#E9EB5D'>.</span></span></layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.04 * g_width; myheight = 0.16 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D'>UPSTREAM<br>
-</span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D'>modulators<br>
-</span></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.01 * g_width; myheight = 0.05 * g_height; mywidth = 0.2 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.44 * g_width; myheight = 0.17 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:300%;color:#E2EBF0'>High<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.63 * g_height; myleft = 0.08 * g_width; myheight = 0.17 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0'>D<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.63 * g_height; myleft = 0.15 * g_width; myheight = 0.17 * g_height; mywidth = 0.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69'>B<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.71 * g_height; myleft = 0.07 * g_width; myheight = 0.12 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:200%;color:#E9EB5D'><i>cis QTL</i></span><span
-style='font-size:200%;color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:200%;color:#E9EB5D;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = -0.01 * g_width; myheight = 0.07 * g_height; mywidth = 1.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = -0.01 * g_width;
-yy = 0.57 * g_height;
-ht = 0.07 * g_height;
-wd = 1.01 * g_width;
-document.write(
-'<img border=0 src="slide0003_image059.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.44 * g_height; myleft = 0.47 * g_width; myheight = 0.12 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-272 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:233%;color:#F6BF69'>Low<br>
-</span></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-272 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:233%;color:#F6BF69;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.58 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.04 * g_height; mywidth = 1.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-200 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-200 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><span style='font-family:Gadget;font-size:167%;
-color:white'>&gt;&gt;&gt;&gt;PROMOTER--ATG-Exon1-Intron1-Exon2-Intron2 -
-etc-3'UTR &gt;&gt;&gt;&gt;&gt;</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.37 * g_height; myleft = 0.08 * g_width; myheight = 0.2 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.08 * g_width;
-yy = 0.37 * g_height;
-ht = 0.2 * g_height;
-wd = 0.13 * g_width;
-document.write(
-'<img border=0 src="slide0003_image060.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.4 * g_height; myleft = 0.1 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
-font-size:233%;color:white'><b>&#4;</b></span><span style='font-family:Palatino;
-font-size:233%;color:white;display:none'><b><br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.4 * g_height; myleft = 0.18 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
-font-size:233%;color:white'><b>&#4;</b></span><span style='font-family:Palatino;
-font-size:233%;color:white;display:none'><b><br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.33 * g_height; myleft = 0.08 * g_width; myheight = 0.2 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.08 * g_width;
-yy = 0.33 * g_height;
-ht = 0.2 * g_height;
-wd = 0.13 * g_width;
-document.write(
-'<img border=0 src="slide0003_image061.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.36 * g_height; myleft = 0.18 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
-font-size:233%;color:white'><b>&#4;</b></span><span style='font-family:Palatino;
-font-size:233%;color:white;display:none'><b><br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.36 * g_height; myleft = 0.1 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
-font-size:233%;color:white'><b>&#4;</b></span><span style='font-family:Palatino;
-font-size:233%;color:white;display:none'><b><br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.37 * g_height; myleft = 0.2 * g_width; myheight = 0.12 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;display:none'><b><br>
-</b></span></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Palatino;font-size:233%;
-color:white;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
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-<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:200%;color:#E9EB5D'><i>trans QTL</i></span><span
-style='font-size:200%;color:#E9EB5D;display:none'><br>
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-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>This slide is
-   illustrates two major types of QTLs that modulate variability in
-   transcript-relative steady state abundance.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>1. cis QTLs are defined
-   as QTLs that are closely linked to the gene whose transcript is the measured
-   trait. For example, a polymorphism in the promoter that affects binding of a
-   transcription factor. However, cis QTLs can be far upstream or downstream polymorphisms
-   in enhancers or may be in 3� UTR binding sites that affect message
-   stability.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. trans QTLs map far
-   enough away from the location of the gene that gives rise to the transcript
-   that is being measured so that we can be fairly certain that the QTL is not
-   in the gene itself. The most blatant type of trans QTL would be a
-   polymorphism in a transcription factor. But in the majority of cases, the
-   trans QTLs can be far removed in a mechanistic sense from the actual events
-   modulating transcript abundance. That is why there are three overlapping
-   arrows in the figure.<span style="mso-spacerun: yes">&nbsp; </span>The way
-   in which an upstream polymorphism influences a downstream difference in mRNA
-   abundance can be indirect. Effects can:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3><span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>a.<span style="mso-spacerun:
-   yes">&nbsp; </span>cross tissue types (a polymorphic liver enzyme may affect
-   CNS gene expression)</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3><span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>b.<span style="mso-spacerun:
-   yes">&nbsp; </span>cross time (the modulator is only expressed for one day
-   during development but has permanent effects in adults)</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3><span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>c.<span style="mso-spacerun:
-   yes">&nbsp; </span>may be contingent on environmental factors (heat shock
-   may trigger the expression of a polymorphic factor that affects mRNA
-   abundance).</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018.htm
deleted file mode 100755
index a2c8a7db..00000000
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-line-spacing:"-358 0 -1"'><span
-style='font-family:Verdana;font-size:64%'>Discovering upstream modulatory loci</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.18 * g_width; myheight = 0.25 * g_height; mywidth = 0.19 * g_width;
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-<div><script language=JavaScript><!--
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-//-->
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Please bring the Trait
-   Data and Analysis window to the front and look for the Interval Mapping
-   button. Confirm that you are back to the trait amyloid beta precursor
-   protein.<span style="mso-spacerun: yes">&nbsp; </span>If so, then just click
-   the button.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notice that the default
-   for:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Select Chrs (chromosomes)
-   is ALL</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Select Mapping Scale is
-   set to GENETIC</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Options: Permutation test
-   YES<span style="mso-spacerun: yes">&nbsp; </span>(2000 is the default
-   number)</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Options: Bootstrap test
-   YES (2000 is the default number)</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image037.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image037.png
deleted file mode 100755
index a1cb20e4..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image037.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image038.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image038.png
deleted file mode 100755
index e06bd0db..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_image038.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_notes_pane.htm
deleted file mode 100755
index 9e0445f3..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0018_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Part 2: Discovering
-  upstream modulators and quantitative trait loci (QTLs). A quantitative trait
-  locus is a chromosomal region that harbors one or a few polymorphic gene loci
-  that influence a trait. We are going to be looking for QTLs that modulate the
-  steady state expression level of App in the adult mouse forebrain.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019.htm
deleted file mode 100755
index 43fc12fd..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019.htm
+++ /dev/null
@@ -1,155 +0,0 @@
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-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
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-<script>
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-</script>
-<meta name=Description
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-<style media=print>
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-'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' );
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
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-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'><i>WebQTL
-searches for upstream controllers</i></span><span style='font-family:Verdana;
-font-size:73%;mso-special-format:lastCR;display:none'><i><br>
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-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.18 * g_height; mywidth = 0.44 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.44 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:167%;color:#E9EB5D'><i>App maps
-on Chr 16 (blue </i></span></span></layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.44 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:167%;color:#E9EB5D'><i>arrow
-points to the orange </i></span></span></layer><script>
-	mytop = 0.09 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.38 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:167%;color:#E9EB5D'><i>triangle)
-but the best </i></span></span></layer><script>
-	mytop = 0.13 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.38 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:167%;color:#E9EB5D'><i>locus is
-on Chr 7.</i></span><span style='font-size:233%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></span></layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0.01 * g_width; myheight = 0.53 * g_height; mywidth = 0.98 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.01 * g_width;
-yy = 0.08 * g_height;
-ht = 0.53 * g_height;
-wd = 0.98 * g_width;
-document.write(
-'<img border=0 src="slide0005_image066.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.46 * g_height; myleft = 0.15 * g_width; myheight = 0.53 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.15 * g_width;
-yy = 0.46 * g_height;
-ht = 0.53 * g_height;
-wd = 0.15 * g_width;
-document.write(
-'<img border=0 src="slide0005_image067.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.46 * g_height; myleft = 0.8 * g_width; myheight = 0.53 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.8 * g_width;
-yy = 0.46 * g_height;
-ht = 0.53 * g_height;
-wd = 0.1 * g_width;
-document.write(
-'<img border=0 src="slide0005_image068.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.41 * g_height; myleft = 0.76 * g_width; myheight = 0.22 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.76 * g_width;
-yy = 0.41 * g_height;
-ht = 0.22 * g_height;
-wd = 0.11 * g_width;
-document.write(
-'<img border=0 src="slide0005_image069.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.41 * g_height; myleft = 0.29 * g_width; myheight = 0.24 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.29 * g_width;
-yy = 0.41 * g_height;
-ht = 0.24 * g_height;
-wd = 0.12 * g_width;
-document.write(
-'<img border=0 src="slide0005_image070.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>This is a major output
-   type: a so-called full-genome interval map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The X-axis represents all
-   19 autosomes and the X chromosome as if they were laid end to end with short
-   gaps between the telomere of one chromosome and the centromere of the next
-   chromosome (mouse chromosomes only have a single long arm and the centromere
-   represents the origin of each chromosome for numerical purpose: 0
-   centimorgans at almost 0 megabases). The blue labels along the bottom of the
-   figure list a subset of the 3795 markers that were used in mapping.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The thick blue wavy line
-   running across chromosomes summarizes the strength of association between
-   variation in the phenotype (App expression differences) and the two
-   genotypes of all markers and the intervals between markers (hence, interval
-   mapping).<span style="mso-spacerun: yes">&nbsp; </span>The height of the
-   wave (blue Y-axis to the left) provides the likelihood ratio statistic
-   (LRS). Divide by 4.61 to convert these values to LOD scores.<span
-   style="mso-spacerun: yes">&nbsp; </span>Or you can read them as a
-   chi-square-like statistic.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The red line and the red
-   axis to the far right provide an estimate of the effect that a QTL has on
-   expression of App (this estimate of the so-called additive effect tends to
-   be too high). If the red line is below the X-axis then this means that the
-   allele inherited from C57BL/6J (B6 or B) at a particular marker is
-   associated with higher values. If the red line is above the X-axis then the
-   DBA/2J allele (D2 or D) is associated with higher trait values. Multiply the
-   additive effect size by 2 to estimate the difference between the set of
-   strains that have the B/B genotype and those that have the D/D genotype at a
-   specific marker. For example, on distal Chr 7 the red line peaks at a value
-   of about 0.2. That means that this region of chromosome 2 is responsible for
-   a 0.4 unit expression difference between B/B strains and the D/D strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The yellow histogram
-   bars: These summarize the results of a whole-genome bootstrap of the trait
-   that is performed 1000 times. What is a bootstrap? A bootstrap provides a
-   method to evaluate whether results are robust. If we drop out one strain, do
-   we still get the same results? When mapping quantitative traits, each strain
-   normally gets one equally weighted vote. But using the bootstrap procedure,
-   we give each strain a random weighting factor of between 0 and 1.<span
-   style="mso-spacerun: yes">&nbsp; </span>We then remap the trait and find THE
-   SINGLE BEST LRS VALUE per bootstrap. We do this 1000 times. In this example,
-   most bootstrap results cluster on Chr 3 and Chr 7 under the LRS peaks. That
-   is somewhat reassuring. But notice that a substantial number of bootstrap
-   are scattered around on other chromosomes. About 30% of the bootstrap
-   resamples have a peak on Chr 7. That is pretty good, but does makes us
-   realize that the sample we are working with is still quite small and
-   fragile.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The horizontal dashed
-   lines at 10.5 and 17.3 are the likelihood ratio statistic (LRS) values
-   associated with the suggestive and significant genome-wide probabilities
-   that were established by permutations of phenotypes across genotypes. We
-   shuffle randomly 2000 times and obtain a distribution of peak LRS scores to
-   generate a null distribution. Five percent of the time, one of these
-   permuted data sets will have a peak LRS higher than 17.3. We call that level
-   the 0.05 significance threshold for a whole genome scan. The p = 0.67 point
-   is the suggestive level, and corresponds to the green dashed line.<span
-   style="mso-spacerun: yes">&nbsp; </span>These thresholds are conservative
-   for transcripts that have expression variation that is highly heritable. The
-   putative or suggestive QTL on Chr 3 is probably more than just suggestive.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>One other point: the
-   mapping procedure we use is computationally very fast, but it is relatively
-   simple. We are not looking for gene-gene interactions and we are not fitting
-   multiple QTLs in combinations. Consider this QTL analysis a first pass that
-   will highlight hot spots and warm spots that are worth following up on using
-   more sophisticated models.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>CLICKABLE REGIONS:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. If you click on the
-   Chromosome number then you will generate a new map just for that chromosome.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. If you click on the
-   body of the map, say on the blue line, then you will generate a view on a 10
-   Mb window of that part of the genome from the UCSC Genome Browser web site.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. If you click on a
-   marker symbol, then you will generate a new Trait data and Analysis window
-   with the genotypes loaded into the window just like any other trait. More on
-   this in Section 3.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4. You can drag these
-   maps off of the browser window and onto your desktop. They will be saved as
-   PNG or PDF files. You can import them into Photoshop or other programs.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5. There is also an
-   option at the bottom of the page to download a 2X higher resolution image of
-   this plot for papers and presentations.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>6. You can also download
-   the results of the analysis in a text format</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019_notes_pane.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0019_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
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-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
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-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The next few slides
-  provide a short introduction to mapping the loci that are responsible for
-  variation in a trait such as App expression level. These modulatory regions
-  of the genome are sometimes called quantitative trait loci or QTLs. You may
-  want to do some independent reading on this topic if this is your first
-  exposure to QTL analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The genetic reference
-  population (GRP) of BXD recombinant inbred strains were originally generated
-  about 25 years ago by Benjamin Taylor at The Jackson Laboratory. He crossed
-  female C57BL/6J mice with male DBA/2J mice to generate the F1 and F2 progeny.
-  At the bottom of this slide we have schematized one chromosome pair from
-  three of the BXD RI strains.<span style="mso-spacerun: yes">&nbsp; </span>The
-  dashed vertical lines that lead to the final BXD RI lines involve 21 full sib
-  matings (about 7 years of breeding). Some lines die out during inbreeding.
-  For example, there is no longer any BXD3 strain.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. Over the last decade,
-  our group (Lu Lu and Rob Williams) and Jeremy Peirce and Lee Silver at
-  Princeton have enlarged Ben Taylor�s set. There are now just over 80 BXD
-  strains. They have all been genotyped using about 13,700 markers (SNPs and
-  microsatellites). These markers are used to define the �blue� and �red�
-  regions of the chromosomes as shown in the figure above.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. Chromosomes of RI GRPs
-  usually have about 4 times as many recombinations as those of F2 animals.
-  However, unlike an F2, both chromosomes of an RI are identical. Therefore, 50
-  RI strains contain as many recombinations as 100 F2 animals.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. BXD43 through BXD100
-  were generated using a special method that resulted in a further doubling of
-  the average recombination density per chromosome. The entire set of 80 BXDs
-  therefore contains as many recombinations as about 260 F2 animals.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-versus Physical maps for App expression</i></span><span style='font-family:
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-</i></span></div>
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-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
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-between New York and Boston in either travel hours or kilometers</i></span><span
-style='font-size:150%;color:#E9EB5D'><i>.</i></span><span style='font-size:
-167%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
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-</layer></div>
-</LAYER>
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- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
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-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The map on the top has an
-   X-axis scale based on frequency of recombinations events between markers (B
-   to D transitions, see slide 19 for a color-coded example). These so-called
-   genetic maps are scaled in centimorgan (recombinations per 100 gametes). In
-   contrast, the physical map shown below the genetic map has an X-axis scale
-   based on DNA length measured in nucleotides or base-pairs. Notice the large
-   difference between the two maps in the size of Chr 19 (large on the genetic
-   scale but small on the physical scale).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Also notice the large
-   difference in the width of the chromosome 7 QTL peak. In mice,
-   recombinations occur with higher frequency toward the telomeric side (right
-   side) of each chromosome. As a result, genetic maps are stretched out more
-   toward the telomere relative to a physical map. The QTL on distal Chr 7 is
-   therefore actually more precisely mapped than might appear looking at the
-   genetic map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The physical scale is
-   becoming more useful than the genetic scale primarily because many other
-   data types can be easily superimposed on a physical map. You will see more
-   examples in the next several slides.</font><br>
-   </td>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0020_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0020_notes_pane.htm
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0020_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>This slide is
-  illustrates two major types of QTLs that modulate variability in
-  transcript-relative steady state abundance.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>1. cis QTLs are defined
-  as QTLs that are closely linked to the gene whose transcript is the measured
-  trait. For example, a polymorphism in the promoter that affects binding of a
-  transcription factor. However, cis QTLs can be far upstream or downstream polymorphisms
-  in enhancers or may be in 3� UTR binding sites that affect message stability.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. trans QTLs map far
-  enough away from the location of the gene that gives rise to the transcript
-  that is being measured so that we can be fairly certain that the QTL is not
-  in the gene itself. The most blatant type of trans QTL would be a
-  polymorphism in a transcription factor. But in the majority of cases, the
-  trans QTLs can be far removed in a mechanistic sense from the actual events
-  modulating transcript abundance. That is why there are three overlapping
-  arrows in the figure.<span style="mso-spacerun: yes">&nbsp; </span>The way in
-  which an upstream polymorphism influences a downstream difference in mRNA
-  abundance can be indirect. Effects can:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2><span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>a.<span style="mso-spacerun:
-  yes">&nbsp; </span>cross tissue types (a polymorphic liver enzyme may affect
-  CNS gene expression)</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2><span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>b.<span style="mso-spacerun:
-  yes">&nbsp; </span>cross time (the modulator is only expressed for one day
-  during development but has permanent effects in adults)</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2><span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>c.<span style="mso-spacerun:
-  yes">&nbsp; </span>may be contingent on environmental factors (heat shock may
-  trigger the expression of a polymorphic factor that affects mRNA abundance).</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021.htm
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.98 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Physical
-map for distal chromosome 7</span><span style='font-family:Verdana;font-size:
-73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.04 * g_height; mywidth = 0.92 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><span style='font-size:167%;color:#E9EB5D'>Distal Chr 7 from
-~120 and 132 Mb may modulate</span><span style='font-size:167%;color:#E9EB5D'><i>
-App</i></span><span style='font-size:200%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.93 * g_height; myleft = 0.06 * g_width; myheight = 0.03 * g_height; mywidth = 0.75 * g_width;
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-</script>
-<div><script language=JavaScript><!--
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-yy = 0.93 * g_height;
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.06 * g_width;
-yy = 0.15 * g_height;
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-//-->
-</script></div>
-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Physical map of variation
-   in App expression in brain on distal Chr 7 (a blow up of the whole-genome
-   map on the previous slide).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Verdana size=3> You can now see that the X-axis is on a physical scale
-   of megabases (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. The small irregular
-   colored blocks and marks toward the top of the map mark the locations of
-   genes superimposed on the physical map. Neighboring genes are offset
-   slightly in the vertical axis for display purpose. Note one region of very
-   high gene density from about 120 to 123 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. The orange hash marks
-   along the X-axis represent the number of single nucleotide polymorphisms
-   that distinguish the two parental strains (C57BL/6J and DBA/2J) from each
-   other. We call this the SNP seismograph track (see Glossary for more
-   details). Regions with low numbers of SNPs have closely matched sequences
-   and are less likely to contain QTLs.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4. As before, the thin
-   red line shows the additive effect size. By convention the positive values
-   signify the D alleles are associated with higher expression of App in this
-   region of Chr 7 than the B alleles. The maximum effect size is about +0.20
-   log2 expression units per D allele. The differences been the BB and DD
-   genotypes (BB and DD because each strain has two alleles; one per
-   chromosome) is therefore about 2^0.4 = 1.32 or a 32% increment in DD
-   relative to BB at this locus.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5. If you scroll just
-   under the Physical Map you will see text that reads �DISPLAY from XXX Mb TO
-   YYY Mb�..�<span style="mso-spacerun: yes">&nbsp; </span>These physical maps
-   are zoomable, a feature we will exploit to evaluate candidate genes in this
-   QTL interval.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021_image099.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021_image099.png
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index 891bc06c..00000000
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+++ /dev/null
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+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021_notes_pane.htm
deleted file mode 100755
index b1988954..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Please bring the Trait
-  Data and Analysis window to the front and look for the Interval Mapping
-  button. Confirm that you are back to the trait amyloid beta precursor
-  protein.<span style="mso-spacerun: yes">&nbsp; </span>If so, then just click
-  the button.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notice that the default
-  for:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Select Chrs (chromosomes)
-  is ALL</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Select Mapping Scale is
-  set to GENETIC</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Options: Permutation test
-  YES<span style="mso-spacerun: yes">&nbsp; </span>(2000 is the default number)</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Options: Bootstrap test
-  YES (2000 is the default number)</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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- LoadNavSld("slide0022.htm");
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-style='font-family:Verdana;font-size:64%'>Evaluating candidate genes</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
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-</i></span></div>
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-</script>
-<div style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>Right
-position<br>
-</i></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.1 * g_height; mywidth = 0.31 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
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-style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>and
-high </i></span></span></layer><script>
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-style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>correlation</i></span></span></layer></div>
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-<div style='text-align:center'><span style='font-size:267%;color:#E9EB5D'><i><span
-style="mso-spacerun: yes">&nbsp;</span></i></span><span style='font-size:200%;
-color:#E9EB5D'><i>= better<br>
-</i></span></div>
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-<div style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>candidates</i></span></div>
-</layer></div>
-</layer></div>
-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4><b>Evaluating
-   candidate genes (CHECKED BOXES) responsible for variability in APP
-   expression:</b></font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>A large number
-   of genes are usually in the QTL interval and are therefore POSITIONAL
-   CANDIDATES, but they will differ greatly in their biological and
-   bioinformatic plausibility. Assume that the QTL has been located between 119
-   and 131 Mb (12 Mb). There will typically be 12 to 15 genes per Mb, so we
-   might need to evaluate several hundred positional candidates. In this
-   particular case there are about 100 known genes in this interval. Eight of
-   these are highlighted in the table above with check marks in the boxes to
-   the left.<span style="mso-spacerun: yes">&nbsp; </span>We need to highlight
-   and objectively score the biologically relevant subset of all 100 positional
-   candidate genes. We could look through gene ontologies and expression levels
-   to help us shorten the list. An alternate way available using WebQTL is to
-   generate a list of those genes in this interval that have transcripts that
-   co-vary in expression with App expression. That is what the table shows.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>1. To replicate
-   this table go back to the Trait Data and Analysis Form. Choose to sort
-   correlations by POSITION and select RETURN = 500. Then scroll down the list
-   to Chr 7 and review the subset of positional candidates that share
-   expression with App. You should see a list similar to that shown above.
-   Gtf3c1 is a good biological candidate and has a high covariation in
-   expression with App.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>2. Caveat:<span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>Of course, the gene or genes
-   that control App expression may not be in this list. A protein coding
-   difference might be the ultimate cause of variation in App transcript level
-   and the expression covariation might be close to zero. Our list may also
-   simply be missing the right transcript since the microarray is not truly
-   comprehensive. Furthermore, even if the list contains the QTL gene, an
-   expression difference may only have been expressed early in development or
-   even in another tissue such as liver. While it is important to recognize
-   these caveats, it is equally important to devise a rational way to rank
-   candidates given existing data. Coexpression is one of several criteria used
-   to evaluate positional candidates. We will see others in the next slide.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>3. We can also
-   assess the likelihood that candidates contain functional polymorphism in
-   promoters and enhancers that affect their expression simply by mapping the
-   transcripts of all candidate genes to see if they �map back� to the location
-   of gene itself. A transcript that maps to its own location is referred to as
-   a cis QTL. We essentially ask: Which of the transcripts listed in the
-   Correlation Table above (from Gtf3c1 to Zranb1) has variation in expression
-   that maps to Chr 7 at about 120 Mb?<span style="mso-spacerun: yes">&nbsp;
-   </span>The logic of this search is that if a gene controls the level of its
-   own expression it is also much more likely to generate other downstream
-   effects. The Gtf3c1 transcript is a weak cis QTL with a local LRS maximum of
-   about 7.0 (D alleles are high). That is just about sufficient to declare it
-   to be a cis QTL. [No whole genome correction is required and a point-wise
-   p-value of 0.05 is the appropriate test. A p-value of 0.05 is roughly
-   equivalent to an LRS of 6.0 (LOD = 1.3).]</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
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-</body>
-</html>
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-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
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-<script>
-if ( ! top.PPTPRESENTATION ) {
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-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>This is a major output
-  type: a so-called full-genome interval map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The X-axis represents all
-  19 autosomes and the X chromosome as if they were laid end to end with short
-  gaps between the telomere of one chromosome and the centromere of the next
-  chromosome (mouse chromosomes only have a single long arm and the centromere
-  represents the origin of each chromosome for numerical purpose: 0
-  centimorgans at almost 0 megabases). The blue labels along the bottom of the
-  figure list a subset of the 3795 markers that were used in mapping.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The thick blue wavy line
-  running across chromosomes summarizes the strength of association between
-  variation in the phenotype (App expression differences) and the two genotypes
-  of all markers and the intervals between markers (hence, interval mapping).<span
-  style="mso-spacerun: yes">&nbsp; </span>The height of the wave (blue Y-axis
-  to the left) provides the likelihood ratio statistic (LRS). Divide by 4.61 to
-  convert these values to LOD scores.<span style="mso-spacerun: yes">&nbsp;
-  </span>Or you can read them as a chi-square-like statistic.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The red line and the red
-  axis to the far right provides an estimate of the effect that a QTL has on
-  expression of App (this estimate of the so-called additive effect tends to be
-  too high). If the red line is below the X-axis then this means that the allele
-  inherited from C57BL/6J (B6 or B) at a particular marker is associated with
-  higher values. If the red line is above the X-axis then the DBA/2J allele (D2
-  or D) is associated with higher trait values. Multiply the additive effect
-  size by 2 to estimate the difference between the set of strains that have the
-  B/B genotype and those that have the D/D genotype at a specific marker. For
-  example, on distal Chr 7 the red line peaks at a value of about 0.2. That
-  means that this region of chromosome 2 is responsible for a 0.4 unit
-  expression difference between B/B strains and the D/D strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The yellow histogram bars:
-  These summarize the results of a whole-genome bootstrap of the trait that is
-  performed 1000 times. What is a bootstrap? A bootstrap provides a method to
-  evaluate whether results are robust. If we drop out one strain, do we still
-  get the same results? When mapping quantitative traits, each strain normally
-  gets one equally weighted vote. But using the bootstrap procedure, we give
-  each strain a random weighting factor of between 0 and 1.<span
-  style="mso-spacerun: yes">&nbsp; </span>We then remap the trait and find THE
-  SINGLE BEST LRS VALUE per bootstrap. We do this 1000 times. In this example,
-  most bootstrap results cluster on Chr 3 and Chr 7 under the LRS peaks. That
-  is somewhat reassuring. But notice that a substantial number of bootstrap are
-  scattered around on other chromosomes. About 30% of the bootstrap resamples
-  have a peak on Chr 7. That is pretty good, but does makes us realize that the
-  sample we are working with is still quite small and fragile.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The horizontal dashed
-  lines at 10.5 and 17.3 are the likelihood ratio statistic (LRS) values
-  associated with the suggestive and significant genome-wide probabilities that
-  were established by permutations of phenotypes across genotypes. We shuffle
-  randomly 2000 times and obtain a distribution of peak LRS scores to generate
-  a null distribution. Five percent of the time, one of these permuted data
-  sets will have a peak LRS higher than 17.3. We call that level the 0.05
-  significance threshold for a whole genome scan. The p = 0.67 point is the the
-  suggestive level, and corresponds to the green dashed line.<span
-  style="mso-spacerun: yes">&nbsp; </span>These thresholds are conservative for
-  transcripts that have expression variation that is highly heritable. The
-  putative or suggestive QTL on Chr 3 is probably more than just suggestive.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>One other point: the
-  mapping procedure we use is computationally very fast, but it is relatively
-  simple. We are not looking for gene-gene interactions and we are not fitting
-  multiple QTLs in combinations. Consider this QTL analysis a first pass that
-  will highlight hot spots and warm spots that are worth following up on using
-  more sophisticated models.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>CLICKABLE REGIONS:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. If you click on the
-  Chromosome number then you will generate a new map just for that chromosome.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. If you click on the
-  body of the map, say on the blue line, then you will generate a view on a 10
-  Mb window of that part of the genome from the UCSC Genome Browser web site.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. If you click on a
-  marker symbol, then you will generate a new Trait data and Analysis window
-  with the genotypes loaded into the window just like any other trait. More on
-  this in Section 3.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4. You can drag these maps
-  off of the browser window and onto your desktop. They will be saved as PNG or
-  PDF files. You can import them into Photoshop or other programs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5. There is also an option
-  at the bottom of the page to download a 2X higher resolution image of this
-  plot for papers and presentations.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>6. You can also download
-  the results of the analysis in a text format</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
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-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>An even higher blow-up of
-   part of the Chr 7 physical map of variation in App expression in brain.<span
-   style="mso-spacerun: yes">&nbsp; </span>The QTL region actually extends from
-   about 119 to 129.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>1. As mentioned
-   in the previous slide another important approach to ranking candidates is
-   based on the number of sequence variants that distinguish the parental
-   strains. If we were sure that the sequences of the gene, its promoter, and
-   its enhancers were identical between the strains then we could discount--but
-   not eliminate--that gene as a candidate. The Gtf3c1 candidate almost falls
-   into this category: of 663 known SNPs in and around this gene, only four
-   differ between C57BL/6J and DBA/2J. Gtf3c1 is essentially
-   identical-by-descent in these strains and is a less likely candidate. In
-   contrast, if the two alleles of the gene have dozens of functional variants
-   in exons, promoters, enhancers, and splice sites, then it becomes a higher
-   priority candidate.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Of course it
-   only takes a single critical sequence variant to generate downstream
-   effects. The argument above is really about the prior probabilities. Where
-   would you place your bets given the information at hand?</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2.<span
-   style="mso-spacerun: yes">&nbsp; </span>If you scroll down the INTERVAL
-   ANALYST you will find that Ctbp2 is a particularly interesting candidate
-   that contains lots of SNPs (n = 75 and a SNP density of 0.55 SNP/Kb). Ctbp2
-   is also closer to our QTL peak than was Gtf3c1. Not only does Ctbp2 contain
-   lots of SNPs but it is also is associated with a powerful cis QTL with an
-   LRS of 24.2 (divide by 4.61 to get the equivalent LOD score of 5.25).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3.<span
-   style="mso-spacerun: yes">&nbsp; </span>At this high magnification,
-   individual genes are distinct. They are color coded by their density of
-   SNPs. Bright orange represents those genes that have a high SNP density
-   (C57BL/6J versus DBA/2J), black represents genes with low SNP density. Roll
-   the cursor over a gene block and its name will pop up, along with
-   information on exon number.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4.<span
-   style="mso-spacerun: yes">&nbsp; </span>Beneath the physical map you will
-   find an INTERVAL ANALYST table that lists information on known genes in the
-   region on which you have zoomed the Physical Map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5.<span
-   style="mso-spacerun: yes">&nbsp; </span>As always: error-checking is
-   important. Some genes may be missing from the Interval Analyst (recent
-   additions or errors of omission). In this case the Zranb1 gene that is
-   located just proximal to Ctbp2 is not listed in the INTERVAL ANALYST.
-   Double-check the interval using the Genome Browser links (blue and beige
-   horizontal bars) at the top of the PHYSICAL MAP.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
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-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image107.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image107.png
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image107.png
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image108.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_notes_pane.htm
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
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-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
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-<body bgcolor=black text=white>
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- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The map on the top has an
-  X-axis scale based on frequency of recombinations events between markers (B
-  to D transitions, see slide 19 for a color-coded example). These so-called
-  genetic maps are scaled in centimorgan (recombinations per 100 gametes). In contrast,
-  the physical map shown below the genetic map has an X-axis scale based on DNA
-  length measured in nucleotides or base-pairs. Notice the large difference
-  between the two maps in the size of Chr 19 (large on the genetic scale but
-  small on the physical scale).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Also notice the large
-  difference in the width of the chromosome 7 QTL peak. In mice, recombinations
-  occur with higher frequency toward the telomeric side (righ sidet) of each
-  chromosome. As a result, genetic maps are stretched out more toward the
-  telomere relative to a physical map. The QTL on distal Chr 7 is therefore
-  actually more precisely mapped than might appear looking at the genetic map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>The physical scale is
-  becoming more useful than the genetic scale primarily because many other data
-  types can be easily superimposed on a physical map. You will see more
-  examples in the next several slides.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
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-</span><span style='font-family:Verdana;font-size:64%'><i>Ctbp2</i></span><span
-style='font-family:Verdana;font-size:64%'> as a candidate QTL for </span><span
-style='font-family:Verdana;font-size:64%'><i>App</i></span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
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-</i></span></div>
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-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>This is</span><span
-style='font-size:233%;color:#E9EB5D'><i> the </i></span></span></layer><script>
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-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2 </i></span><span
-style='font-size:233%;color:#E9EB5D'>cis QTL, </span></span></layer><script>
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-</i></span></span></layer></div>
-</layer><script>
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>This is</span><span
-style='font-size:233%;color:#E9EB5D'><i> the App QTL </i></span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>in the INIA
-data set. </span><span style='font-size:233%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></span></layer></div>
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>This slide illustrates
-   one reason why Ctbp2 should be considered a high priority positional
-   candidate gene that may modulate the expression level of App.<span
-   style="mso-spacerun: yes">&nbsp; </span>Ctbp2 is a strong cis QTL in some
-   brain regions (here the data are taken from the striatum).<span
-   style="mso-spacerun: yes">&nbsp; </span>If Ctbp2 contains variants that
-   modulate its own expression then these expression differences may produce
-   many downstream effects. Of course, we now want to know much more about the
-   known biology of Ctbp2. What kind of gene is it? To begin to answer that
-   question we can use a number of resources listed in the LINKS page.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Verdana size=3> The App QTL is bimodal. Perhaps there are actually two
-   causal factors in this region--one close to 123 Mb and the other close to
-   127 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. The precision of QTL
-   mapping depends on several factors, including the effect size and
-   interactions among QTLs modulating a trait, the number of genetic
-   individuals that are studied, and the distribution of recombinations in the
-   study population.<span style="mso-spacerun: yes">&nbsp; </span>In the case
-   above, the QTL(s) are likely to be confined to the interval from 120 to 132
-   Mb. The bootstrap test (yellow bars shown in some of the previous slides)
-   can be usual for estimating the consistency of QTL peaks.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024_image109.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024_image109.png
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
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-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Physical map of variation
-  in App expression in brain on distal Chr 7 (a blow up of the whole-genome map
-  on the previous slide).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Verdana
-  size=2> You can now see that the X-axis is on a physical scale of megabases
-  (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. The small irregular
-  colored blocks and marks toward the top of the map mark the locations of
-  genes superimposed on the physical map. Neighboring genes are offset slightly
-  in the vertical axis for display purpose. Note one region of very high gene
-  density from about 120 to 123 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. The orange hash marks
-  along the X-axis represent the number of single nucleotide polymorphisms that
-  distinguish the two parental strains (C57BL/6J and DBA/2J) from each other.
-  We call this the SNP seismograph track (see Glossary for more details). Regions
-  with low numbers of SNP have closely matched sequences and are less likely to
-  contain QTLs.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4. As before, the thin red
-  line shows the additive effect size. By convention the positive values
-  signify the D alleles are associated with higher expression of App in this
-  region of Chr 7 than the B alleles. The maximum effect size is about +0.20
-  log2 expression units per D allele. The differences been the BB and DD
-  genotypes (BB and DD because each strain has two alleles; one per chromosome)
-  is therefore about 2^0.4 = 1.32; or a 32% increment in DD relative to BB at
-  this locus.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5. If you scroll just
-  under the Physical Map you will see text that reads �DISPLAY from XXX Mb TO
-  YYY Mb�..�<span style="mso-spacerun: yes">&nbsp; </span>These physical maps
-  are zoomable, a feature we will exploit to evaluate candidate genes in this
-  QTL interval.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
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-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
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-<script>
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-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.98 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Evaluating
-</span><span style='font-family:Verdana;font-size:64%'><i>Ctbp2</i></span><span
-style='font-family:Verdana;font-size:64%'> using other resources</span><span
-style='font-family:Verdana;font-size:73%;mso-special-format:lastCR;display:
-none'><i><br>
-</i></span></div>
-</layer></div>
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-<div><script language=JavaScript><!--
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-</layer><script>
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Ctbp2 should also be
-   considered a high priority biological candidate gene responsible for
-   modulating App expression levels. The C-terminal binding protein 2 is a
-   transcriptional co-repressor also known as Ribeye.</font><font
-   face=Times-Roman size=3> The gene produces two transcripts encoding distinct
-   proteins. The short form is a transcriptional repressor that binds a
-   Pro-X-Asp-Leu-Ser peptide motif and interacts with several transcription
-   factors including EVI1, ZFPM1, and ZFHX1A (aka TCF8, deltaEF1). The longer
-   isoform is a major component of specialized synapses in photoreceptors. Both
-   proteins contain a NAD+ binding domain similar to NAD+-dependent
-   2-hydroxyacid dehydrogenases.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. To find out more about
-   CTBP2 protein and the Ctbp2 gene, link to iHOP at
-   http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Try Arrowsmith at
-   http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. Both APP and CTBP2 are
-   involved in oxidoreducatase activity or Notch signaling. To establish this
-   common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
-   </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene and enter each gene
-   symbol.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. You can get
-   interesting hints regarding Ctbp2 expression partners by examining the
-   genetic correlations between Ctbp2 probe set 1422887_a_at and all other
-   transcripts on the M430 Affymetrix array. Use the Striatum data set because
-   we already know from previous work (the previous slide) that this gene is a
-   cis QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to
-   show that Ctbp2 and Notch3 have antagonistic expression patterns in
-   striatum. The negative genetic correlation with E2f4 is even stronger. The
-   transcript also has a high positive genetic correlation with Rdh14. Of
-   particular interest with respect to APP protein processing, Ctbp2 covaries
-   positively with Bace2 (the transcript of the beta site APP-cleaving enzyme
-   2).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4><b>Evaluating
-  candidate genes (CHECKED BOXES) responsible for variability in APP
-  expression:</b></font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>A large number
-  of genes are usually in the QTL interval and are therefore POSITIONAL
-  CANDIDATES, but they will differ greatly in their biological and
-  bioinformatic plausibility. Assume that the QTL has been located between 119
-  and 131 Mb (12 Mb). There will typically be 12 to 15 genes per Mb, so we
-  might need to evaluate several hundred positional candidates. In this
-  particular case there are about 100 known genes in this interval. Eight of
-  these are highlighted in the table above with check marks in the boxes to the
-  left.<span style="mso-spacerun: yes">&nbsp; </span>We need to highlight and
-  objectively score the biologically relevant subset of all 100 positional
-  candidate genes. We could look through gene ontologies and expression levels
-  to help us shorten the list. An alternate way available using WebQTL is to
-  generate a list of those genes in this interval that have transcripts that
-  co-vary in expression with App expression. That is what the table shows.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. To replicate
-  this table go back to the Trait Data and Analysis Form. Choose to sort
-  correlations by POSITION and select RETURN = 500. Then scroll down the list
-  to Chr 7 and review the subset of positional candidates that share expression
-  with App. You should see a list similar to that shown above. Gtf3c1 is a good
-  biological candidate and has a high covariation in expression with App.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>2. Caveat:<span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>Of course, the gene or genes
-  that control App expression may not be in this list. A protein coding
-  difference might be the ultimate cause of variation in App transcript level
-  and the expression covariation might be close to zero. Our list may also
-  simply be missing the right transcript since the microarray is not truly
-  comprehensive. Furthermore, even if the list contains the QT gene, an
-  expression difference may only have been expressed early in development or
-  even in another tissue such as liver. While it is important to recognize
-  these caveats, it is equally important to devise a rational way to rank
-  candidates given existing data. Coexpression is one of several criteria used
-  to evaluate positional candidates. We will see others in the next slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>3. We can also
-  assess the likelihood that candidates contain functional polymorphism in
-  promoters and enhancers that affect their expression simply by mapping the
-  transcripts of all candidate genes to see if they �map back� to the location
-  of gene itself. A transcript that maps to its own location is referred to as
-  a cis QTL. We essentially ask: Which of the the transcripts listed in the
-  Correlation Table above (from Gtf3c1 to Zranb1) has variation in expression
-  that maps to Chr 7 at about 120 Mb?<span style="mso-spacerun: yes">&nbsp;
-  </span>The logic of this search is that if a gene controls the level of its
-  own expression it is also much more likely to generate other downstream
-  effects. The Gtf3c1 transcript is a weak cis QTL with a local LRS maximum of
-  about 7.0 (D alleles are high). That is just about sufficient to declare it
-  to be a cis QTL. [No whole genome correction is required and a point-wise
-  p-value of 0.05 is the appropriate test. A p-value of 0.05 is roughly
-  equivalent to an LRS of 6.0 (LOD = 1.3).]</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026.htm
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-</span></span></layer></div>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
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-</span></span></layer></div>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
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-variation in the phenotype. </span></span></layer><script>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
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-<head>
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-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
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-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Even higher blow-up of
-  part of the Chr 7 physical map of variation in App expression in brain.<span
-  style="mso-spacerun: yes">&nbsp; </span>The QTL region actually extends from
-  about 119 to 129.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>1. As mentioned
-  in the previous slide another important approach to ranking candidates is
-  based on the number of sequence variants that distinguish the parental
-  strains. If we were sure that the sequences of the gene, its promoter, and
-  its enhancers were identical between the strains then we could discount--but
-  not eliminate--that gene as a candidate. The Gtf3c1 candidate almost falls
-  into this category: of 663 known SNPs in and around this gene, only four
-  differ between C57BL/6J and DBA/2J. Gtf3c1 is essentially
-  identical-by-descent in these strains and is a less likely candidate. In
-  contrast, if the two alleles of the gene have dozens of functional variants
-  in exons, promoters, enhancers, and splice sites, then it becomes a higher
-  priority candidate.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face="Times New Roman" size=4>Of course it
-  only takes a single critical sequence variant to generate downstream effects.
-  The argument above is really about the prior probabilities. Where would you
-  place your bets given the information at hand?</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2.<span
-  style="mso-spacerun: yes">&nbsp; </span>If you scroll down the INTERVAL
-  ANALYST you will find that Ctbp2 is a particularly interesting candidate that
-  contains lots of SNPs (n = 75 and a SNP density of 0.55 SNP/Kb). Ctbp2 is
-  also closer to our QTL peak than was Gtf3c1. Not only does Ctbp2 contain lots
-  of SNPs but it is also is associated with a powerful cis QTL with an LRS of
-  24.2 (divide by 4.61 to get the equivalent LOD score of 5.25).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3.<span
-  style="mso-spacerun: yes">&nbsp; </span>At this high magnification,
-  individual genes are distinct. They are color coded by their density of SNPs.
-  Bright orange represents those genes that have a high SNP density (C57BL/6J
-  versus DBA/2J), black represents genes with low SNP density. Roll the cursor
-  over a gene block and its name will pop up, along with information on exon
-  number.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>4.<span
-  style="mso-spacerun: yes">&nbsp; </span>Beneath the physical map you will
-  find an INTERVAL ANALYST table that lists information on known genes in the
-  region on which you have zoomed the Physical Map.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>5.<span
-  style="mso-spacerun: yes">&nbsp; </span>As always: error-checking is
-  important. Some genes may be missing from the Interval Analyst (recent
-  additions or errors of omission). In this case the Zranb1 gene that is
-  located just proximal to Ctbp2 is not listed in the INTERVAL ANALYST.
-  Double-check the interval using the Genome Browser links (blue and beige
-  horizontal bars) at the top of the PHYSICAL MAP.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<div><script language=JavaScript><!--
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-document.write(
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-</script></div>
-</layer><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.08 * g_height; mywidth = 1.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
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-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.98 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Test
-Questions</span><span style='font-family:Verdana;font-size:73%;mso-special-format:
-lastCR;display:none'><i><br>
-</i></span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.11 * g_height; myleft = 0.04 * g_width; myheight = 0.06 * g_height; mywidth = 1.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><span style='font-size:233%;color:#E9EB5D'>1. Evaluate
-candidates for the Chr 3 </span><span style='font-size:233%;color:#E9EB5D'><i>App</i></span><span
-style='font-size:233%;color:#E9EB5D'> QTL.</span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</layer><script>
-	mytop = 0.24 * g_height; myleft = 0.04 * g_width; myheight = 0.12 * g_height; mywidth = 1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>2. Do </span><span
-style='font-size:233%;color:#E9EB5D'><i>App</i></span><span style='font-size:
-233%;color:#E9EB5D'> and </span><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span
-style='font-size:233%;color:#E9EB5D'> expression share any </span></span></layer><script>
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>other QTLs
-beside that on Chr 7?</span><span style='font-size:233%;color:#E9EB5D;
-mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></layer></div>
-</layer><script>
-	mytop = 0.43 * g_height; myleft = 0.04 * g_width; myheight = 0.19 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>3. Can you
-exploit literature mining tools to </span></span></layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.01 * g_width;
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>find a
-strong relationship between </span><span style='font-size:233%;color:#E9EB5D'><i>App</i></span><span
-style='font-size:233%;color:#E9EB5D'> and </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span
-style='font-size:233%;color:#E9EB5D'>? </span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></layer></div>
-</layer><script>
-	mytop = 0.69 * g_height; myleft = 0.04 * g_width; myheight = 0.12 * g_height; mywidth = 1.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>4. Why might
-the cis QTL for </span><span style='font-size:233%;color:#E9EB5D'><i>Ctbp2</i></span><span
-style='font-size:233%;color:#E9EB5D'> expression </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>only be
-detected in the striatum data set?</span><span style='font-size:233%;
-color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></layer></div>
-</layer></div>
-</LAYER>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
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-</script>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>This slide illustrates one
-  reason why Ctbp2 should be considered a high priority positional candidate
-  gene that may modulate the expression level of App.<span style="mso-spacerun:
-  yes">&nbsp; </span>Ctbp2 is a strong cis QTL in some brain regions (here the
-  data are taken from the striatum).<span style="mso-spacerun: yes">&nbsp;
-  </span>If Ctbp2 contains variants that modulate its own expression then these
-  expression differencess may produce many downstream effects. Of course, we
-  now want to know much more about the known biology of Ctbp2. What kind of
-  gene is it? To begin to answer that question we can use a number of resources
-  listed in the LINKS page.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Verdana
-  size=2> The App QTL is bimodal. Perhaps there are actually two causal factors
-  in this region--one close to 123 Mb and the other close to 127 Mb.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. The precision of QTL
-  mapping depends on several factors, including the effect size and
-  interactions among QTLs modulating a trait, the number of genetic individuals
-  that are studied, and the distribution of recombinations in the study
-  population.<span style="mso-spacerun: yes">&nbsp; </span>In the case above,
-  the QTL(s) are likely to be confined to the interval from 120 to 132 Mb. The
-  bootstrap test (yellow bars shown in some of the previous slides) can be
-  usual for estimating the consiistency of QTL peaks.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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@@ -1,112 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
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-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
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-<meta name=Description
-content="Aug-15-05: Contact for comments and improvements:">
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-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
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-color:#E9EB5D'>kmanly@utmem.edu</span></div>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D'>The </span><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D'><i>App</i></span><span style='font-family:"Gill Sans";
-font-size:200%;color:#E9EB5D'> findings reviewed in this presentation are part
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-</span></span></layer></div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image123.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image123.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_notes_pane.htm
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
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-<link id=Main-File rel=Main-File href="webqtl_demo2.ppt.htm">
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-href="webqtl_demo2.ppt.ppt">
-<script>
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-</head>
-<body bgcolor=black text=white>
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- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Ctbp2 should also be
-  considered a high priority biological candidate gene responsible for
-  modulating App expression levels. The<span style="mso-spacerun: yes">&nbsp;
-  </span>C-terminal binding protein 2 is a transcriptional co-repressor also
-  known as Ribeye.</font><font face=Times-Roman size=2> The gene produces two
-  transcripts encoding distinct proteins. The short form is a transcriptional
-  repressor that binds a Pro-X-Asp-Leu-Ser peptide motif common to adenoviral
-  oncoprotein E1a and a related motif in BKLF. This short form also interacts<span
-  style="mso-spacerun: yes">&nbsp; </span>with several transcription factors
-  including EVI1, ZFPM1, and<span style="mso-spacerun: yes">&nbsp;&nbsp;
-  </span>ZFHX1A (aka TCF8, deltaEF1). The longer isoform is a major component
-  of specialized synapses in photoreceptors. Both proteins contain a NAD+
-  binding domain similar to NAD+-dependent 2-hydroxyacid dehydrogenases.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>1. To find out more about
-  CTBP2 protein and the Ctbp2 gene, link to iHOP at
-  http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>Try Arrowsmith at
-  http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>2. Both APP and CTBP2 are
-  involved in oxidoreducatase activity or Notch signalling. To estabilish this
-  common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
-  </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene<span
-  style="mso-spacerun: yes">&nbsp; </span>and enter each gene symbol.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Verdana size=2>3. You can get intersting
-  hints regarding Ctbp2 expression partners by examining the genetic
-  correlations between Ctbp2 probe set 1422887_a_at and all other transcripts
-  on the M430 Affymetrix array. Use the Striatum data set because we already
-  know from previous work (the previous slide) that this gene is a cis
-  QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to show
-  that Ctbp2 and Notch3 have antagonistic expression patterns in striatum. The
-  negative genetic correlation with E2f4 is even stronger. The transcript also
-  has a high positive genetic correlation with Rdh14. Of particualr interest
-  with respect to APP protein processing, Ctbp2 covaries positiviely with Bace2
-  (the transcript of the beta site APP-cleaving enzyme 2).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
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-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0031.htm
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-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>By clicking on the
-   CORRELATION of the Atcay transcript to the App transcript, you can generate
-   a Correlation plot between these two transcripts. In this App and Atcay
-   scatterplot, each point is a strain mean value. For example, BXD33 and BXD8
-   have low App and Atcay expressions. The two parental strains and the F1 are
-   also included in this plot.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0044.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0044.htm
deleted file mode 100755
index ec5c2e3c..00000000
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-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript and eight of
-its neighbors</span></div>
-</layer></div>
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-   <td width="100%"></td>
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-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>A group of traits from
-   many different databases can be selected and brought together for joint
-   analysis. In this case all of the content of the BXD SELECTIONS is from a
-   single BRAIN database, the top 20 neighbors of the App transcript from the
-   Correlation Results table. Eight of these neighbors plus App is shown in the
-   slide.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>All of items in the BXD SELECTIONS were selected using
-   the SELECT ALL button</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. The buttons at the
-   top (and bottom) of this page can do some cool stuff. We will work with
-   NETWORK GRAPH first.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. Think of the
-   SELECTIONS as your shopping cart. You go to different aisles in the
-   supermarket to acquire different types of items of interest. These could
-   include transcripts, classical phenotypes (longevity, brain weight, prepulse
-   inhibition, iron levels in midbrain). �Checking out� in this case involves
-   doing some analysis with the items in the cart.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>4. Different tools
-   handle different numbers of items. Most will handle up to 100 traits.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
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-//-->
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-</body>
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-\ No newline at end of file
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deleted file mode 100755
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-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%'><span style='font-size:82%'><i>App</i></span><span
-style='font-size:82%'> transcript coexpression neighborhood</span><span
-style='mso-special-format:lastCR;display:none'><br>
-</span></div>
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-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Output of the Network
-   Graph. Warm colors (orange and red) are positive correlations above 0.5
-   whereas cool colors (green and blue) are negative correlations. Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3> All of the nodes (gene/transcripts) on this graph are
-   clickable.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. For this graph the
-   App expression values have �reverted� to their pre-Windsorized values.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. To generate this
-   graph, we used the default setting:<span style="mso-spacerun: yes">&nbsp;
-   </span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use
-   curved lines (aka �edges�).</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0046.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0046.htm
deleted file mode 100755
index 93429543..00000000
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-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
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-</LAYER>
-
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- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Going back to the Trait
-   Data and Analysis Form window, we have computed the correlations between
-   strain variation in App expression level and other classical phenotypes that
-   have already been measured in many of the same BXD strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>The number of common strains varies widely--in this
-   case from 14 to 23 strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. We can add these
-   traits (four are selected) to our BXD SELECTIONS window.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0047.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0047.htm
deleted file mode 100755
index e7568e44..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0047.htm
+++ /dev/null
@@ -1,93 +0,0 @@
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-<script>
-if ( ! top.PPTPRESENTATION ) {
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-   <td colspan=1></td>
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-   Network Graph, now using other types of traits.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Saline Hot Plate
-   Latency is the green node labeled 10020.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Freezing (fear) is the
-   green node labeled 10447.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
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-
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-//-->
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-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0048.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0048.htm
deleted file mode 100755
index f36b1e25..00000000
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-</span></span></layer></div>
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-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to generate a
-scattergram between two </span></span></layer><script>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
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-</span></span></layer></div>
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deleted file mode 100755
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-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.3 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.3 * g_width;
-yy = 0.2 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image041.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.15 * g_height; myleft = 0.62 * g_width; myheight = 0.09 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>DBA/2J
-(D)<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.66 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.66 * g_width;
-yy = 0.2 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image042.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.23 * g_width; myheight = 0.01 * g_height; mywidth = 0.5 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.23 * g_width;
-yy = 0.35 * g_height;
-ht = 0.01 * g_height;
-wd = 0.5 * g_width;
-document.write(
-'<img border=0 src="slide0019_image043.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.24 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.24 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image044.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.4 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.4 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image045.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.57 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.57 * g_width;
-yy = 0.35 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image046.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.35 * g_height; myleft = 0.74 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.74 * g_width;
-yy = 0.35 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image047.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.42 * g_height; myleft = 0.05 * g_width; myheight = 0.12 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F1<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.22 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.22 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image048.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.38 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.38 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image049.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.55 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.55 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image050.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.39 * g_height; myleft = 0.72 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.72 * g_width;
-yy = 0.39 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image051.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.43 * g_height; myleft = 0.43 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.43 * g_width;
-yy = 0.43 * g_height;
-ht = 0.03 * g_height;
-wd = 0.11 * g_width;
-document.write(
-'<img border=0 src="slide0019_image052.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.6 * g_height; myleft = 0.2 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.2 * g_width;
-yy = 0.6 * g_height;
-ht = 0.03 * g_height;
-wd = 0.09 * g_width;
-document.write(
-'<img border=0 src="slide0019_image053.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.71 * g_height; myleft = 0.58 * g_width; myheight = 0.26 * g_height; mywidth = 0.2 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.03 * g_height; myleft = 0.01 * g_width; myheight = 0.22 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.15 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>20 generations </b></span></span></layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>brother-sister </b></span></span></layer><script>
-	mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:117%;
-color:#FFFF99'><b>matings</b></span><span style='font-family:Arial;font-size:
-233%;color:#FFFF99;display:none'><b><br>
-</b></span></span></layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-269 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:233%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.6 * g_height; myleft = 0.5 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.5 * g_width;
-yy = 0.6 * g_height;
-ht = 0.03 * g_height;
-wd = 0.09 * g_width;
-document.write(
-'<img border=0 src="slide0019_image054.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.54 * g_width; myheight = 0.28 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.54 * g_width;
-yy = 0.62 * g_height;
-ht = 0.28 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image055.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.61 * g_height; myleft = 0.79 * g_width; myheight = 0.03 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.79 * g_width;
-yy = 0.61 * g_height;
-ht = 0.03 * g_height;
-wd = 0.1 * g_width;
-document.write(
-'<img border=0 src="slide0019_image056.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.83 * g_width; myheight = 0.28 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.83 * g_width;
-yy = 0.62 * g_height;
-ht = 0.28 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image057.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.21 * g_width; myheight = 0.09 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD1</span><span
-style='font-family:Arial;font-size:150%;color:#484848;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#484848;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.51 * g_width; myheight = 0.09 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>BXD2<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.92 * g_height; myleft = 0.8 * g_width; myheight = 0.05 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>BXD80</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.9 * g_height; myleft = 0.64 * g_width; myheight = 0.17 * g_height; mywidth = 0.17 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.15 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:300%;color:#FFFF99'>+ � +<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:300%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.62 * g_height; myleft = 0.04 * g_width; myheight = 0.12 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99'><b>F2<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-230 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:200%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.18 * g_width; myheight = 0.01 * g_height; mywidth = 0.75 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.18 * g_width;
-yy = 0.54 * g_height;
-ht = 0.01 * g_height;
-wd = 0.75 * g_width;
-document.write(
-'<img border=0 src="slide0019_image058.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.17 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.17 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image059.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.32 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.32 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image060.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.48 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.48 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image061.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.62 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.62 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image062.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.77 * g_width; myheight = 0.04 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.77 * g_width;
-yy = 0.54 * g_height;
-ht = 0.04 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image063.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.92 * g_width; myheight = 0.03 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.92 * g_width;
-yy = 0.54 * g_height;
-ht = 0.03 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image064.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.44 * g_height; myleft = 0.49 * g_width; myheight = 0.1 * g_height; mywidth = 0 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.49 * g_width;
-yy = 0.44 * g_height;
-ht = 0.1 * g_height;
-wd = 0 * g_width;
-document.write(
-'<img border=0 src="slide0019_image065.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.15 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.15 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image066.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.3 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.3 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image067.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.46 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.46 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image068.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.6 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.6 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image069.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.75 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.75 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image070.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = 0.9 * g_width; myheight = 0.11 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.9 * g_width;
-yy = 0.57 * g_height;
-ht = 0.11 * g_height;
-wd = 0.04 * g_width;
-document.write(
-'<img border=0 src="slide0019_image071.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.84 * g_height; myleft = 0.56 * g_width; myheight = 0.01 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.56 * g_width;
-yy = 0.84 * g_height;
-ht = 0.01 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image072.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.8 * g_height; myleft = 0.25 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.25 * g_width;
-yy = 0.8 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image073.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.84 * g_height; myleft = 0.86 * g_width; myheight = 0.02 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.86 * g_width;
-yy = 0.84 * g_height;
-ht = 0.02 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image074.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.75 * g_height; myleft = 0.01 * g_width; myheight = 0.13 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'><b>BXD RI<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'><b>Strain set<br>
-</b></span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.01 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><b><br>
-</b></span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.12 * g_height; myleft = 0.14 * g_width; myheight = 0.06 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.14 * g_width;
-yy = 0.12 * g_height;
-ht = 0.06 * g_height;
-wd = 0.1 * g_width;
-document.write(
-'<img border=0 src="slide0019_image075.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.76 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.76 * g_width;
-yy = 0.1 * g_height;
-ht = 0.08 * g_height;
-wd = 0.14 * g_width;
-document.write(
-'<img border=0 src="slide0019_image076.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.2 * g_height; myleft = 0.17 * g_width; myheight = 0.13 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>fully<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>inbred<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.38 * g_height; myleft = 0.02 * g_width; myheight = 0.09 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>isogenic<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.54 * g_height; myleft = 0.01 * g_width; myheight = 0.13 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.11 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>hetero-<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.11 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>geneous<br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.74 * g_height; myleft = 0.29 * g_width; myheight = 0.21 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.19 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.15 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>Recombined </span></span></layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>chromosomes </span></span></layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>are needed for </span></span></layer><script>
-	mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:center'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99'>mapping<br>
-</span></span></layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-173 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:150%;
-color:#FFFF99;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.25 * g_width; myheight = 0.09 * g_height; mywidth = 0.1 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>female<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.64 * g_width; myheight = 0.09 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99'>male<br>
-</span></div>
-</layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.3 * g_height; myleft = 0.78 * g_width; myheight = 0.09 * g_height; mywidth = 0.19 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:117%;color:#FFFF99'>chromosome
-pair</span><span style='font-family:Arial;font-size:150%;color:#FFFF99;
-display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.15 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-family:Arial;font-size:150%;color:#FFFF99;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.31 * g_height; myleft = 0.65 * g_width; myheight = 0.02 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.65 * g_width;
-yy = 0.31 * g_height;
-ht = 0.02 * g_height;
-wd = 0.12 * g_width;
-document.write(
-'<img border=0 src="slide0019_image077.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.86 * g_height; myleft = 0.03 * g_width; myheight = 0.14 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.12 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:117%;
-color:#E9EB5D'>Inbred<br>
-</span></div>
-</layer><script>
-	mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.08 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:117%;
-color:#E9EB5D'>Isogenic<br>
-</span></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:117%;
-color:#E9EB5D'>siblings</span><span style='font-family:Arial;font-size:117%;
-color:aqua;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.09 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.07 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-family:Arial;font-size:117%;
-color:aqua;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.79 * g_height; myleft = 0.83 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.83 * g_width;
-yy = 0.79 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image078.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.84 * g_height; myleft = 0.83 * g_width; myheight = 0.02 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.83 * g_width;
-yy = 0.84 * g_height;
-ht = 0.02 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image079.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.79 * g_height; myleft = 0.53 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.53 * g_width;
-yy = 0.79 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image080.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.83 * g_height; myleft = 0.53 * g_width; myheight = 0.01 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.53 * g_width;
-yy = 0.83 * g_height;
-ht = 0.01 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image081.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.8 * g_height; myleft = 0.23 * g_width; myheight = 0.11 * g_height; mywidth = 0.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.23 * g_width;
-yy = 0.8 * g_height;
-ht = 0.11 * g_height;
-wd = 0.01 * g_width;
-document.write(
-'<img border=0 src="slide0019_image082.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.18 * g_height; myleft = 0.43 * g_width; myheight = 0.09 * g_height; mywidth = 0.13 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-341 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><span style='font-family:Arial;font-size:300%;
-color:aqua'>B</span><span style='font-family:Arial;font-size:300%;color:#FFFF99'>X</span><span
-style='font-family:Arial;font-size:300%;color:#FF1911'>D</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.27 * g_height; myleft = 0.32 * g_width; myheight = 0.04 * g_height; mywidth = 0.31 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.32 * g_width;
-yy = 0.27 * g_height;
-ht = 0.04 * g_height;
-wd = 0.31 * g_width;
-document.write(
-'<img border=0 src="slide0019_image083.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
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-   <td align=left colspan=1><font face=Verdana size=3>The next few slides
-   provide a short introduction to mapping the loci that are responsible for
-   variation in a trait such as App expression level. These modulatory regions
-   of the genome are sometimes called quantitative trait loci or QTLs. You may
-   want to do some independent reading on this topic if this is your first
-   exposure to QTL analysis.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The genetic reference
-   population (GRP) of BXD recombinant inbred strains were originally generated
-   about 25 years ago by Benjamin Taylor at The Jackson Laboratory. He crossed
-   female C57BL/6J mice with male DBA/2J mice to generate the F1 and F2
-   progeny. At the bottom of this slide we have schematized one chromosome pair
-   from three of the BXD RI strains.<span style="mso-spacerun: yes">&nbsp;
-   </span>The dashed vertical lines that lead to the final BXD RI lines involve
-   21 full sib matings (about 7 years of breeding). Some lines die out during
-   inbreeding. For example, there is no longer any BXD3 strain.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. Over the last decade,
-   our group (Lu Lu and Rob Williams) and Jeremy Peirce and Lee Silver at
-   Princeton have enlarged Ben Taylor�s set. There are now just over 80 BXD
-   strains. They have all been genotyped using about 13,700 markers (SNPs and
-   microsatellites). These markers are used to define the �blue� and �red�
-   regions of the chromosomes as shown in the figure above.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. Chromosomes of RI GRPs
-   usually have about 4 times as many recombinations as those of F2 animals.
-   However, unlike an F2, both chromosomes of an RI are identical. Therefore,
-   50 RI strains contain as many recombinations as 100 F2 animals.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. BXD43 through BXD100
-   were generated using a special method that resulted in a further doubling of
-   the average recombination density per chromosome. The entire set of 80 BXDs
-   therefore contains as many recombinations as about 260 F2 animals.</font><br>
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deleted file mode 100755
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-</span></span></layer></div>
-</layer><script>
-	mytop = 0.14 * g_height; myleft = 0 * g_width; myheight = 0.09 * g_height; mywidth = 0.27 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-422 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:367%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.06 * g_height; myleft = 0.72 * g_width; myheight = 0.19 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:white'>4 </span><span style='font-size:
-233%;color:white'>units</span><span style='font-family:Palatino;font-size:333%;
-color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.29 * g_height; myleft = 0.72 * g_width; myheight = 0.19 * g_height; mywidth = 0.21 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0.02 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:267%;color:white'>2</span><span style='font-size:
-233%;color:white'> units</span><span style='font-family:Palatino;font-size:
-333%;color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.18 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-family:Palatino;font-size:333%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.15 * g_height; myleft = 0.31 * g_width; myheight = 0.05 * g_height; mywidth = 0.4 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = 0.31 * g_width;
-yy = 0.15 * g_height;
-ht = 0.05 * g_height;
-wd = 0.4 * g_width;
-document.write(
-'<img border=0 src="slide0020_image094.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.17 * g_height; myleft = 0.09 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0'>D<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.17 * g_height; myleft = 0.17 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69'>B<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.79 * g_height; myleft = 0.05 * g_width; myheight = 0.13 * g_height; mywidth = 1.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.12 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%;mso-line-spacing:"-256 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17;mso-line-spacing:"-256 0 0";mso-margin-left-alt:17;
-mso-text-indent-alt:17'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:233%;color:#E2EBF0'>D</span><span
-style='font-size:233%;color:#E9EB5D'> </span><span style='font-size:200%;
-color:#E9EB5D'>and </span><span style='font-size:233%;color:#F6BF69'>B</span><span
-style='font-size:233%;color:#E9EB5D'> </span><span style='font-size:200%;
-color:#E9EB5D'>may be SNP-like variants in the promoter </span></span></layer><script>
-	mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 1.02 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script><span
-style='text-align:left'><span style='font-size:200%;color:#E9EB5D'>itself (cis
-QTL) or in </span><span style='font-size:200%;color:#EAEC5E'>upstream genes
-(trans QTLs)</span><span style='font-size:300%;color:#E9EB5D'>.</span></span></layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.04 * g_width; myheight = 0.16 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D'>UPSTREAM<br>
-</span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.22 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D'>modulators<br>
-</span></div>
-</layer><script>
-	mytop = 0.1 * g_height; myleft = 0.01 * g_width; myheight = 0.05 * g_height; mywidth = 0.2 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:center;mso-line-spacing:"-233 0 0";mso-margin-left-alt:
-17;mso-text-indent-alt:17'><span style='font-size:200%;color:#E9EB5D;
-mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
-	mytop = 0.07 * g_height; myleft = 0.44 * g_width; myheight = 0.17 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:300%;color:#E2EBF0'>High<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
-16'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.63 * g_height; myleft = 0.08 * g_width; myheight = 0.17 * g_height; mywidth = 0.06 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0'>D<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.63 * g_height; myleft = 0.15 * g_width; myheight = 0.17 * g_height; mywidth = 0.05 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.16 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.04 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69'>B<br>
-</span></div>
-</layer><script>
-	mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.03 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-350 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:300%;color:#F6BF69;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.71 * g_height; myleft = 0.07 * g_width; myheight = 0.12 * g_height; mywidth = 0.16 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script>
-	mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.14 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:200%;color:#E9EB5D'><i>cis QTL</i></span><span
-style='font-size:200%;color:#E9EB5D;display:none'><br>
-</span></div>
-</layer><script>
-	mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.12 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:200%;color:#E9EB5D;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.57 * g_height; myleft = -0.01 * g_width; myheight = 0.07 * g_height; mywidth = 1.01 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div><script language=JavaScript><!--
-xx = -0.01 * g_width;
-yy = 0.57 * g_height;
-ht = 0.07 * g_height;
-wd = 1.01 * g_width;
-document.write(
-'<img border=0 src="slide0020_image095.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' );
-//-->
-</script></div>
-</layer><script>
-	mytop = 0.44 * g_height; myleft = 0.47 * g_width; myheight = 0.12 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.09 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-line-spacing:"-272 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17'><span style='font-size:233%;color:#F6BF69'>Low<br>
-</span></div>
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-   <td align=left colspan=1><font face=Helvetica size=3>This slide is
-   illustrates two major types of QTLs that modulate variability in
-   transcript-relative steady state abundance.</font><br>
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-   <td align=left colspan=1><font face=Helvetica size=3>1. cis QTLs are defined
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-   stability.</font><br>
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-   <td align=left colspan=1><font face=Helvetica size=3>2. trans QTLs map far
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-   that is being measured so that we can be fairly certain that the QTL is not
-   in the gene itself. The most blatant type of trans QTL would be a
-   polymorphism in a transcription factor. But in the majority of cases, the
-   trans QTLs can be far removed in a mechanistic sense from the actual events
-   modulating transcript abundance. That is why there are three overlapping
-   arrows in the figure.<span style="mso-spacerun: yes">&nbsp; </span>The way
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-   abundance can be indirect. Effects can:</font><br>
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-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>c.<span style="mso-spacerun:
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
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-mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-line-spacing:"-358 0 -1"'><span
-style='font-family:Verdana;font-size:64%'>Discovering upstream modulatory loci</span><span
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-none'><i><br>
-</i></span></div>
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Please bring the Trait
-   Data and Analysis window to the front and look for the Interval Mapping
-   button. Confirm that you are back to the trait amyloid beta precursor
-   protein.<span style="mso-spacerun: yes">&nbsp; </span>If so, then just click
-   the button.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notice that the default
-   for:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Select Chrs (chromosomes)
-   is ALL</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Select Mapping Scale is
-   set to GENETIC</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Options: Permutation test
-   YES<span style="mso-spacerun: yes">&nbsp; </span>(2000 is the default
-   number)</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Options: Bootstrap test
-   YES (2000 is the default number)</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0053.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0053.htm
deleted file mode 100755
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
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-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'><i>WebQTL
-searches for upstream controllers</i></span><span style='font-family:Verdana;
-font-size:73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
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-style='text-align:left'><span style='font-size:167%;color:#E9EB5D'><i>locus is
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-lastCR;display:none'><i><br>
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>This is a major output
-   type: a so-called full-genome interval map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The X-axis represents all
-   19 autosomes and the X chromosome as if they were laid end to end with short
-   gaps between the telomere of one chromosome and the centromere of the next
-   chromosome (mouse chromosomes only have a single long arm and the centromere
-   represents the origin of each chromosome for numerical purpose: 0
-   centimorgans at almost 0 megabases). The blue labels along the bottom of the
-   figure list a subset of the 3795 markers that were used in mapping.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The thick blue wavy line
-   running across chromosomes summarizes the strength of association between
-   variation in the phenotype (App expression differences) and the two
-   genotypes of all markers and the intervals between markers (hence, interval
-   mapping).<span style="mso-spacerun: yes">&nbsp; </span>The height of the
-   wave (blue Y-axis to the left) provides the likelihood ratio statistic
-   (LRS). Divide by 4.61 to convert these values to LOD scores.<span
-   style="mso-spacerun: yes">&nbsp; </span>Or you can read them as a
-   chi-square-like statistic.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The red line and the red
-   axis to the far right provides an estimate of the effect that a QTL has on
-   expression of App (this estimate of the so-called additive effect tends to
-   be too high). If the red line is below the X-axis then this means that the
-   allele inherited from C57BL/6J (B6 or B) at a particular marker is
-   associated with higher values. If the red line is above the X-axis then the
-   DBA/2J allele (D2 or D) is associated with higher trait values. Multiply the
-   additive effect size by 2 to estimate the difference between the set of
-   strains that have the B/B genotype and those that have the D/D genotype at a
-   specific marker. For example, on distal Chr 7 the red line peaks at a value
-   of about 0.2. That means that this region of chromosome 2 is responsible for
-   a 0.4 unit expression difference between B/B strains and the D/D strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The yellow histogram
-   bars: These summarize the results of a whole-genome bootstrap of the trait
-   that is performed 1000 times. What is a bootstrap? A bootstrap provides a
-   method to evaluate whether results are robust. If we drop out one strain, do
-   we still get the same results? When mapping quantitative traits, each strain
-   normally gets one equally weighted vote. But using the bootstrap procedure,
-   we give each strain a random weighting factor of between 0 and 1.<span
-   style="mso-spacerun: yes">&nbsp; </span>We then remap the trait and find THE
-   SINGLE BEST LRS VALUE per bootstrap. We do this 1000 times. In this example,
-   most bootstrap results cluster on Chr 3 and Chr 7 under the LRS peaks. That
-   is somewhat reassuring. But notice that a substantial number of bootstrap
-   are scattered around on other chromosomes. About 30% of the bootstrap
-   resamples have a peak on Chr 7. That is pretty good, but does makes us
-   realize that the sample we are working with is still quite small and
-   fragile.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The horizontal dashed
-   lines at 10.5 and 17.3 are the likelihood ratio statistic (LRS) values
-   associated with the suggestive and significant genome-wide probabilities
-   that were established by permutations of phenotypes across genotypes. We
-   shuffle randomly 2000 times and obtain a distribution of peak LRS scores to
-   generate a null distribution. Five percent of the time, one of these
-   permuted data sets will have a peak LRS higher than 17.3. We call that level
-   the 0.05 significance threshold for a whole genome scan. The p = 0.67 point
-   is the the suggestive level, and corresponds to the green dashed line.<span
-   style="mso-spacerun: yes">&nbsp; </span>These thresholds are conservative
-   for transcripts that have expression variation that is highly heritable. The
-   putative or suggestive QTL on Chr 3 is probably more than just suggestive.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>One other point: the
-   mapping procedure we use is computationally very fast, but it is relatively
-   simple. We are not looking for gene-gene interactions and we are not fitting
-   multiple QTLs in combinations. Consider this QTL analysis a first pass that
-   will highlight hot spots and warm spots that are worth following up on using
-   more sophisticated models.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>CLICKABLE REGIONS:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. If you click on the
-   Chromosome number then you will generate a new map just for that chromosome.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. If you click on the
-   body of the map, say on the blue line, then you will generate a view on a 10
-   Mb window of that part of the genome from the UCSC Genome Browser web site.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. If you click on a
-   marker symbol, then you will generate a new Trait data and Analysis window
-   with the genotypes loaded into the window just like any other trait. More on
-   this in Section 3.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4. You can drag these
-   maps off of the browser window and onto your desktop. They will be saved as
-   PNG or PDF files. You can import them into Photoshop or other programs.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5. There is also an
-   option at the bottom of the page to download a 2X higher resolution image of
-   this plot for papers and presentations.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>6. You can also download
-   the results of the analysis in a text format</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0054.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0054.htm
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-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'><i>Genetic
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-style='text-align:left'><span style='font-size:117%;color:#E9EB5D'><i>The
-difference between genetic and physical scale is analogous to measuring the </i></span></span></layer><script>
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-between New York and Boston in either travel hours or kilometers</i></span><span
-style='font-size:150%;color:#E9EB5D'><i>.</i></span><span style='font-size:
-167%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></span></layer></div>
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- <table style='color:white' border=0 width="100%">
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-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The map on the top has an
-   X-axis scale based on frequency of recombinations events between markers (B
-   to D transitions, see slide 19 for a color-coded example). These so-called
-   genetic maps are scaled in centimorgan (recombinations per 100 gametes). In
-   contrast, the physical map shown below the genetic map has an X-axis scale
-   based on DNA length measured in nucleotides or base-pairs. Notice the large
-   difference between the two maps in the size of Chr 19 (large on the genetic
-   scale but small on the physical scale).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Also notice the large
-   difference in the width of the chromosome 7 QTL peak. In mice,
-   recombinations occur with higher frequency toward the telomeric side (righ
-   sidet) of each chromosome. As a result, genetic maps are stretched out more
-   toward the telomere relative to a physical map. The QTL on distal Chr 7 is
-   therefore actually more precisely mapped than might appear looking at the
-   genetic map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>The physical scale is
-   becoming more useful than the genetic scale primarily because many other
-   data types can be easily superimposed on a physical map. You will see more
-   examples in the next several slides.</font><br>
-   </td>
-  </tr>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0055.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0055.htm
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index cae5b4b9..00000000
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
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-mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Physical
-map for distal chromosome 7</span><span style='font-family:Verdana;font-size:
-73%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</layer></div>
-</layer><script>
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-<div><script>
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-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><span style='font-size:167%;color:#E9EB5D'>Distal Chr 7 from
-~120 and 132 Mb may modulate</span><span style='font-size:167%;color:#E9EB5D'><i>
-App</i></span><span style='font-size:200%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
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-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Physical map of variation
-   in App expression in brain on distal Chr 7 (a blow up of the whole-genome
-   map on the previous slide).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Verdana size=3> You can now see that the X-axis is on a physical scale
-   of megabases (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. The small irregular
-   colored blocks and marks toward the top of the map mark the locations of
-   genes superimposed on the physical map. Neighboring genes are offset
-   slightly in the vertical axis for display purpose. Note one region of very
-   high gene density from about 120 to 123 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. The orange hash marks
-   along the X-axis represent the number of single nucleotide polymorphisms
-   that distinguish the two parental strains (C57BL/6J and DBA/2J) from each
-   other. We call this the SNP seismograph track (see Glossary for more
-   details). Regions with low numbers of SNP have closely matched sequences and
-   are less likely to contain QTLs.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4. As before, the thin
-   red line shows the additive effect size. By convention the positive values
-   signify the D alleles are associated with higher expression of App in this
-   region of Chr 7 than the B alleles. The maximum effect size is about +0.20
-   log2 expression units per D allele. The differences been the BB and DD
-   genotypes (BB and DD because each strain has two alleles; one per
-   chromosome) is therefore about 2^0.4 = 1.32; or a 32% increment in DD
-   relative to BB at this locus.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5. If you scroll just
-   under the Physical Map you will see text that reads �DISPLAY from XXX Mb TO
-   YYY Mb�..�<span style="mso-spacerun: yes">&nbsp; </span>These physical maps
-   are zoomable, a feature we will exploit to evaluate candidate genes in this
-   QTL interval.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0056.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0056.htm
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index eba3fc05..00000000
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-<link title="Presentation File" type="application/powerpoint" rel=alternate
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-style='font-family:Verdana;font-size:64%'>Evaluating candidate genes</span><span
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-position<br>
-</i></span></div>
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-<div style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>candidates</i></span></div>
-</layer></div>
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4><b>Evaluating
-   candidate genes (CHECKED BOXES) responsible for variability in APP
-   expression:</b></font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>A large number
-   of genes are usually in the QTL interval and are therefore POSITIONAL
-   CANDIDATES, but they will differ greatly in their biological and
-   bioinformatic plausibility. Assume that the QTL has been located between 119
-   and 131 Mb (12 Mb). There will typically be 12 to 15 genes per Mb, so we
-   might need to evaluate several hundred positional candidates. In this
-   particular case there are about 100 known genes in this interval. Eight of
-   these are highlighted in the table above with check marks in the boxes to
-   the left.<span style="mso-spacerun: yes">&nbsp; </span>We need to highlight
-   and objectively score the biologically relevant subset of all 100 positional
-   candidate genes. We could look through gene ontologies and expression levels
-   to help us shorten the list. An alternate way available using WebQTL is to
-   generate a list of those genes in this interval that have transcripts that
-   co-vary in expression with App expression. That is what the table shows.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>1. To replicate
-   this table go back to the Trait Data and Analysis Form. Choose to sort
-   correlations by POSITION and select RETURN = 500. Then scroll down the list
-   to Chr 7 and review the subset of positional candidates that share
-   expression with App. You should see a list similar to that shown above.
-   Gtf3c1 is a good biological candidate and has a high covariation in
-   expression with App.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>2. Caveat:<span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>Of course, the gene or genes
-   that control App expression may not be in this list. A protein coding
-   difference might be the ultimate cause of variation in App transcript level
-   and the expression covariation might be close to zero. Our list may also
-   simply be missing the right transcript since the microarray is not truly
-   comprehensive. Furthermore, even if the list contains the QT gene, an
-   expression difference may only have been expressed early in development or
-   even in another tissue such as liver. While it is important to recognize
-   these caveats, it is equally important to devise a rational way to rank
-   candidates given existing data. Coexpression is one of several criteria used
-   to evaluate positional candidates. We will see others in the next slide.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>3. We can also
-   assess the likelihood that candidates contain functional polymorphism in
-   promoters and enhancers that affect their expression simply by mapping the
-   transcripts of all candidate genes to see if they �map back� to the location
-   of gene itself. A transcript that maps to its own location is referred to as
-   a cis QTL. We essentially ask: Which of the the transcripts listed in the
-   Correlation Table above (from Gtf3c1 to Zranb1) has variation in expression
-   that maps to Chr 7 at about 120 Mb?<span style="mso-spacerun: yes">&nbsp;
-   </span>The logic of this search is that if a gene controls the level of its
-   own expression it is also much more likely to generate other downstream
-   effects. The Gtf3c1 transcript is a weak cis QTL with a local LRS maximum of
-   about 7.0 (D alleles are high). That is just about sufficient to declare it
-   to be a cis QTL. [No whole genome correction is required and a point-wise
-   p-value of 0.05 is the appropriate test. A p-value of 0.05 is roughly
-   equivalent to an LRS of 6.0 (LOD = 1.3).]</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
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-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
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-   <td align=left colspan=1><font face=Verdana size=3>Even higher blow-up of
-   part of the Chr 7 physical map of variation in App expression in brain.<span
-   style="mso-spacerun: yes">&nbsp; </span>The QTL region actually extends from
-   about 119 to 129.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>1. As mentioned
-   in the previous slide another important approach to ranking candidates is
-   based on the number of sequence variants that distinguish the parental
-   strains. If we were sure that the sequences of the gene, its promoter, and
-   its enhancers were identical between the strains then we could discount--but
-   not eliminate--that gene as a candidate. The Gtf3c1 candidate almost falls
-   into this category: of 663 known SNPs in and around this gene, only four
-   differ between C57BL/6J and DBA/2J. Gtf3c1 is essentially
-   identical-by-descent in these strains and is a less likely candidate. In
-   contrast, if the two alleles of the gene have dozens of functional variants
-   in exons, promoters, enhancers, and splice sites, then it becomes a higher
-   priority candidate.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face="Times New Roman" size=4>Of course it
-   only takes a single critical sequence variant to generate downstream
-   effects. The argument above is really about the prior probabilities. Where
-   would you place your bets given the information at hand?</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2.<span
-   style="mso-spacerun: yes">&nbsp; </span>If you scroll down the INTERVAL
-   ANALYST you will find that Ctbp2 is a particularly interesting candidate
-   that contains lots of SNPs (n = 75 and a SNP density of 0.55 SNP/Kb). Ctbp2
-   is also closer to our QTL peak than was Gtf3c1. Not only does Ctbp2 contain
-   lots of SNPs but it is also is associated with a powerful cis QTL with an
-   LRS of 24.2 (divide by 4.61 to get the equivalent LOD score of 5.25).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3.<span
-   style="mso-spacerun: yes">&nbsp; </span>At this high magnification,
-   individual genes are distinct. They are color coded by their density of
-   SNPs. Bright orange represents those genes that have a high SNP density
-   (C57BL/6J versus DBA/2J), black represents genes with low SNP density. Roll
-   the cursor over a gene block and its name will pop up, along with
-   information on exon number.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>4.<span
-   style="mso-spacerun: yes">&nbsp; </span>Beneath the physical map you will
-   find an INTERVAL ANALYST table that lists information on known genes in the
-   region on which you have zoomed the Physical Map.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>5.<span
-   style="mso-spacerun: yes">&nbsp; </span>As always: error-checking is
-   important. Some genes may be missing from the Interval Analyst (recent
-   additions or errors of omission). In this case the Zranb1 gene that is
-   located just proximal to Ctbp2 is not listed in the INTERVAL ANALYST.
-   Double-check the interval using the Genome Browser links (blue and beige
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- </table>
- </div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0058.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0058.htm
deleted file mode 100755
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-<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
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-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>This is</span><span
-style='font-size:233%;color:#E9EB5D'><i> the </i></span></span></layer><script>
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-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>This is</span><span
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-style='text-align:left'><span style='font-size:233%;color:#E9EB5D'>in the INIA
-data set. </span><span style='font-size:233%;color:#E9EB5D;mso-special-format:
-lastCR;display:none'><i><br>
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-
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>This slide illustrates
-   one reason why Ctbp2 should be considered a high priority positional
-   candidate gene that may modulate the expression level of App.<span
-   style="mso-spacerun: yes">&nbsp; </span>Ctbp2 is a strong cis QTL in some
-   brain regions (here the data are taken from the striatum).<span
-   style="mso-spacerun: yes">&nbsp; </span>If Ctbp2 contains variants that
-   modulate its own expression then these expression differencess may produce
-   many downstream effects. Of course, we now want to know much more about the
-   known biology of Ctbp2. What kind of gene is it? To begin to answer that
-   question we can use a number of resources listed in the LINKS page.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Verdana size=3> The App QTL is bimodal. Perhaps there are actually two
-   causal factors in this region--one close to 123 Mb and the other close to
-   127 Mb.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. The precision of QTL
-   mapping depends on several factors, including the effect size and
-   interactions among QTLs modulating a trait, the number of genetic
-   individuals that are studied, and the distribution of recombinations in the
-   study population.<span style="mso-spacerun: yes">&nbsp; </span>In the case
-   above, the QTL(s) are likely to be confined to the interval from 120 to 132
-   Mb. The bootstrap test (yellow bars shown in some of the previous slides)
-   can be usual for estimating the consiistency of QTL peaks.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm
deleted file mode 100755
index 5ba9ff5c..00000000
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- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Ctbp2 should also be
-   considered a high priority biological candidate gene responsible for
-   modulating App expression levels. The<span style="mso-spacerun: yes">&nbsp;
-   </span>C-terminal binding protein 2 is a transcriptional co-repressor also
-   known as Ribeye.</font><font face=Times-Roman size=3> The gene produces two
-   transcripts encoding distinct proteins. The short form is a transcriptional
-   repressor that binds a Pro-X-Asp-Leu-Ser peptide motif common to adenoviral
-   oncoprotein E1a and a related motif in BKLF. This short form also interacts<span
-   style="mso-spacerun: yes">&nbsp; </span>with several transcription factors
-   including EVI1, ZFPM1, and<span style="mso-spacerun: yes">&nbsp;&nbsp;
-   </span>ZFHX1A (aka TCF8, deltaEF1). The longer isoform is a major component
-   of specialized synapses in photoreceptors. Both proteins contain a NAD+
-   binding domain similar to NAD+-dependent 2-hydroxyacid dehydrogenases.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>1. To find out more about
-   CTBP2 protein and the Ctbp2 gene, link to iHOP at
-   http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>Try Arrowsmith at
-   http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>2. Both APP and CTBP2 are
-   involved in oxidoreducatase activity or Notch signalling. To estabilish this
-   common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
-   </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene<span
-   style="mso-spacerun: yes">&nbsp; </span>and enter each gene symbol.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Verdana size=3>3. You can get intersting
-   hints regarding Ctbp2 expression partners by examining the genetic
-   correlations between Ctbp2 probe set 1422887_a_at and all other transcripts
-   on the M430 Affymetrix array. Use the Striatum data set because we already
-   know from previous work (the previous slide) that this gene is a cis
-   QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to show
-   that Ctbp2 and Notch3 have antagonistic expression patterns in striatum. The
-   negative genetic correlation with E2f4 is even stronger. The transcript also
-   has a high positive genetic correlation with Rdh14. Of particualr interest
-   with respect to APP protein processing, Ctbp2 covaries positiviely with
-   Bace2 (the transcript of the beta site APP-cleaving enzyme 2).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0060.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0060.htm
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-</span></span></layer></div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0061.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0061.htm
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-mso-text-raise:0%'><span style='font-size:233%;color:#E9EB5D'>1. Evaluate
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0062.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0062.htm
deleted file mode 100755
index 6b671799..00000000
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diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0063.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0063.htm
deleted file mode 100755
index 0c358615..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0063.htm
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-  href="javascript:parent.base.Slide('5')" id=AREF>&quot;First page of data:&quot;</a></b></font></td>
- </tr>
-</table>
-<table>
- <tr>
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-  <td width="100%"></td>
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- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>First page of data: The Trait Data and
-  Analysis Form</font></td>
- </tr>
-</table>
-<br>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID6 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p6" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('6')" id=AREF>&quot;Data sources:&quot;</a></b></font></td>
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-</table>
-<table>
- <tr>
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-  <td width="100%"></td>
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- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>Data sources: Metadata for each
-  resource</font></td>
- </tr>
-</table>
-<br>
-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID7 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p7" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('7')" id=AREF>&quot;Expression estimates
-  for App on...&quot;</a></b></font></td>
- </tr>
-</table>
-<table>
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
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- <tr>
-  <td colspan=1></td>
-  <td colspan=1><font face=Arial size=2>Expression estimates for App on the
-  Trait Data form</font></td>
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-</table>
-<br>
-<table  width=100%>
- <tr>
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-  <td width=100%  id="p8" ><font face=Arial size=2><b><a
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-<table  width=100%>
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-<table>
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-  <td width=5 nowrap></td>
-  <td width="100%"></td>
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-  <td colspan=1></td>
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-</table>
-<br>
-<table  width=100%>
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-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID16 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p16" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('16')" id=AREF>&quot;Network Graph of App
-  with...&quot;</a></b></font></td>
- </tr>
-</table>
-<table>
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
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-  <td colspan=1></td>
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-<table  width=100%>
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-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID17 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p17" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('17')" id=AREF>&quot;Summary of Part 1:&quot;</a></b></font></td>
- </tr>
-</table>
-<table>
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
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-</table>
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-<table  width=100%>
- <tr>
-  <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID18 VISIBILITY=hidden >&gt;</ilayer>'); } </script></td>
-  <td width=100%  id="p18" ><font face=Arial size=2><b><a
-  href="javascript:parent.base.Slide('18')" id=AREF>Contact for comments and
-  improvements:</a></b></font></td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-var g_hideNav = 0;
-function UpdNtsPane(){ PPTNts.location.replace( MHTMLPrefix+GetHrefObj( gCurSld ).mNtsHref ) }
-function UpdNavPane( sldIndex ){ if(gNavLoaded) PPTNav.UpdNav() }
-function UpdOtNavPane(){ if(gOtlNavLoaded) PPTOtlNav.UpdOtlNav() }
-function UpdOtlPane(){ if(gOtlLoaded) PPTOtl.UpdOtl() }
-function SetHasNts( fVal )
-{
-	if( gHasNts != fVal ) {
-		gHasNts=fVal
-		UpdNavPane()
-	}
-}
-
-function ToggleVNarration()
-{
-	if ( base.msie < 0 ) {
-		PPTSld.ToggleSound( false, PPTSld.document.NSPlay );
-		return;
-	}
-	
-	rObj=PPTSld.document.all("NSPlay")
-	if( rObj ) {
-		if( gNarrationPaused )
-			rObj.Play()
-		else
-			rObj.Pause()
-
-		gNarrationPaused=!gNarrationPaused
-	}
-}
-
-function PrevSldViewed(){ GoToSld( GetHrefObj(gPrevSld).mSldHref ) }
-function HasPrevSld() { return ( gIsEndShow || ( g_currentSlide != 1 && GetHrefObj( g_currentSlide-1 ).mVis == 1 )||( GetCurrentSlideNum() > 1 ) ) }
-function HasNextSld() { return (GetCurrentSlideNum() != GetNumSlides()) }
-function StartEndShow()
-{
-//	g_hideNav = 1;
-//	PPTNav.location.reload();
-	if( PPTSld.event ) PPTSld.event.cancelBubble=true
-
-	doc=PPTSld.document
-	doc.open()
-	doc.writeln('<html><head><script > /*defer>*/ g_ctxmenu = 0; ' +
-	'if( parent.base.msie < 0 )  { document.captureEvents(Event.KEYPRESS); document.captureEvents(Event.MOUSEDOWN); document.onkeypress = _KPH; document.onmousedown = _KPH; } ' +
-	'function DocumentOnClick(event) { return _KPH(event); }  function IsContextMenu() { return (g_ctxmenu ==1); } ' +
-	'function _KPH(event)' +
-	'{  ' +
-	'if ( parent.base.msie < 0  && (parent.IsFullScrMode() ) && event ) { if ( (!parent.IsMac() && event.which == 3) || ( parent.IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 ) )  { return parent.KPH(event); } ' + 
-	' else if (event.which == 27 || event.which == 32 || event.which == 13 || parent.HitOK( event ) || (event.which == 78)  || (event.which == 110) || (event.which == 29) || (event.which == 31) || (event.which == 12) ) { if ( IsContextMenu() ) { return parent.KPH(event); }  parent.base.CloseFullScreen(); return; } ' +
-	' else if ( (event.which == 80)  || (event.which == 112) || (event.which == 30) || (event.which == 28) || (event.which == 11) || (event.which == 8) ) { parent.M_GoPrevSld(); } } ' +
-	'if( parent.HideMenu() ) return; if( (parent.IsFullScrMode() ) && event) { if ( (event.keyCode==27 || event.keyCode == 13 || event.keyCode==32 || event.type=="click" ) || (event.keyCode == 78)  || (event.keyCode == 110) ) { parent.base.CloseFullScreen(); }' +
-	' else if ( (event.keyCode == 80)  || (event.keyCode == 112) ) { parent.M_GoPrevSld(); } } } function Unload() { parent.gIsEndShow=0; } function SetupEndShow() {    if ( !parent.IsFullScrMode() ) { return; } else { parent.PPTNav.location.reload(); }  parent.gIsEndShow=1; if ( parent.g_docTable[0].type != "jpeg" ) { if ( parent.base.msie < 0 ) {parent.createCM(); } document.oncontextmenu=parent._CM; } }</script></head><body scroll=\"no\" onclick=\"DocumentOnClick(event)\" onkeypress=\"_KPH(event)\" bgcolor=\"black\" onload=\"SetupEndShow()\" onunload=\"Unload()\"><center><p><font face=Tahoma color=white size=2><br><b>' + ENDSHOW_MESG + '</b></font></p></center></body></html>')
-	doc.close()
-}
-function SetSldVisited(){ gDocTable[gCurSld-1].mVisited=true }
-function IsSldVisited(){ return gDocTable[gCurSld-1].mVisited }
-function hrefList( sldHref, visible, sldIdx )
-{
-	this.mSldHref= this.mNtsHref = sldHref
-	this.mSldIdx = sldIdx
-	this.mOrigVis= this.mVis = visible
-	this.mVisited= false
-}
-var gDocTable = new Array(
-   new hrefList("slide0001.htm", 1, 1),
-   new hrefList("slide0002.htm", 1, 2),
-   new hrefList("slide0003.htm", 1, 3),
-   new hrefList("slide0004.htm", 1, 4),
-   new hrefList("slide0005.htm", 1, 5),
-   new hrefList("slide0006.htm", 1, 6),
-   new hrefList("slide0007.htm", 1, 7),
-   new hrefList("slide0008.htm", 1, 8),
-   new hrefList("slide0009.htm", 1, 9),
-   new hrefList("slide0010.htm", 1, 10),
-   new hrefList("slide0011.htm", 1, 11),
-   new hrefList("slide0012.htm", 1, 12),
-   new hrefList("slide0013.htm", 1, 13),
-   new hrefList("slide0014.htm", 1, 14),
-   new hrefList("slide0015.htm", 1, 15),
-   new hrefList("slide0016.htm", 1, 16),
-   new hrefList("slide0017.htm", 1, 17),
-   new hrefList("slide0018.htm", 1, 18)
-);
-
-function ImgBtn( oId,bId,w,action )
-{
-	var t=this
-	t.Perform    = _IBP
-	t.SetActive  = _IBSetA
- t.SetInactive= _IBSetI
-	t.SetPressed = _IBSetP
-	t.SetDisabled= _IBSetD
-	t.Enabled    = _IBSetE
-	t.ChangeIcon = null
-	t.UserAction = action
-	t.ChgState   = _IBUI
-	t.mObjId   = oId
-	t.mBorderId= bId
-	t.mWidth   = w
-	t.mIsOn    = t.mCurState = 0
-}
-function _IBSetA()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gHiliteClr,gShadowClr,2 )
-		obj.style.posTop=0
-	}
-}
-function _IBSetI()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gFaceClr,gFaceClr,1 )
-		obj.style.posTop=0 
-	}
-}
-function _IBSetP()
-{
-	if( this.mIsOn ) {
-		obj=this.ChgState( gShadowClr,gHiliteClr,2 )
-		obj.style.posLeft+=1; obj.style.posTop+=1
-	}
-}
-function _IBSetD()
-{  
-	obj=this.ChgState( gFaceClr,gFaceClr,0 )
-	obj.style.posTop=0 
-}
-function _IBSetE( state )
-{
-	var t=this
-	GetObj( t.mBorderId ).style.visibility="visible"
-	if( state != t.mIsOn ) {
-		t.mIsOn=state
-		if( state )
-			t.SetInactive()
-		else
-			t.SetDisabled()
-	}
-}
-function _IBP()
-{
-	var t=this
-	if( t.mIsOn ) {
-		if( t.UserAction != null )
-			t.UserAction()
-		if( t.ChangeIcon ) {
-			obj=GetObj(t.mObjId)
-			if( t.ChangeIcon() )
-				obj.style.posLeft=obj.style.posLeft+(t.mCurState-4)*t.mWidth
-			else
-				obj.style.posLeft=obj.style.posLeft+(t.mCurState-0)*t.mWidth
-		}
-		t.SetActive()
-	}  
-}
-function _IBUI( clr1,clr2,nextState )
-{
-	var t=this
-	SetBorder( GetObj( t.mBorderId ),clr1,clr2 )
-	obj=GetObj( t.mObjId )
-	obj.style.posLeft=obj.style.posLeft+(t.mCurState-nextState)*t.mWidth-obj.style.posTop
-	t.mCurState=nextState
-	return obj
-}
-function TxtBtn( oId,oeId,action,chkState )
-{
-	var t=this
-	t.Perform    = _TBP
-	t.SetActive  = _TBSetA
-	t.SetInactive= _TBSetI
-	t.SetPressed = _TBSetP
-	t.SetDisabled= _TBSetD
-	t.SetEnabled = _TBSetE
-	t.GetState   = chkState
-	t.UserAction = action
-	t.ChgState   = _TBUI
-	t.mObjId      = oId
-	t.m_elementsId= oeId
-	t.mIsOn       = 1
-}
-function _TBSetA()
-{
-	var t=this
-	if( t.mIsOn && !t.GetState() )
-		t.ChgState( gHiliteClr,gShadowClr,0,0 )
-}
-function _TBSetI()
-{
-	var t=this
-	if( t.mIsOn && !t.GetState() )
-		t.ChgState( gFaceClr,gFaceClr,0,0 )
-}
-function _TBSetP()
-{
-	if( this.mIsOn )
-		this.ChgState( gShadowClr,gHiliteClr,1,1 )
-}
-function _TBSetD()
-{   
-	this.ChgState( gFaceClr,gFaceClr,0,0 )
-	this.mIsOn = 0
-}
-function _TBSetE()
-{
-	var t=this
-	if( !t.GetState() )
-		t.ChgState( gFaceClr,gFaceClr,0,0 )
-	else
-		t.ChgState( gShadowClr,gHiliteClr,1,1 )
-	t.mIsOn = 1
-}
-function _TBP()
-{
-	var t=this
-	if( t.mIsOn ) { 
-		if( t.UserAction != null )
-			t.UserAction()
-		if( t.GetState() )
-			t.SetPressed()
-		else
-			t.SetActive()
-	}  
-}
-function _TBUI( clr1,clr2,lOffset,tOffset )
-{
-	SetBorder( GetObj( this.mObjId ),clr1,clr2 )
-	Offset( GetObj( this.m_elementsId ),lOffset,tOffset )
-}
-function GetObj( objId ){ return document.all.item( objId ) }
-function Offset( obj, top, left ){ obj.style.top=top; obj.style.left=left }
-function SetBorder( obj, upperLeft, lowerRight )
-{
-	s=obj.style;
-	s.borderStyle      = "solid"
-	s.borderWidth      = 1 
-	s.borderLeftColor  = s.borderTopColor = upperLeft
-	s.borderBottomColor= s.borderRightColor = lowerRight
-}
-function GetBtnObj(){ return gBtnArr[window.event.srcElement.id] }
-function BtnOnOver(){ b=GetBtnObj(); if( b != null ) b.SetActive() }
-function BtnOnDown(){ b=GetBtnObj(); if( b != null ) b.SetPressed() }
-function BtnOnOut(){ b=GetBtnObj(); if( b != null ) b.SetInactive() }
-function BtnOnUp()
-{
-	b=GetBtnObj()
-	if( b != null )
-		b.Perform()
-	else
-		Upd()
-}
-function GetNtsState(){ return parent.gNtsOpen }
-function GetOtlState(){ return parent.gOtlOpen }
-function GetOtlTxtState(){ return parent.gOtlTxtExp }
-function NtsBtnSetFlag( fVal )
-{
-	s=document.all.item( this.m_flagId ).style
-	s.display="none"
-	if( fVal )
-		s.display=""
-	else
-		s.display="none"
-}
-
-var gHiliteClr="THREEDHIGHLIGHT",gShadowClr="THREEDSHADOW",gFaceClr="THREEDFACE"
-var gBtnArr = new Array()
-gBtnArr["nb_otl"] = new TxtBtn( "nb_otl","nb_otlElem",parent.ToggleOtlPane,GetOtlState )
-gBtnArr["nb_nts"] = new TxtBtn( "nb_nts","nb_ntsElem",parent.ToggleNtsPane,GetNtsState )
-gBtnArr["nb_prev"]= new ImgBtn( "nb_prev","nb_prevBorder",30,parent.GoToPrevSld )
-gBtnArr["nb_next"]= new ImgBtn( "nb_next","nb_nextBorder",30,parent.GoToNextSld )
-gBtnArr["nb_sldshw"]= new ImgBtn( "nb_sldshw","nb_sldshwBorder",18,parent.FullScreen )
-gBtnArr["nb_voice"]  = new ImgBtn( "nb_voice","nb_voiceBorder",18,parent.ToggleVNarration )
-gBtnArr["nb_otlTxt"]= new ImgBtn( "nb_otlTxt","nb_otlTxtBorder",23,parent.ToggleOtlText )
-gBtnArr["nb_nts"].m_flagId= "notes_flag"
-gBtnArr["nb_nts"].SetFlag = NtsBtnSetFlag
-gBtnArr["nb_otlTxt"].ChangeIcon= GetOtlTxtState
-var sNext="Next",sPrev="Previous",sEnd="End Show",sFont="Arial", alwaysOn = false
-function ShowMenu()
-{
-	BuildMenu();
-	var doc=PPTSld.document.body,x=PPTSld.event.clientX+doc.scrollLeft,y=PPTSld.event.clientY+doc.scrollTop
-
-	m = PPTSld.document.all.item("ctxtmenu")
-	m.style.pixelLeft=x
-	if( (x+m.scrollWidth > doc.clientWidth)&&(x-m.scrollWidth > 0) )
-		m.style.pixelLeft=x-m.scrollWidth
-
-	m.style.pixelTop=y
-	if( (y+m.scrollHeight > doc.clientHeight)&&(y-m.scrollHeight > 0) )
-		m.style.pixelTop=y-m.scrollHeight
-
-	m.style.display=""
-}
-function _CM()
-{
-	if( !parent.IsFullScrMode() && !alwaysOn) return;
-	
-	if(!PPTSld.event.ctrlKey) {
-		ShowMenu()
-		return false
-	} else
-		HideMenu()
-}
-
-function processNavKPH(event) {
-   if ( PPTSld &&  (event.keyCode != 13 || !event.srcElement.href || event.srcElement.href == "" ) )
-	return PPTSld._KPH(event);
-}
-function processNavClick() {
-	HideMenu();
-	return true;
-}
-function BuildMenu()
-{
-	if( PPTSld.document.all.item("ctxtmenu") ) return
-
-	var mObj=CreateItem( PPTSld.document.body )
-mObj.id="ctxtmenu"
-	var s=mObj.style
-	s.position="absolute"
- s.cursor="default"
-	s.width="100px"
-	SetCMBorder(mObj,"menu","black")
-
-	var iObj=CreateItem( mObj )
-	SetCMBorder( iObj, "threedhighlight","threedshadow" )
-	iObj.style.padding=2
-	if ( self.IsFullScrMode() ) {
-		CreateMenuItem( iObj,sNext,M_GoNextSld,M_True )
-		CreateMenuItem( iObj,sPrev,M_GoPrevSld,M_HasPrevSld )
-	}
-	else {
-		CreateMenuItem( iObj,sNext, base.TP_GoToNextSld, base.HasNextSld )
-		CreateMenuItem( iObj,sPrev,base.GoToPrevSld, base.HasPrevSld )
-	}
-	var sObj=CreateItem( iObj )
-	SetCMBorder(sObj,"menu","menu")
-	var s=sObj.style
-	s.borderTopColor="threedshadow"
-	s.borderBottomColor="threedhighlight"
-	s.height=1
-	s.fontSize="0px"
-	if ( self.IsFullScrMode() ) 
-		CreateMenuItem( iObj,sEnd,M_End,M_True )
-	else
-		CreateMenuItem( iObj,sEnd,M_End,M_False )
-}
-function Highlight() { ChangeClr("activecaption","threedhighlight") }
-function Deselect() { ChangeClr("threedface","menutext") }
-function Perform()
-{
-	e=PPTSld.event.srcElement
-	if( e.type=="menuitem" && e.IsActive() )
-		e.Action()
-	else
-		PPTSld.event.cancelBubble=true
-}
-function ChangeClr( bg,clr )
-{
-	e=PPTSld.event.srcElement
-	if( e.type=="menuitem" && e.IsActive() ) {
-		e.style.backgroundColor=bg
-		e.style.color=clr
-	}
-}
-
-function M_HasPrevSld() { return( base.HasPrevSld() ) }
-function M_GoNextSld() { 
-	base.SetFSMode(1);
-	if( gIsEndShow )
-		 M_End();
-	else {
-		if ( base.HasNextSld() )
-		 base.GoToNextSld();
-		else if (  base.EndSlideShow ) {
-		 StartEndShow();
-		 gIsEndShow = 1;
-		 
-		 PPTNav.location.reload();
-		}
-		else
-			base.CloseFullScreen();
-	}
-}
-function M_GoPrevSld() {
-	base.SetFSMode(1);
-	g_hideNav = 0;
-	if( gIsEndShow ) { 
-		gIsEndShow = 0;
-		if ( base.msie > 0 && IsMac() ) 
-			ChangeFrame( SLIDE_FRAME, GetHrefObj( g_currentSlide ).m_slideHref );
-		else	
-		PPTSld.history.back();
-		
-		 PPTNav.location.reload();
-		if( PPTSld.event )
-			 PPTSld.event.cancelBubble=true;
-	}
-	else
-	 	base.GoToPrevSld();
-}
-function M_True() { return true }
-function M_False() { return false }
-
-function M_End() {
-	base.CloseFullScreen();
-	/*PPTSld.event.cancelBubble=true;
-	window.close( self )*/
-}
-
-function CreateMenuItem( node,text,action,eval )
-{
-	var e=CreateItem( node )
-	e.type="menuitem"
-	e.Action=action
-	e.IsActive=eval
-	e.innerHTML=text
-
-	if( !e.IsActive() )
-		e.style.color="threedshadow"
-	e.onclick=Perform
-	e.onmouseover=Highlight
-	e.onmouseout=Deselect
-	s=e.style;
-	s.fontFamily=sFont
-	s.fontSize="8pt"
-	s.paddingLeft=2
-}
-function CreateItem( node )
-{
-	var elem=PPTSld.document.createElement("DIV")
-	node.insertBefore( elem )
-	return elem
-}
-function SetCMBorder( o,ltClr,rbClr )
-{
-	var s=o.style
-	s.backgroundColor="menu"
-	s.borderStyle="solid"
-	s.borderWidth=1
-	s.borderColor=ltClr+" "+rbClr+" "+rbClr+" "+ltClr
-}
-
-/* netscape context menu */
-g_ctxmenu = 0;
-function setRect( obj, X, Y, W, H ) {
-	obj.top = Y;
-	obj.left = X;
-	obj.clip.top = 0;
-	obj.clip.left = 0;
-	obj.clip.bottom = H;
-	obj.clip.right = W;
-}	
-
-function KPH(event) {
-	if ( ! base.IsFullScrMode() && !alwaysOn )
-		return true;
-		
-	if ( (!IsMac() &&event.which == 3) || ( IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 )   ) {
-		PPTSld.g_ctxmenu = 1;
-		PPTSld.stripUobj.visibility = "show";
-		PPTSld.stripDobj.visibility = "show";
-		PPTSld.shadeUobj.visibility = "show";
-		PPTSld.shadeDobj.visibility = "show";
-		PPTSld.panelobj.visibility = "show";
-		PPTSld.Fobj.visibility = "show";
-		PPTSld.Bobj.visibility = "show";
-		PPTSld.Eobj.visibility = "show";
-
-		setRect(PPTSld.shadeUobj, event.pageX-2, event.pageY-2, 82, 67 );		
-		setRect(PPTSld.shadeDobj, event.pageX, event.pageY, 82, 67 );		
-		setRect(PPTSld.panelobj, event.pageX, event.pageY, 80, 65 );		
-		setRect(PPTSld.Fobj, event.pageX, event.pageY, 80, 20 );
-		setRect(PPTSld.Bobj, event.pageX, event.pageY+20, 80, 20 );
-		setRect(PPTSld.stripUobj, event.pageX, event.pageY+41, 80, 1 );		
-		setRect(PPTSld.stripDobj, event.pageX, event.pageY+43, 80, 1 );		
-		setRect(PPTSld.Eobj, event.pageX, event.pageY+45, 80, 20 );
-		return false;
-	}
-	if ( HitOK( event ) ) {
-	PPTSld.g_ctxmenu = 0;
-		PPTSld.stripUobj.visibility = "hide";
-		PPTSld.stripDobj.visibility = "hide";
-		PPTSld.shadeUobj.visibility = "hide";
-		PPTSld.shadeDobj.visibility = "hide";
-		PPTSld.panelobj.visibility = "hide";
-		PPTSld.Fobj.visibility = "hide";
-		PPTSld.Bobj.visibility = "hide";
-		PPTSld.Eobj.visibility = "hide";
-	}
-	return true;
-}
-
-function overMe() {
-	this.bgColor = "blue";
-}
-
-function outMe() {
-	this.bgColor = "#AAAAAA"; 
-}
-
-function makeElement( whichEl, whichContainer ) {
-	if ( arguments.length == 1 ) {
-		whichContainer = PPTSld;
-	}
-	tmp = new Layer(100,whichContainer);
-	eval( whichEl + " = tmp" );
-	return eval(whichEl);
-}
-
-function initMe( obj, clr, text ) {
-	obj.bgColor = clr;
-//	obj.document.write("<a href='javascript:return false'>" + text + "</a>");
-	obj.document.write( "<font size=2 face=Arial " );
-	if ( !M_HasPrevSld() && (obj == PPTSld.Bobj )  ) {
-		obj.document.write( " color='#808080' " );
-	}
-	else {
-		obj.onmouseover = overMe;
-		obj.onmouseout = outMe;
-	}	
-	obj.document.write( " > &nbsp " + text +"</font> <layer top=0 left=0 width=100 height=40 ></layer>");
-	obj.document.close();
-	obj.captureEvents(Event.CLICK);
-	obj.color = "black";		
-}
-
-function createCM() {
-  if ( base.IsFullScrMode() ) {
-  	var clr = "#AAAAAA";
-	PPTSld.shadeUobj = makeElement("SHADEU");
-	PPTSld.shadeDobj = makeElement("SHADED");
-	PPTSld.panelobj = makeElement("PANEL");
-	PPTSld.stripUobj = makeElement("STRIPU");
-	PPTSld.stripDobj = makeElement("STRIPD");
-	PPTSld.shadeUobj.bgColor = "#BBBBBB";
-	PPTSld.shadeDobj.bgColor = "#888888";
-	PPTSld.stripUobj.bgColor = "#777777";
-	PPTSld.stripDobj.bgColor = "#CCCCCC";
-	PPTSld.panelobj.bgColor = clr;
-	PPTSld.Fobj = makeElement("Next");
-	PPTSld.Bobj = makeElement("Previous");
-	PPTSld.Eobj = makeElement("EndShow");
-	initMe( PPTSld.Fobj, clr, "Next" );
-	PPTSld.Fobj.onclick = M_GoNextSld;
-
-	initMe( PPTSld.Bobj, clr, "Previous" );
-	PPTSld.Bobj.onclick = M_GoPrevSld;
-
-	initMe( PPTSld.Eobj, clr, "End Show");
-	PPTSld.Eobj.onclick = base.CloseFullScreen;
-  }
-}
-
-function IsContextMenu() {
-	return (g_ctxmenu == 1)
-}
-var g_notesTable = new Array()
-var g_hiddenSlide = new Array()
-makeSlide( 0,1,1);
-makeSlide( 1,1,1);
-makeSlide( 2,1,1);
-makeSlide( 3,1,1);
-makeSlide( 4,1,1);
-makeSlide( 5,1,1);
-makeSlide( 6,1,1);
-makeSlide( 7,1,1);
-makeSlide( 8,1,1);
-makeSlide( 9,1,1);
-makeSlide( 10,1,1);
-makeSlide( 11,1,1);
-makeSlide( 12,1,1);
-makeSlide( 13,1,1);
-makeSlide( 14,1,1);
-makeSlide( 15,1,1);
-makeSlide( 16,0,1);
-makeSlide( 17,1,1);
-
-var END_SHOW_HREF         = "endshow.htm",
-    OUTLINE_EXPAND_HREF   = "outline_expanded.htm",
-    OUTLINE_COLLAPSE_HREF = "outline_collapsed.htm",
-    OUTLINE_NAVBAR_HREF  = "outline_navigation_bar.htm",
-    NAVBAR_HREF           = "navigation_bar.htm",
-    BLANK_NOTES_HREF	  = "blank_notes.htm",
-    NUM_VISIBLE_SLIDES    = 18,
-    SIMPLE_FRAMESET       = 0,
-    SLIDE_FRAME	        = "PPTSld",
-    NOTES_FRAME           = "PPTNts",
-    OUTLINE_FRAME         = "PPTOtl",
-    OUTLINE_NAVBAR_FRAME  = "PPTOtlNav",
-    NAVBAR_FRAME          = "PPTNav",
-	MAIN_FRAME			  = "MainFrame",
-	FS_NAVBAR_HREF		  = "fs_navigation_bar.htm",
-	isIEFiles 			= 2,
-	isNAVFiles 			= 8,
-	isFLATFiles 			= 16,
-	includeNotes			= 1,
-	PPTPRESENTATION     = 1;
-var  INITSLIDENUM   = 1;
-
-var EndSlideShow = 0;
-var g_outline_href = OUTLINE_COLLAPSE_HREF;	
-var g_fullscrMode = 0;	
-var FSWin = null;
-var gtmpstr = document.location.href;
-var g_baseURL = gtmpstr.substr(0, gtmpstr.lastIndexOf("/") ) + "/" + "webqtl_demo2_part1.ppt_files";
-var g_showoutline = 1;
-var g_shownotes = includeNotes;
-var g_currentSlide = INITSLIDENUM, g_prevSlide = INITSLIDENUM;
-var saveFSSlideNum = saveTPSlideNum = g_currentSlide;
-var saveFSprevSlide = saveTPprevSlide = g_prevSlide;
-var g_slideType="ie";
-var appVer = navigator.appVersion;
-var msie = appVer.indexOf( "MSIE " ) + appVer.indexOf( "Internet Explorer " );
-var isnav = ( navigator.appName.indexOf( "Netscape" ) >= 0 );
-var msieWin31 = (appVer.indexOf( "Windows 3.1" ) > 0);
-var ver = 0;
-var g_done = 0;
-var g_prevotlobjidx = 0;
-var g_ShowFSDefault = 0;
-var g_lastVisibleSld = 1;
-var g_allHidden = false;
-function IsIE() {
-	return (msie >= 0 );
-}
-
-function IsNav() {
-	return (isnav);
-}
-var msiePos = appVer.indexOf( "MSIE " );
-var inexPos = appVer.indexOf( "Internet Explorer " );
-if ( msiePos >= 0 )
-  ver = parseFloat( appVer.substring( msiePos+5, appVer.indexOf ( ";", msiePos ) ) );
-else if( inexPos >= 0 )
-  ver=parseFloat( appVer.substring( inexPos+18, appVer.indexOf(";",inexPos) ) )
-else
-  ver = parseInt( appVer );
-
-//var g_supportsPPTHTML = 0; //!msieWin31 && ( ( msie >= 0 && ver >= 3.02 ) || ( msie < 0 && ver >= 3 ) );
-
-function GetCurrentSlideNum()
-{   
-  obj = GetHrefObj( g_currentSlide );
-  if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 )
-    return obj.m_slideIdx;
-  else   
-    return g_currentSlide;
-}
-
-function GetNumSlides()
-{
-  if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 )
-    return NUM_VISIBLE_SLIDES;
-  else
-    return g_docTable.length;
-}
-
-function GetHrefObj( slideIdx )
-{ return g_docTable[slideIdx - 1];
-}
-
-function GetSlideNum( slideHref )
-{
-  for (ii=0; ii<g_docTable.length; ii++) {
-    if ( g_docTable[ii].m_slideHref == slideHref )
-      return ii+1;
-  }
-  return 1;
-}
-
-function GoToNextSld()
-{   
-  targetIdx = g_currentSlide + 1;
-  if ( GetHrefObj( targetIdx-1 ).m_origVisibility == 0 ) {
-    if ( targetIdx<=g_docTable.length ) {
-      obj = GetHrefObj( targetIdx );
-      obj.m_visibility = 1;
-      GoToSld( obj.m_slideHref );
-    }
-  }
-  else {
-    obj = GetHrefObj( targetIdx );
-    while ( obj && ( obj.m_origVisibility == 0 ) && ( targetIdx<=g_docTable.length ) )
-      obj = GetHrefObj( targetIdx++ );
-    if( obj && obj.m_origVisibility )
-      GoToSld( obj.m_slideHref );
-  }
-}
-
-function GoToPrevSld()
-{
-  targetIdx = g_currentSlide - 1;
-  if ( targetIdx > 0 ) {
-    obj = GetHrefObj( targetIdx );
-    while ( ( obj.m_visibility == 0 ) && ( targetIdx>0 ) )
-      obj = GetHrefObj( targetIdx-- );
-    GoToSld( obj.m_slideHref );
-  }
-}
-
-function GoToLast()
-{
-  targetIdx = g_docTable.length;
-  if ( targetIdx != g_currentSlide )
-    GoToSld( GetHrefObj( targetIdx ).m_slideHref );
-}
-
-function GoToFirst()
-{ GoToSld( GetHrefObj(1).m_slideHref );
-}
-
-function highlite() {
-	if ( IsFullScrMode() )
-		return;
-	index = GetCurrentSlideNum();
-	if ( !frames[MAIN_FRAME].frames[OUTLINE_FRAME] )
-		return;
-	if ( msie < 0 ) {
-		if ( g_prevotlobjidx != 0 ) {
-			eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + g_prevotlobjidx );
-			otlobj.hidden = true;
-		}
-		else
-			index = GetCurrentSlideNum();
-		eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + index );
-		otlobj.hidden = false;
-	
-		g_prevotlobjidx = index;
-		
-		return;
-	}
-	if ( !g_showoutline )
-		return;
-		
-		backclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.bgColor;
-		textclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.text;
-	if ( g_prevotlobjidx != 0 ) {
-		eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + g_prevotlobjidx );
-		otlobj.style.backgroundColor = backclr;
-		otlobj.style.color = textclr;
-		otlobj.all.AREF.style.color = textclr;
-	}
-	else
-		index = GetCurrentSlideNum();
-	eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + index );
-	otlobj.style.backgroundColor = textclr;
-	otlobj.style.color = backclr;
-	otlobj.all.AREF.style.color = backclr;
-	g_prevotlobjidx = index;
-}
-
-function ChangeFrame( frame, href )
-{
-if ( IsFramesMode() ) {
-  if ( NAVBAR_FRAME == frame || OUTLINE_NAVBAR_FRAME ==  frame ) {
-	    frames[frame].location.replace(href);
-  }
-  else if( ! ( ( OUTLINE_FRAME == frame && !g_showoutline)  || (NOTES_FRAME == frame && !g_shownotes ) ) ){
-	    frames[MAIN_FRAME].frames[frame].location.href = href;
-  }
- }
- else {
- 	if ( frame == NAVBAR_FRAME || frame == SLIDE_FRAME ) {
- 	  if( frame == NAVBAR_FRAME ) {
- 	  	 href = FS_NAVBAR_HREF;
- 	  	
- 	  }	    
- 	  if( frame == NAVBAR_FRAME ) 
-	      window.frames[frame].location.replace(href);
-	 else
-	      window.frames[frame].location.href = href;
- 	}
- }
-  
-}
-
-function shutEventPropagation() {
-	if ( IsNav() )
-		return;
-		
-	var slideFrame;
-	if ( IsFramesMode() )
-		slideFrame = frames[MAIN_FRAME].frames[SLIDE_FRAME];
-	else
-		slideFrame = window.frames[SLIDE_FRAME];
-	if ( slideFrame.event ) 
-		slideFrame.event.cancelBubble=true;
-}
-				
-function GoToSld( slideHref )
-{
-  shutEventPropagation();
-  if ( slideHref != GetHrefObj( g_currentSlide ).m_slideHref || g_slideType != GetHrefObj( g_currentSlide ).type) {
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( slideHref );
-	g_slideType = GetHrefObj( g_currentSlide ).type;
-    obj = GetHrefObj( g_currentSlide );
-    obj.m_visibility = 1;
-    ChangeFrame( SLIDE_FRAME, slideHref );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-	    
-  }
-}
-
-function PrevSldViewed()
-{ GoToSld( GetHrefObj( g_prevSlide ).m_slideHref );
-}
-
-function NoHref() {}
-
-function ExpandOutline( )
-{ 
- g_outline_href = OUTLINE_EXPAND_HREF;
- ChangeFrame( OUTLINE_FRAME, OUTLINE_EXPAND_HREF );
- frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF);
-}
-
-function CollapseOutline()
-{ 
- g_outline_href = OUTLINE_COLLAPSE_HREF;
- ChangeFrame( OUTLINE_FRAME, OUTLINE_COLLAPSE_HREF );
- frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF);
- }
-
-function SlideUpdated( id )
-{
-  if ( id != GetHrefObj( g_currentSlide ).m_slideHref )  {
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( id );
-    obj = GetHrefObj( g_currentSlide );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-  }
-}
-
-function hrefList( slideHref, notesHref, visible, slideIdx, type )
-{
-  this.m_slideHref  = slideHref;
-  this.m_notesHref  = notesHref;
-  this.m_navbarHref = NAVBAR_HREF;
-  this.m_origVisibility = visible;
-  this.m_visibility = visible;
-  this.m_slideIdx = slideIdx;
-  this.type = type;
-}
-
-function IsFullScrMode() {
-	return g_fullscrMode;
-}
-
-
-function IsFramesMode() {
-	return (1 - g_fullscrMode);
-}
-
-function SldUpdated( id )
-{
-  if ( ( id != GetHrefObj( g_currentSlide ).m_slideHref )  || ( g_currentSlide == g_lastVisibleSld ) ){
-    g_prevSlide = g_currentSlide;
-    g_currentSlide = GetSlideNum( id );
-    obj = GetHrefObj( g_currentSlide );
-    if( !SIMPLE_FRAMESET )
-      ChangeFrame( NOTES_FRAME, obj.m_notesHref );
-    ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF );
-  }
-}
-
-function ToggleOutline() {
-	g_showoutline = 1 - g_showoutline;
-	writeMyFrame();
-}
-
-function ShowHideNotes() {
-	g_shownotes = 1 - g_shownotes;
-	writeMyFrame();
-}
-
-function writeMyFrame() {
-		SetFSMode(0);
-		obj = frames[MAIN_FRAME];
-		
-		var curslide = g_baseURL + "/" +  GetHrefObj( g_currentSlide ).m_slideHref;
-		var curnotes = g_baseURL + "/" +  GetHrefObj( g_currentSlide ).m_notesHref;
-		var otlhref = g_baseURL + "/" +  g_outline_href;
-		if ( msie < 0 ) {			
-		if ( ! g_showoutline && g_shownotes ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset rows=\"*,20%\" id=\"frameset2\" > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				<frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \
-				</frameset> </html>' );
-		}
-		else if( g_showoutline && g_shownotes  ){
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset cols=\"20%,*\" id=\"frameset1\"> \
-				<frame src=\"' + otlhref + '\" name=PPTOtl> \
-				<frameset rows=\"*,20%\" id=\"frameset2\" > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				<frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \
-				</frameset> </frameset></html>' );
-		}		
-		else if ( !g_shownotes && !g_showoutline ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset rows="*,0" frameborder=0 > \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				</frameset> </html>' );
-		}
-		else if( !g_shownotes  && g_showoutline ) {
-			obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \
-				<frameset cols=\"20%,*\" id=\"frameset1\"> \
-				<frame src=\"' + otlhref + '\" name=PPTOtl> \
-				<frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \
-				</frameset></html>' );
-		}
-		obj.document.close();
-		}
-		else {
-			if ( g_showoutline ) {
-				obj.PPTHorizAdjust.cols = "20%,*";
-				obj.PPTOtl.location.reload();
-			}
-			else {
-				obj.PPTHorizAdjust.cols = "0,*";
-			}
-			if ( g_shownotes ) {
-				obj.PPTVertAdjust.rows = "*,20%";
-				obj.PPTNts.location.href = curnotes;
-			}
-			else {
-				obj.PPTVertAdjust.rows = "*,0";
-			}
-		}
-		ChangeFrame( OUTLINE_NAVBAR_FRAME, OUTLINE_NAVBAR_HREF );
-}
-
-function FullScreen() {
-	g_done = 0;
-
-	
-	SetFSMode(1);
-	if ( msie >= 0 )
-		FSWin = window.open( g_baseURL + "/" + "fullscreen.htm", null, "fullscreen=yes");
-	else {
-		var height = screen.availHeight;
-		if ( window.navigator.platform.indexOf( "Mac" ) >= 0 ) {
-			height -= 30;
-		}
-		FSWin = window.open( g_baseURL + "/" + "fullscreen.htm", "null", "height="+ height + ",width=" + screen.availWidth + ",screenX=0,screenY=0");
-	}
-}
-
-function SetFSMode( i ) {
-
-}
-
-function Slide( i ) {
-	SetFSMode(0);
-	GoToSld(GetHrefObj(i).m_slideHref);
-}
-
-function TP_GoToNextSld() {
-	SetFSMode(0);
-	GoToNextSld();
-}
-
-function TP_GoToPrevSld() {
-	SetFSMode(0);
-	GoToPrevSld();
-}
-
-function CloseFullScreen() {
-	g_done = 0;	
-	
-	if ( IsNav() ){
-		if ( self.opener )
-			opener.FSWin = null;
-	}
-	window.close();
-}
-
-function slidenum(i) {
-	var slidename = "slide";
-	if ( i < 10 )
-		return ( slidename + "000" + i);
-	else if ( i < 100 )
-		return ( slidename + "00" + i );
-	else if ( i < 1000 ) 
-		return (slidename + "0" + i );
-	else
-		return (slidename + i );
-}
-function UpdateLastVisibleSlide( index ) {
-	if ( g_lastVisibleSld < index ) 
-		g_lastVisibleSld = index;
-}
-
-function jpegArray( numSlides ) {
-count_hidden = 0;
-	g_docTable = new Array();
-  for( i=0; i<numSlides; i++ ) {
-    j = 2 * numSlides + i + 1;
-    var str = slidenum( j ) +".htm";
-	if( g_notesTable[i] == 1 )
-		g_docTable[i] = new hrefList( str, slidenum(i+1 ) + "_notes_pane.htm", g_hiddenSlide[i], i+1-count_hidden, "jpeg" );
-	else
-		g_docTable[i] = new hrefList( str, BLANK_NOTES_HREF, g_hiddenSlide[i], i+1-count_hidden, "jpeg" );
-    if ( !g_hiddenSlide[i] ) count_hidden++;
-    else UpdateLastVisibleSlide( i+1 );
-  }
-}
-
-function ieArray( numSlides ) {
-count_hidden = 0;
-	g_docTable = new Array();
-  for( i=0; i<numSlides; i++ ) {
-    var str = slidenum(i+1) +".htm";
-	if( g_notesTable[i] == 1 )
-		g_docTable[i] = new hrefList( str, slidenum( i+1 ) + "_notes_pane.htm", g_hiddenSlide[i], i+1-count_hidden, "ie" );
-	else
-		g_docTable[i] = new hrefList( str, BLANK_NOTES_HREF, g_hiddenSlide[i], i+1-count_hidden, "ie" );
-    if ( !g_hiddenSlide[i] ) count_hidden++;
-    else UpdateLastVisibleSlide( i+1 );
-  }
-}
-
-function navArray( numSlides ) {
-count_hidden = 0;
-	g_docTable = new Array();
-  for( i=0; i<numSlides; i++ ) {
-    j = numSlides + i + 1;
-    var str = slidenum( j ) +".htm";
-	if( g_notesTable[i] == 1 )
-		g_docTable[i] = new hrefList( str, slidenum(i+1 ) + "_notes_pane.htm", g_hiddenSlide[i], i+1-count_hidden, "nav" );
-	else
-		g_docTable[i] = new hrefList( str, BLANK_NOTES_HREF, g_hiddenSlide[i], i+1-count_hidden, "nav" );
-    if ( !g_hiddenSlide[i] ) count_hidden++;
-    else UpdateLastVisibleSlide( i+1 );
-  }
-}
-
-function LoadHTMLVersion() {
-  var os = window.navigator.platform.indexOf("Mac");
-  if ( (msie || isnav ) && ( (os < 0 && ver >= 4 ) || ( os >= 0 && ver >= 5 ) || (os >=0 && msie < 0 && ver >= 4 ) )  ){
-	if ( msie >= 0 )  {
-		if ( isIEFiles > 0 )
-			ieArray( 18 );
-		else if ( isFLATFiles > 0 ){
-			/*if ( IsFramesMode() )
-				StatusPlay("This presentation is optimized for use with older versions of your browser. Since you are using a more recent version of Microsoft Internet Explorer or Netscape Navigator, consider optimizing this presentation to take advantage of your current version's advanced capabilities."); */
-			jpegArray( 18 );
-		}
-		else
-			window.location.replace(  "webqtl_demo2_part1.ppt_files/error.htm" );
-	}
-	else {
-		if ( isNAVFiles > 0 && ver < 5) 
-			navArray( 18 );
-		else if ( isFLATFiles > 0 ) {
-			/* if ( IsFramesMode() )
-				StatusPlay("This presentation is optimized for use with older versions of your browser. Since you are using a more recent version of Microsoft Internet Explorer or Netscape Navigator, consider optimizing this presentation to take advantage of your current version's advanced capabilities."); */
-			jpegArray( 18 );
-		}
-		else
-			window.location.replace(  "webqtl_demo2_part1.ppt_files/error.htm" );
-	}
-}
-else {
-	/*
-	if ( IsFramesMode() && !isWebTV() )
-		StatusPlay("This presentation contains content that your browser may not be able to show properly. This presentation was optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator.");
-	*/
-	if ( isFLATFiles <= 0 ) {
-	/*	if ( IsFramesMode() )
-			window.alert("This presentation contains content that your browser may not be able to display properly. This presentation is optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator." );
-	*/
-		window.location.replace(  "webqtl_demo2_part1.ppt_files/error.htm" );
-	}		
-	/*
-	else if ( IsFramesMode()  && !isWebTV() )
-		StatusPlay( "This presentation contains content that your browser may not be able to show properly. This presentation was optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator." ); 
-	*/	
-	jpegArray ( 18 );
-  }
-  
-}
-
-function isWebTV() {
-	if ( window.navigator.appName.indexOf( 'WebTV' ) >= 0 )
-		return true;
-	return false;
-}
-		
-var count;
-var statusText;
-var statusfirst = 0;
- function display50( text ) 
-{
-	len = text.length;
-	if ( len < 50 && count < 2) {
-		window.status = text;
-		window.setTimeout( "repeat()", 300 );
-	}	
-	else {
-		var period = 200;
-		window.status = text;
-		newtext = text.substring( 1, len );
-		if ( statusfirst ) {
-			statusfirst = 0;
-			period = 2000;
-		}	
-		window.setTimeout( "display50( newtext )", period );
-	}
-}
-function repeat(  ) {
-	count++;		
-	statusfirst = 1;
-	display50( statusText );
-}
-
-function StatusPlay( text ) {
-	count = 0;
-	statusText = text;
-	repeat( );		
- }
-function makeSlide( i, notes, visible ) {
-	g_notesTable[i] = notes;
-	g_hiddenSlide[i] = visible;
-}	
-
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm
deleted file mode 100755
index d17c2490..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content="Aug-15-05: GeneNetwork and WebQTL:">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0001.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:.88%;left:3.31%;width:84.37%;height:9.89%;
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-mso-text-indent-alt:0;position:absolute;top:0%;left:1.25%;width:97.95%;
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-style='font-size:68%;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-<div style='position:absolute;top:24.02%;left:5.82%;width:69.0%;height:50.7%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='position:absolute;top:0%;left:2.87%;width:97.12%;
-height:71.08%'>
-<div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
-56;position:absolute;top:0%;left:0%;width:92.68%;height:53.43%'><span
-style='position:absolute;top:0%;left:0%;width:100.0%'><span style='mso-special-format:
-nobullet;display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:
-99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Part
-1: How to study </span></span><span style='position:absolute;top:31.19%;
-left:8.1%;width:91.89%'><span style='font-size:106%;color:#E9EB5D;mso-color-index:
-3'>expression variation and </span></span><span style='position:absolute;
-top:61.46%;left:8.1%;width:91.89%'><span style='font-size:106%;color:#E9EB5D;
-mso-color-index:3'>covariation (slides 2&#8211;16)<br>
-</span></span></div>
-<div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
-56;position:absolute;top:63.23%;left:0%;width:100.0%;height:36.76%'><span
-style='position:absolute;top:0%;left:0%;width:100.0%'><span style='mso-special-format:
-nobullet;display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:
-99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Part
-2. Discovering upstream </span></span><span style='position:absolute;
-top:45.33%;left:7.5%;width:89.32%'><span style='font-size:106%;color:#E9EB5D;
-mso-color-index:3'>modulators (slides 17&#8211;30)</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></span></div>
-</div>
-</div>
-<img border=0 src="slide0001_image001.png" style='position:absolute;top:21.9%;
-left:74.56%;width:23.57%;height:64.31%'>
-<div class=O style='position:absolute;top:79.32%;left:75.89%;width:10.46%;
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-<div style='mso-line-spacing:"-346 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
-17;position:absolute;top:0%;left:0%;width:100.0%;height:42.68%'><span
-style='font-family:"Arial Rounded MT Bold";font-size:233%;color:#6E6E6E'>RNA</span><span
-style='font-family:"Arial Rounded MT Bold";font-size:300%;color:#6E6E6E;
-display:none'><br>
-</span></div>
-<div style='mso-line-spacing:"-346 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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-style='font-family:"Arial Rounded MT Bold";font-size:300%;color:#6E6E6E;
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-</span></div>
-</div>
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-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'><i>PowerPoint �Normal view� has notes that may be </i></span></span><span
-style='position:absolute;top:50.76%;left:0%;width:86.53%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'><i>useful companions to these slides.</i></span><span style='font-family:
-"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:3;mso-special-format:
-lastCR;display:none'><br>
-</span></span></div>
-<div class=O style='position:absolute;top:10.95%;left:6.35%;width:55.23%;
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-PowerPoint Presentation</i></span><span style='font-family:"Gill Sans";
-font-size:317%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-<div class=O style='position:absolute;top:92.4%;left:75.23%;width:26.49%;
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-3'><i>You can also download this PowerPoint at<br>
-</i></span></div>
-<div style='position:absolute;top:50.76%;left:0%;width:100.0%;height:49.23%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'><i>ftp://atlas.utmem.edu/public/webqtl_demo2.ppt </i></span><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Welcome to a short
-  demonstration of the GeneNetwork and its WebQTL module. Please adjust the
-  size of the windows on your monitor so that you can see part of this page, as
-  well as GeneNetwork windows. WebQTL produces a large number of new windows,
-  so you may need to modify your browser preferences to permit pop-ups. In this
-  demonstration, we explore one important transcript expressed in the brain:
-  the amyloid beta precursor protein messenger RNA. A protein product of this
-  mRNA, the APP protein, is associated with Alzheimer�s disease.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>My thanks to Dr. Robert
-  F. Clark and Wenli Cai for testing this PowerPoint demonstration and making
-  many improvements.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>(Initial version of June
-  2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14, 2005
-  by WC. Final edits by RF Clark, July 22, 2005.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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deleted file mode 100755
index a1cb20e4..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_image001.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
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-<script>
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-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Welcome to a short
-  demonstration of the GeneNetwork and its WebQTL module. Please adjust the
-  size of the windows on your monitor so that you can see part of this page, as
-  well as GeneNetwork windows. WebQTL produces a large number of new windows,
-  so you may need to modify your browser preferences to permit pop-ups. In this
-  demonstration, we explore one important transcript expressed in the brain:
-  the amyloid beta precursor protein messenger RNA. A protein product of this
-  mRNA, the APP protein, is associated with Alzheimer�s disease.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>My thanks to Dr. Robert
-  F. Clark and Wenli Cai for testing this PowerPoint demonstration and making
-  many improvements.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>(Initial version of June
-  2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14, 2005
-  by WC. Final edits by RF Clark, July 22, 2005.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002.htm
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@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
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-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
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-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0002_image002.png" style='position:absolute;top:8.3%;
-left:.39%;width:86.35%;height:86.21%'><img border=0 src="slide0002_image003.png"
-style='position:absolute;top:34.27%;left:59.07%;width:12.18%;height:14.48%'>
-<div style='position:absolute;top:46.64%;left:85.43%;width:16.29%;height:12.01%;
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-width:91.3%;height:51.61%'><span style='font-family:"Gill Sans";font-size:217%;
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-</span></div>
-<div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%;
-left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'>database</span></div>
-</div>
-</div>
-<div style='position:absolute;top:62.19%;left:86.62%;width:21.05%;height:12.72%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:6.94%;left:5.03%;width:89.93%;
-height:86.11%'>
-<div style='position:absolute;top:0%;left:0%;width:100.0%;height:51.61%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>Enter<br>
-</span></div>
-<div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%;
-left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'><i>APP</i></span><span
-style='font-family:"Gill Sans";font-size:250%;color:#E9EB5D;mso-color-index:
-3;mso-special-format:lastCR;display:none'><i><br>
-</i></span></div>
-</div>
-</div>
-<div style='position:absolute;top:77.73%;left:85.96%;width:12.58%;height:12.72%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:6.94%;left:8.42%;width:91.57%;
-height:86.11%'>
-<div style='position:absolute;top:0%;left:0%;width:91.95%;height:51.61%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>Select<br>
-</span></div>
-<div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%;
-left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'>search</span></div>
-</div>
-</div>
-<div style='position:absolute;top:.88%;left:0%;width:111.92%;height:9.18%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div style='position:absolute;top:0%;left:.94%;width:99.05%;height:80.76%'>
-<div class=B1 style='mso-margin-left-alt:644;mso-text-indent-alt:420'></div>
-<div class=B2 style='mso-margin-left-alt:937;mso-text-indent-alt:716'></div>
-<div class=B3 style='mso-margin-left-alt:1232;mso-text-indent-alt:1009'></div>
-<div class=B4 style='mso-margin-left-alt:1544;mso-text-indent-alt:1304'></div>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:0;position:absolute;top:0%;left:0%;width:100.0%;height:
-100.0%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8;
-font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:
-106%;color:#E9EB5D;mso-color-index:3'>PART 1: How to study variation and
-covariation</span></div>
-</div>
-</div>
-<div style='position:absolute;top:15.54%;left:85.82%;width:16.15%;height:22.43%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='mso-line-spacing:"-224 0 0";position:absolute;top:1.57%;
-left:6.55%;width:94.26%;height:94.48%'><span style='position:absolute;
-top:0%;left:0%;width:91.3%'><span style='font-family:"Gill Sans";font-size:
-217%;color:#E9EB5D;mso-color-index:3'>Choose<span style="mso-spacerun:
-yes">&nbsp; </span></span></span><span style='position:absolute;top:25.0%;
-left:0%;width:91.3%'><span style='font-family:"Gill Sans";font-size:217%;
-color:#E9EB5D;mso-color-index:3'>species, </span></span><span style='position:
-absolute;top:49.16%;left:0%;width:91.3%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'>group, </span></span><span
-style='position:absolute;top:73.33%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>and type</span></span></div>
-</div>
-<img border=0 src="slide0002_image004.png" style='position:absolute;top:71.37%;
-left:48.87%;width:12.58%;height:13.78%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Please link to the web
-  site:<span style="mso-spacerun: yes">&nbsp; </span>http://www.genenetwork.org</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>To begin a search you
-  make choices about what species, group, and database to explore.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>For this demonstration
-  enter APP as above and click on the SEARCH button. Make sure that the DEFAULT
-  SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and Database =
-  INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>1. The GeneNetwork and
-  WebQTL are often used to work with public data sets. However, it is possible
-  to enter and analyze your own data for specific genetic reference populations
-  such as the BXD genetic reference population of mice or the HXB strains of rat.
-  Entering your own data is a more advanced topic, but if you click on the HOME
-  pop-down menu (upper left), you will see �Enter Trait Data� that will explain
-  the process.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>2.</font><font
-  face=Helvetica size=3> For help on advanced searching methods read the left
-  side of the page (INTRODUCTION).<span style="mso-spacerun: yes">&nbsp;
-  </span>If you make a search term too complex, you may get no hits (try
-  entering �amyloid beta� for example). If you make it too simple, you may also
-  get too many.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>3.</font><font
-  face=Helvetica size=3> Use the asterisk * as a wildcard. For example, to find
-  all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>4.</font><font
-  face=Helvetica size=3> In some cases you can also research for transcripts
-  and genes using special search strings such as �</font><font face=Geneva
-  size=3>Mb = (Chr1, 100 102)� to find all genes on Chromosome 1 between 98 and
-  104 megabases (don�t actually use the quotes). Details are described at </font><font
-  face=Verdana size=3>http://www.genenetwork.org/searchHelp.html</font><font
-  face=Geneva size=3>.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>5.<span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>These INFO buttons provide
-  links to data about the different data types. Try them.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>6.<span
-  style="mso-spacerun: yes">&nbsp; </span>The SET TO DEFAULT button is used to
-  change the database default setting to match your typical search categories.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Please link to the web
-  site:<span style="mso-spacerun: yes">&nbsp; </span>http://www.genenetwork.org</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>To begin a search you
-  make choices about what species, group, and database to explore.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>For this demonstration
-  enter APP as above and click on the SEARCH button. Make sure that the DEFAULT
-  SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and Database =
-  INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>1. The GeneNetwork and
-  WebQTL are often used to work with public data sets. However, it is possible
-  to enter and analyze your own data for specific genetic reference populations
-  such as the BXD genetic reference population of mice or the HXB strains of rat.
-  Entering your own data is a more advanced topic, but if you click on the HOME
-  pop-down menu (upper left), you will see �Enter Trait Data� that will explain
-  the process.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>2.</font><font
-  face=Helvetica size=2> For help on advanced searching methods read the left
-  side of the page (INTRODUCTION).<span style="mso-spacerun: yes">&nbsp;
-  </span>If you make a search term too complex, you may get no hits (try
-  entering �amyloid beta� for example). If you make it too simple, you may also
-  get too many.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>3.</font><font
-  face=Helvetica size=2> Use the asterisk * as a wildcard. For example, to find
-  all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>4.</font><font
-  face=Helvetica size=2> In some cases you can also research for transcripts
-  and genes using special search strings such as �</font><font face=Geneva
-  color="#222222" size=2>Mb = (Chr1, 100 102)� to find all genes on Chromosome
-  1 between 98 and 104 megabases (don�t actually use the quotes). Details are
-  described at </font><font face=Verdana color=black size=2>http://www.genenetwork.org/searchHelp.html</font><font
-  face=Geneva color="#222222" size=2>.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>5.<span
-  style="mso-spacerun: yes">&nbsp;&nbsp; </span>These INFO buttons provide
-  links to data about the different data types. Try them.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>6.<span
-  style="mso-spacerun: yes">&nbsp; </span>The SET TO DEFAULT button is used to
-  change the database default setting to match your typical search categories.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0003.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0003_image005.png" style='position:absolute;top:34.27%;
-left:59.07%;width:12.18%;height:14.48%'>
-<div style='position:absolute;top:.88%;left:.79%;width:105.69%;height:9.18%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div style='position:absolute;top:0%;left:1.0%;width:98.99%;height:80.76%'>
-<div class=B1 style='mso-margin-left-alt:644;mso-text-indent-alt:420'></div>
-<div class=B2 style='mso-margin-left-alt:937;mso-text-indent-alt:716'></div>
-<div class=B3 style='mso-margin-left-alt:1232;mso-text-indent-alt:1009'></div>
-<div class=B4 style='mso-margin-left-alt:1544;mso-text-indent-alt:1304'></div>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:0;position:absolute;top:0%;left:0%;width:100.0%;height:
-100.0%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8;
-font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:
-106%;color:#E9EB5D;mso-color-index:3'>Please also use the Glossary, FAQ, and
-News</span></div>
-</div>
-</div>
-<img border=0 src="slide0003_image006.png" style='position:absolute;top:10.07%;
-left:1.72%;width:69.66%;height:60.95%'><img border=0
-src="slide0003_image008.png" style='position:absolute;top:9.18%;left:18.8%;
-width:12.58%;height:13.78%'><img border=0 src="slide0003_image009.png"
-style='position:absolute;top:49.11%;left:38.27%;width:60.0%;height:48.58%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>SHORT DETOUR to the HELP
-  menu. If you are new to the GeneNetwork, you may find it helpful to review
-  the The Glossary and FAQ pages shown above. We are in the process of making
-  �live� demos for some of the key modules in the GeneNetwork. Check the NEWS
-  every month or two to find out about new features.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>SHORT DETOUR to the HELP
-  menu. If you are new to the GeneNetwork, you may find it helpful to review
-  the The Glossary and FAQ pages shown above. We are in the process of making
-  �live� demos for some of the key modules in the GeneNetwork. Check the NEWS
-  every month or two to find out about new features.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004.htm
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-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content="Aug-15-05: Search results">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0004.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
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-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0004_image010.png" style='position:absolute;top:9.18%;
-left:3.31%;width:68.74%;height:90.81%'><img border=0
-src="slide0004_image012.png" style='position:absolute;top:63.78%;left:63.57%;
-width:14.7%;height:6.53%'>
-<div class=O style='position:absolute;top:45.93%;left:80.13%;width:18.94%;
-height:47.17%'>
-<div style='mso-line-spacing:"-224 0 0";position:absolute;top:0%;left:0%;
-width:100.0%;height:44.94%'><span style='position:absolute;top:0%;left:0%;
-width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;
-mso-color-index:3'>Highlight </span></span><span style='position:absolute;
-top:24.16%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'>this probe </span></span><span
-style='position:absolute;top:49.16%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>set in red </span></span><span style='position:absolute;top:73.33%;
-left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;
-color:#E9EB5D;mso-color-index:3'>and</span><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3;display:none'><i><br>
-</i></span></span></div>
-<div style='mso-line-spacing:"-224 0 0";position:absolute;top:43.82%;
-left:0%;width:100.0%;height:56.17%'><span style='position:absolute;top:0%;
-left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;
-color:#E9EB5D;mso-color-index:3'>click. You </span></span><span
-style='position:absolute;top:20.0%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>do NOT </span></span><span style='position:absolute;top:39.33%;left:0%;
-width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;
-mso-color-index:3'>have to </span></span><span style='position:absolute;
-top:59.33%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";
-font-size:217%;color:#E9EB5D;mso-color-index:3'>select the </span></span><span
-style='position:absolute;top:78.66%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3'>checkbox</span><span style='font-family:"Gill Sans";font-size:250%;
-color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;display:none'><br>
-</span></span></div>
-</div>
-<div style='position:absolute;top:-4.41%;left:1.72%;width:84.63%;height:18.19%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='position:absolute;top:29.12%;left:1.4%;width:97.18%;
-height:42.71%'><span style='font-size:82%'>Search results</span><span
-style='mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>RESULTS OF THE APP
-  SEARCH.<span style="mso-spacerun: yes">&nbsp; </span>A search of the INIA
-  Brain database generates 18 matches, 10 of which are shown above. The
-  GeneNetwork will display several hundred matches in pages of 40 each. If a
-  search generates a larger numbers of hits, then you will need to refine
-  search terms.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>1. APP is a great
-  transcript to introduce you to the complexity and power of new array
-  platforms that often provide �alternative� expression estimates for single
-  genes. There are seven probe sets that target different parts of the APP
-  transcript. Which of the alternative measurements is most appropriate and
-  informative? Have a look at the FAQ page for more on this topic, but general
-  advice: 1. be skeptical and try to validate that the correct transcript and
-  gene is being measured; 2. check what part of the transcript is complementary
-  to the probes; 3. evaluate the performance of individual probes based on
-  expression level, signal-to-noise and other error terms such as the standard
-  deviation and error.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. In this particular
-  case we have highlighted and selected # 5 on this SEARCH RESULTS page. The
-  annotation for this probe set mentions that it targets the last three exons
-  and the 3� untranslated region (UTR) of the amyloid precursor protein (APP).<span
-  style="mso-spacerun: yes">&nbsp; </span>That is just what we want.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. Most probe sets have
-  not been annotated in as much detail as App. Refer tot the FAQ to learn how
-  to annotate probe sets yourself.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image010.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image010.png
deleted file mode 100755
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+++ /dev/null
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deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image012.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm
deleted file mode 100755
index f7336dcc..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>RESULTS OF THE APP
-  SEARCH.<span style="mso-spacerun: yes">&nbsp; </span>A search of the INIA
-  Brain database generates 18 matches, 10 of which are shown above. The
-  GeneNetwork will display several hundred matches in pages of 40 each. If a
-  search generates a larger numbers of hits, then you will need to refine
-  search terms.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>1. APP is a great
-  transcript to introduce you to the complexity and power of new array
-  platforms that often provide �alternative� expression estimates for single
-  genes. There are seven probe sets that target different parts of the APP
-  transcript. Which of the alternative measurements is most appropriate and
-  informative? Have a look at the FAQ page for more on this topic, but general
-  advice: 1. be skeptical and try to validate that the correct transcript and
-  gene is being measured; 2. check what part of the transcript is complementary
-  to the probes; 3. evaluate the performance of individual probes based on
-  expression level, signal-to-noise and other error terms such as the standard
-  deviation and error.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. In this particular
-  case we have highlighted and selected # 5 on this SEARCH RESULTS page. The
-  annotation for this probe set mentions that it targets the last three exons
-  and the 3� untranslated region (UTR) of the amyloid precursor protein (APP).<span
-  style="mso-spacerun: yes">&nbsp; </span>That is just what we want.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. Most probe sets have
-  not been annotated in as much detail as App. Refer tot the FAQ to learn how
-  to annotate probe sets yourself.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0005.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img
-border=0 src="slide0005_image013.png" style='position:absolute;top:8.83%;
-left:2.51%;width:77.48%;height:80.56%'>
-<div style='position:absolute;top:1.06%;left:0%;width:108.21%;height:8.3%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:1.83%;width:98.16%;
-height:78.72%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'>First page of data: The
-Trait Data and Analysis Form</span><span style='font-size:106%;color:#E9EB5D;
-mso-color-index:3;mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-<img border=0 src="slide0005_image014.png" style='position:absolute;top:34.98%;
-left:68.74%;width:16.42%;height:9.71%'>
-<div style='position:absolute;top:23.32%;left:84.76%;width:16.68%;height:34.09%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=O style='position:absolute;top:2.07%;left:6.34%;width:93.65%;
-height:95.33%'><span style='position:absolute;top:0%;left:0%;width:90.67%'><span
-style='font-size:200%;color:#E9EB5D'><i>Click </i></span></span><span
-style='position:absolute;top:16.3%;left:0%;width:90.67%'><span
-style='font-size:200%;color:#E9EB5D'><i>here<br>
-</i></span></span>
-<div style='position:absolute;top:33.15%;left:0%;width:100.0%;height:16.84%'><span
-style='font-size:200%;color:#E9EB5D'><i>to learn<br>
-</i></span></div>
-<div style='position:absolute;top:49.45%;left:0%;width:90.67%;height:16.84%'><span
-style='font-size:200%;color:#E9EB5D'><i>about<br>
-</i></span></div>
-<div style='position:absolute;top:66.3%;left:0%;width:90.67%;height:16.84%'><span
-style='font-size:200%;color:#E9EB5D'><i>data<br>
-</i></span></div>
-<div style='position:absolute;top:83.15%;left:0%;width:90.67%;height:16.84%'><span
-style='font-size:200%;color:#E9EB5D'><i>source</i></span></div>
-</div>
-</div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>The Trait Data and
-  Analysis Form is the single most important page from the point of view of
-  working with GeneNetwork data. Please read the text carefully. Explore the
-  links, but do not close this page. We will need it many more times in this
-  demonstration.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>1. What is this
-  database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that
-  actually mean. How much of the brain was used? How were the animals
-  processed? Most of these types of questions can be answered by clicking on
-  the DATABASE link.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. Transcript/gene
-  LOCATION data is usually from the most recent assembly. You can VERIFY the
-  location of the probes and probe set using the two VERIFY buttons. VERIFY
-  UCSC performs a sequence alignment (BLAT analysis) of the probes to the most
-  recent assembly.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. The PROBE TOOL button
-  provides you with highly detailed information on the probe sequences used to
-  assemble the probe set. For example, in this case you can find out which
-  probes correspond to which of the three exons. You can also review the
-  performance of the individual probes. Please check the GLOSSARY for
-  additional details on probes.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>4. The identifiers (IDs)
-  provide links to other key resources.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png
+++ /dev/null
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+++ /dev/null
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index fbe8c631..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>The Trait Data and
-  Analysis Form is the single most important page from the point of view of
-  working with GeneNetwork data. Please read the text carefully. Explore the
-  links, but do not close this page. We will need it many more times in this
-  demonstration.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>1. What is this
-  database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that
-  actually mean. How much of the brain was used? How were the animals
-  processed? Most of these types of questions can be answered by clicking on
-  the DATABASE link.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. Transcript/gene
-  LOCATION data is usually from the most recent assembly. You can VERIFY the
-  location of the probes and probe set using the two VERIFY buttons. VERIFY
-  UCSC performs a sequence alignment (BLAT analysis) of the probes to the most
-  recent assembly.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. The PROBE TOOL button
-  provides you with highly detailed information on the probe sequences used to
-  assemble the probe set. For example, in this case you can find out which
-  probes correspond to which of the three exons. You can also review the
-  performance of the individual probes. Please check the GLOSSARY for
-  additional details on probes.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>4. The identifiers (IDs)
-  provide links to other key resources.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0006.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:-1.06%;left:0%;width:100.26%;height:10.07%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:1.98%;width:96.82%;
-height:73.68%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Data sources: Metadata
-for each resource</span></div>
-</div>
-<img border=0 src="slide0006_image015.png" style='position:absolute;top:6.71%;
-left:3.31%;width:60.39%;height:92.22%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Most of the database
-  components and resources in The GeneNetwork are linked to metadata pages that
-  provide a human-readable summary of how, why, where, when, and with whom the
-  data were generated. Before you get too involved with a data set, it is
-  naturally important to read this information. While the data in The
-  GeneNetwork may be accessible and useful, that does not always mean that the
-  data is public domain and available for you to use in publication or for
-  profit purposes. If you want to know more about the data ownership and usage,
-  please read through the POLICIES pop-down menu items.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Most of the database
-  components and resources in The GeneNetwork are linked to metadata pages that
-  provide a human-readable summary of how, why, where, when, and with whom the
-  data were generated. Before you get too involved with a data set, it is
-  naturally important to read this information. While the data in The
-  GeneNetwork may be accessible and useful, that does not always mean that the
-  data is public domain and available for you to use in publication or for
-  profit purposes. If you want to know more about the data ownership and usage,
-  please read through the POLICIES pop-down menu items.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-genomics</title>
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
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-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:1.82%;width:98.17%;
-height:88.09%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'>Expression estimates for </span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'> on the Trait Data form</span><span
-style='font-size:81%;color:#E9EB5D;mso-color-index:3'> </span></div>
-</div>
-<div style='position:absolute;top:81.09%;left:2.51%;width:110.46%;height:11.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=O style='position:absolute;top:7.69%;left:.83%;width:99.16%;
-height:84.61%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
-style='font-family:"Gill Sans";font-size:183%;color:#E9EB5D;mso-color-index:
-3'>Trait data for each strain with SE when known. For array data the scale is </span></span><span
-style='position:absolute;top:49.09%;left:0%;width:84.28%'><span
-style='font-family:"Gill Sans";font-size:183%;color:#E9EB5D;mso-color-index:
-3'>~ log base 2.<span style="mso-spacerun: yes">&nbsp;&nbsp; </span></span><span
-style='font-size:167%;color:#E9EB5D;mso-color-index:3'>F1 data = 16.723 =
-2^16.723 = 108,174</span></span></div>
-</div>
-<img border=0 src="slide0007_image016.png" style='position:absolute;top:7.77%;
-left:2.51%;width:51.65%;height:72.26%'><img border=0
-src="slide0007_image017.png" style='position:absolute;top:33.92%;left:57.88%;
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-<div style='position:absolute;top:47.7%;left:57.48%;width:36.29%;height:18.9%;
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-<div class=O style='position:absolute;top:3.73%;left:2.91%;width:97.08%;
-height:96.26%'><span style='position:absolute;top:0%;left:0%;width:96.24%'><span
-style='font-size:167%;color:#E9EB5D;mso-color-index:3'>These values can all </span></span><span
-style='position:absolute;top:25.24%;left:0%;width:93.98%'><span
-style='font-size:167%;color:#E9EB5D;mso-color-index:3'>be changed by the </span></span><span
-style='position:absolute;top:49.51%;left:0%;width:100.0%'><span
-style='font-size:167%;color:#E9EB5D;mso-color-index:3'>user. (Yes, there is a </span></span><span
-style='position:absolute;top:74.75%;left:0%;width:93.98%'><span
-style='font-size:167%;color:#E9EB5D;mso-color-index:3'>RESET)</span></span></div>
-</div>
-</div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>This slide shows you the
-  lower parts of the Trait Data and Analysis Form with the data for the first
-  set of BXD strains</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image016.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image016.png
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@@ -1,5 +0,0 @@
-<html>
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- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>This slide shows you the
-  lower parts of the Trait Data and Analysis Form with the data for the first
-  set of BXD strains</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm
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-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:.53%;left:.79%;width:98.54%;height:8.12%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:2.01%;width:96.9%;
-height:91.3%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8;
-font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:
-106%;color:#E9EB5D;mso-color-index:3'>Critiquing the </span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> data the Trait Data</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:74.38%;left:2.51%;width:110.86%;height:13.78%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=O style='position:absolute;top:6.41%;left:.83%;width:99.16%;
-height:88.46%'><span style='position:absolute;top:0%;left:0%;width:98.55%'><span
-style='font-family:"Gill Sans";font-size:150%;color:#E9EB5D;mso-color-index:
-3'>Use the BASIC STATISTICS button to evaluate the App data. You will find that
-App data </span></span><span style='position:absolute;top:31.88%;left:0%;
-width:100.0%'><span style='font-family:"Gill Sans";font-size:150%;color:#E9EB5D;
-mso-color-index:3'>from the different strains are not equally trustworthy. BXD8
-is an obvious outlier without </span></span><span style='position:absolute;
-top:63.76%;left:0%;width:93.85%'><span style='font-family:"Gill Sans";
-font-size:150%;color:#E9EB5D;mso-color-index:3'>replication (no error bar)</span><span
-style='font-size:150%;color:#E9EB5D;mso-color-index:3'>. BXD33 is also
-suspiciously low. BXD5 is noisy. </span><span style='font-family:"Gill Sans";
-font-size:150%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></span></div>
-</div>
-<img border=0 src="slide0008_image018.png" style='position:absolute;top:7.77%;
-left:2.11%;width:16.02%;height:18.72%'><img border=0
-src="slide0008_image019.png" style='position:absolute;top:8.3%;left:18.27%;
-width:73.37%;height:66.07%'><img border=0 src="slide0008_image021.png"
-style='position:absolute;top:87.27%;left:59.6%;width:30.72%;height:13.42%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>The Basic Statistics
-  page allows you to evaluate some aspects of the data quality. In this case,
-  BXD8 is a potential problem. An outlier of this type may be generated by a
-  technical artifact (bad sample?). However, it is also possible that BXD8 just
-  has genuine low endogenous expression of App and may therefore be a
-  particularly valuable model for research. There are different ways to treat
-  problematic data of these types. One way is simply to discard this datum. The
-  other way is to prevent outliers from have too much influence quantitatively,
-  while leaving them in their low (or high positions). This is called
-  windsorizing the data (after King Henry the VIII who had a habit of chopping
-  heads). In this case, we have windsorized the BXD8 to a value of 16.0 and the
-  BXD33 to a value of 16.02. Rank is retained. We are making a bet that the two
-  lowest strains are really low, but we are hedging our bet and just making
-  them a little lower than BXD90. This removes their �undue� influence.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>1. It turns out that
-  BXD8 is a strain with many odd phenotypes. The whole strain is essentially an
-  outlier for many traits. Therefore, the low App expression data may be quite
-  accurate. Still, it would be comforting to have at least two more replicates.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image018.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image018.png
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm
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- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>The Basic Statistics
-  page allows you to evaluate some aspects of the data quality. In this case,
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-  has genuine low endogenous expression of App and may therefore be a
-  particularly valuable model for research. There are different ways to treat
-  problematic data of these types. One way is simply to discard this datum. The
-  other way is to prevent outliers from have too much influence quantitatively,
-  while leaving them in their low (or high positions). This is called
-  windsorizing the data (after King Henry the VIII who had a habit of chopping
-  heads). In this case, we have windsorized the BXD8 to a value of 16.0 and the
-  BXD33 to a value of 16.02. Rank is retained. We are making a bet that the two
-  lowest strains are really low, but we are hedging our bet and just making
-  them a little lower than BXD90. This removes their �undue� influence.</font><br>
-  </td>
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- <tr>
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-  </td>
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-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>1. It turns out that
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-  outlier for many traits. Therefore, the low App expression data may be quite
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-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
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-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> expression after
-windsorizing</span></div>
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-  <td align=left colspan=1><font face=Helvetica size=3>Now we get a much better
-  feel for the variation in the error among the cases. Those without error bars
-  are of course the �noisiest� of all. This data set is not complete yet (the
-  aim is to acquire at least one male-female sample for each BXD strain).</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
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deleted file mode 100755
index e03c35ed..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_image022.png
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deleted file mode 100755
index b2f9f9f2..00000000
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010.htm
deleted file mode 100755
index 4d02c34e..00000000
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-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
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-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:.79%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
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-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Discovering shared
-expression patterns</span></div>
-</div>
-<img border=0 src="slide0010_image023.png" style='position:absolute;top:10.07%;
-left:3.31%;width:94.17%;height:37.27%'><img border=0
-src="slide0010_image024.png" style='position:absolute;top:38.86%;left:61.72%;
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-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Finally, we can now
-  start an analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>We ask a simple
-  question:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Do differences in this
-  particular App transcript steady-state abundance level correlate with those
-  of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font
-  face=Helvetica size=3>You can CHOOSE many other DATABASES at this point if
-  you want, but for now let�s stick with the default.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. There are different
-  ways to sort the correlations. The most obvious is by p-value (most
-  significant values at the top of the list), but it is also interesting to
-  sort the top 100 or top 500 by their gene symbol (gene ID) or by their
-  chromosomal location (position).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. If you don�t want
-  your analysis to be sensitive to outliers, then you may want to choose to use
-  the Spearman Rank Order method of calculating correlations.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png
deleted file mode 100755
index 1d32d035..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png
deleted file mode 100755
index 152e5045..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm
deleted file mode 100755
index 3d3f0e48..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm
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-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Finally, we can now
-  start an analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>We ask a simple
-  question:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Do differences in this
-  particular App transcript steady-state abundance level correlate with those
-  of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
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- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. There are different
-  ways to sort the correlations. The most obvious is by p-value (most
-  significant values at the top of the list), but it is also interesting to
-  sort the top 100 or top 500 by their gene symbol (gene ID) or by their
-  chromosomal location (position).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. If you don�t want
-  your analysis to be sensitive to outliers, then you may want to choose to use
-  the Spearman Rank Order method of calculating correlations.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011.htm
deleted file mode 100755
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-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:.35%;left:-.79%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:96.6%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Transcript neighborhoods</span></div>
-</div>
-<img border=0 src="slide0011_image025.png" style='position:absolute;top:7.77%;
-left:2.51%;width:85.82%;height:91.87%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>The Traits Correlation
-  output window (Correlation Results) compares App expression data with all
-  other traits in this INIA Brain data set. The most significant 100 or 500
-  transcripts are sorted by their p-values. The top correlation is that of the
-  probe set to itself (often a value of 1.0, but in this case we modified the
-  App values manually by windsorizing the data). The next best correlation is
-  to another App probe set. The fourth correlation is interesting and suggests
-  that there may be a link between App and a particular type of ataxia (Atcay).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font
-  face=Helvetica size=3>Use the checkboxes to the far left to select traits
-  that you want to study together. Once you have selected interesting traits,
-  click on the ADD SELECTION button. This puts all of the selected traits into
-  a SELECTIONS WINDOW for other types of analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. The p-value is not
-  corrected for multiple tests. A conservative approach for array data would be
-  to assume 10,000 nominally independent tests. Subtract 4 from the exponent
-  and if the value is still smaller than 0.05 you may have a real correlation.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. The LITERATURE
-  CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael
-  Berry. Click on the header column by the asterisk for more information on
-  this highly useful data type.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>4. We are using Pearson
-  product moment correlations rather that the Spearman rank order correlation.
-  But you can select either in the previous step.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png
deleted file mode 100755
index d29a333f..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm
deleted file mode 100755
index 1f0dd0d1..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm
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-<head>
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-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
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-href="webqtl_demo2_part1.ppt.ppt">
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-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>The Traits Correlation
-  output window (Correlation Results) compares App expression data with all
-  other traits in this INIA Brain data set. The most significant 100 or 500
-  transcripts are sorted by their p-values. The top correlation is that of the
-  probe set to itself (often a value of 1.0, but in this case we modified the
-  App values manually by windsorizing the data). The next best correlation is
-  to another App probe set. The fourth correlation is interesting and suggests
-  that there may be a link between App and a particular type of ataxia (Atcay).</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2>Use the checkboxes to the far left to select traits
-  that you want to study together. Once you have selected interesting traits,
-  click on the ADD SELECTION button. This puts all of the selected traits into
-  a SELECTIONS WINDOW for other types of analysis.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. The p-value is not
-  corrected for multiple tests. A conservative approach for array data would be
-  to assume 10,000 nominally independent tests. Subtract 4 from the exponent
-  and if the value is still smaller than 0.05 you may have a real correlation.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. The LITERATURE
-  CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael
-  Berry. Click on the header column by the asterisk for more information on
-  this highly useful data type.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>4. We are using Pearson
-  product moment correlations rather that the Spearman rank order correlation.
-  But you can select either in the previous step.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm
deleted file mode 100755
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm
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-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0012.htm"
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-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
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-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
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-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
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-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:.35%;left:1.72%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:96.6%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> and </span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>Atcay</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript scatterplot </span></div>
-</div>
-<img border=0 src="slide0012_image026.png" style='position:absolute;top:8.48%;
-left:5.03%;width:66.22%;height:91.16%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>By clicking on the
-  CORRELATION of the Atcay transcript to the App transcript, you can generate a
-  Correlation plot between these two transcripts. In this App and Atcay
-  scatterplot, each point is a strain mean value. For example, BXD33 and BXD8
-  have low App and Atcay expressions. The two parental strains and the F1 are
-  also included in this plot.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png
deleted file mode 100755
index a0675ffc..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm
deleted file mode 100755
index c13d07ec..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>By clicking on the
-  CORRELATION of the Atcay transcript to the App transcript, you can generate a
-  Correlation plot between these two transcripts. In this App and Atcay
-  scatterplot, each point is a strain mean value. For example, BXD33 and BXD8
-  have low App and Atcay expressions. The two parental strains and the F1 are
-  also included in this plot.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm
deleted file mode 100755
index 5aa623bf..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0013.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:.35%;left:.79%;width:99.47%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;
-mso-text-indent-alt:56;position:absolute;top:0%;left:1.99%;width:96.8%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript and eight of
-its neighbors</span></div>
-</div>
-<img border=0 src="slide0013_image027.png" style='position:absolute;top:9.71%;
-left:2.51%;width:83.84%;height:90.1%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>A group of traits from
-  many different databases can be selected and brought together for joint
-  analysis. In this case all of the content of the BXD SELECTIONS is from a
-  single BRAIN database, the top 20 neighbors of the App transcript from the
-  Correlation Results table. Eight of these neighbors plus App is shown in the
-  slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font
-  face=Helvetica size=3>All of items in the BXD SELECTIONS were selected using
-  the SELECT ALL button</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. The buttons at the
-  top (and bottom) of this page can do some cool stuff. We will work with
-  NETWORK GRAPH first.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. Think of the
-  SELECTIONS as your shopping cart. You go to different aisles in the
-  supermarket to acquire different types of items of interest. These could
-  include transcripts, classical phenotypes (longevity, brain weight, prepulse
-  inhibition, iron levels in midbrain). �Checking out� in this case involves
-  doing some analysis with the items in the cart.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>4. Different tools
-  handle different numbers of items. Most will handle up to 100 traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png
deleted file mode 100755
index ba473846..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm
deleted file mode 100755
index 4d56b194..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>A group of traits from
-  many different databases can be selected and brought together for joint
-  analysis. In this case all of the content of the BXD SELECTIONS is from a
-  single BRAIN database, the top 20 neighbors of the App transcript from the
-  Correlation Results table. Eight of these neighbors plus App is shown in the
-  slide.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2>All of items in the BXD SELECTIONS were selected using
-  the SELECT ALL button</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. The buttons at the
-  top (and bottom) of this page can do some cool stuff. We will work with
-  NETWORK GRAPH first.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. Think of the
-  SELECTIONS as your shopping cart. You go to different aisles in the
-  supermarket to acquire different types of items of interest. These could
-  include transcripts, classical phenotypes (longevity, brain weight, prepulse
-  inhibition, iron levels in midbrain). �Checking out� in this case involves
-  doing some analysis with the items in the cart.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>4. Different tools
-  handle different numbers of items. Most will handle up to 100 traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm
deleted file mode 100755
index 156a5132..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description
-content="Aug-15-05: App transcript coexpression neighborhood">
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0014.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:82.15%;left:4.1%;width:96.15%;height:18.19%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'></div>
-<div style='position:absolute;top:-2.29%;left:.79%;width:105.43%;height:12.54%;
-filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
-<div class=T style='position:absolute;top:19.71%;left:1.25%;width:98.74%;
-height:61.97%'><span style='font-size:82%'><i>App</i></span><span
-style='font-size:82%'> transcript coexpression neighborhood</span><span
-style='mso-special-format:lastCR;display:none'><br>
-</span></div>
-</div>
-<img border=0 src="slide0014_image029.png" style='position:absolute;top:37.8%;
-left:1.72%;width:97.48%;height:62.19%'><img border=0
-src="slide0014_image031.png" style='position:absolute;top:11.13%;left:1.72%;
-width:79.47%;height:25.44%'><img border=0 src="slide0014_image033.png"
-style='position:absolute;top:10.6%;left:81.32%;width:18.8%;height:9.89%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Output of the Network
-  Graph. Warm colors (orange and red) are positive correlations above 0.5
-  whereas cool colors (green and blue) are negative correlations. Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font
-  face=Helvetica size=3> All of the nodes (gene/transcripts) on this graph are
-  clickable.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. For this graph the
-  App expression values have �reverted� to their pre-Windsorized values.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>3. To generate this
-  graph, we used the default setting:<span style="mso-spacerun: yes">&nbsp;
-  </span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use
-  curved lines (aka �edges�).</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png
deleted file mode 100755
index 8f560834..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png
deleted file mode 100755
index 8d72b4c1..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png
deleted file mode 100755
index c1cd1c01..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm
deleted file mode 100755
index 728a1a82..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Output of the Network
-  Graph. Warm colors (orange and red) are positive correlations above 0.5
-  whereas cool colors (green and blue) are negative correlations. Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2> All of the nodes (gene/transcripts) on this graph are
-  clickable.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. For this graph the
-  App expression values have �reverted� to their pre-Windsorized values.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>3. To generate this
-  graph, we used the default setting:<span style="mso-spacerun: yes">&nbsp;
-  </span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use
-  curved lines (aka �edges�).</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm
deleted file mode 100755
index c2a26be3..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0015.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
-if( !IsNts() ) Redirect( "PPTSld", gId );
-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:.79%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292;
-mso-text-indent-alt:0;position:absolute;top:0%;left:1.13%;width:97.59%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Correlations of </span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> with classical traits</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<img border=0 src="slide0015_image034.png" style='position:absolute;top:28.97%;
-left:4.1%;width:78.27%;height:70.84%'><img border=0 src="slide0015_image035.png"
-style='position:absolute;top:8.12%;left:4.1%;width:33.5%;height:19.61%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Going back to the Trait
-  Data and Analysis Form window, we have computed the correlations between
-  strain variation in App expression level and other classical phenotypes that
-  have already been measured in many of the same BXD strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=3>1.</font><font
-  face=Helvetica size=3>The number of common strains varies widely--in this
-  case from 14 to 23 strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>2. We can add these
-  traits (four are selected) to our BXD SELECTIONS window.</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png
deleted file mode 100755
index dafa2898..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png
deleted file mode 100755
index 35566d47..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm
deleted file mode 100755
index 373646fe..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Going back to the Trait
-  Data and Analysis Form window, we have computed the correlations between
-  strain variation in App expression level and other classical phenotypes that
-  have already been measured in many of the same BXD strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Arial size=2>1.</font><font
-  face=Helvetica size=2>The number of common strains varies widely--in this
-  case from 14 to 23 strains.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>2. We can add these
-  traits (four are selected) to our BXD SELECTIONS window.</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm
deleted file mode 100755
index 9432ca4c..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0016.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
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-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
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-LoadSld( gId );
-playList();MakeSldVis(1);
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-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:0%;left:.79%;width:99.47%;height:10.24%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292;
-mso-text-indent-alt:0;position:absolute;top:0%;left:1.06%;width:98.66%;
-height:72.41%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Network Graph of </span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> with classical traits</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<img border=0 src="slide0016_image036.png" style='position:absolute;top:8.3%;
-left:3.31%;width:88.21%;height:90.63%'></div>
-<div id=NotesObj style='display:none'>
-<table style='color:white' border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>We have computed the
-  Network Graph, now using other types of traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Saline Hot Plate Latency
-  is the green node labeled 10020.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Freezing (fear) is the
-  green node labeled 10447.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-  </td>
- </tr>
-</table>
-</div>
-<script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png
deleted file mode 100755
index baa1d807..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png
+++ /dev/null
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm
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index c2a078c5..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm
+++ /dev/null
@@ -1,5 +0,0 @@
-<html>
-<head>
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-</head>
-<body bgcolor=black text=white>
-<table border=0 width="100%">
- <tr>
-  <td width=5 nowrap></td>
-  <td width="100%"></td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>We have computed the
-  Network Graph, now using other types of traits.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Saline Hot Plate Latency
-  is the green node labeled 10020.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Freezing (fear) is the
-  green node labeled 10447.</font><br>
-  </td>
- </tr>
- <tr>
-  <td colspan=1></td>
-  <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br>
-  </td>
- </tr>
-</table>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm
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--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm
+++ /dev/null
@@ -1,25 +0,0 @@
-<html>
-<head>
-<meta http-equiv=Content-Type content="text/html; charset=macintosh">
-<meta name=ProgId content=PowerPoint.Slide>
-<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
-<link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm">
-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
-genomics</title>
-<link title="Presentation File" type="application/powerpoint" rel=alternate
-href="webqtl_demo2_part1.ppt.ppt">
-<script>
-if ( ! top.PPTPRESENTATION ) {
-	window.location.replace( "endshow.htm" );
-}
-</script>
-<meta name=Description content=Aug-15-05>
-<link rel=Stylesheet href="master03_stylesheet.css">
-<style media=print>
-<!--.sld
-	{left:0px !important;
-	width:6.0in !important;
-	height:4.5in !important;
-	font-size:76% !important;}
-->
-</style>
-<script language=JavaScript src=script.js></script><script language=JavaScript><!--
-gId="slide0017.htm"
-if ( !parent.base.g_done && (parent.base.msie < 0 ) ) {
-	parent.base.g_done = 1;
-	document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref);
-}
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-var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1;
-//-->
-</script><script for=window event=onload language=JavaScript><!--
-if( !IsSldOrNts() ) return;
-if( MakeNotesVis() ) return;
-LoadSld( gId );
-playList();MakeSldVis(1);
-//-->
-</script>
-</head>
-<body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)"
-onresize="_RSW()" onkeypress="_KPH(event)">
-<div id=SlideObj class=sld style='position:absolute;top:0px;left:0px;
-width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%);
-visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026"
-style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
-<div style='position:absolute;top:1.41%;left:3.31%;width:93.64%;height:14.48%;
-filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
-<div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292;
-mso-text-indent-alt:0;position:absolute;top:0%;left:1.13%;width:97.59%;
-height:51.21%'><span style='mso-special-format:nobullet;display:none;
-color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Summary of Part 1:</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</div>
-<div style='position:absolute;top:10.77%;left:8.47%;width:100.79%;height:47.87%'>
-<div class=O1 style='mso-margin-left-alt:432'></div>
-<div class=O2 style='mso-margin-left-alt:720'></div>
-<div class=O3 style='mso-margin-left-alt:1008'></div>
-<div class=O4 style='mso-margin-left-alt:1296'></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:0%;
-left:0%;width:90.14%;height:11.07%'><span style='position:absolute;top:0%;
-left:2.76%;width:97.23%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.84%;font-family:Arial'>1.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You have learned the basics
-about searching for traits<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:11.43%;
-left:0%;width:84.88%;height:11.07%'><span style='position:absolute;top:0%;
-left:2.94%;width:97.05%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-3.03%;font-family:Arial'>2.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know some methods to check
-data quality<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:22.5%;
-left:0%;width:84.88%;height:11.07%'><span style='position:absolute;top:0%;
-left:2.94%;width:97.05%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-3.03%;font-family:Arial'>3.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to edit bad or
-suspicious data<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:33.57%;
-left:0%;width:90.01%;height:11.07%'><span style='position:absolute;top:0%;
-left:2.77%;width:97.22%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.85%;font-family:Arial'>4.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to review the
-basic statistics of a trait<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:44.64%;
-left:0%;width:93.56%;height:22.14%'><span style='position:absolute;top:0%;
-left:2.66%;width:97.33%'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1";
-position:absolute;left:-2.74%;font-family:Arial'>5.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to generate a
-scattergram between two </span></span><span style='position:absolute;
-top:50.0%;left:2.66%;width:88.06%'><span style='font-family:"Gill Sans";
-font-size:200%;color:#E9EB5D;mso-color-index:3'>traits using the Traits
-Correlation tool<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:66.78%;
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-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to add items to
-your SELECTIONS window<br>
-</span></span></div>
-<div class=O style='mso-margin-left-alt:144;position:absolute;top:77.85%;
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-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to generate a
-Network Graph of traits that </span></span><span style='position:absolute;
-top:51.66%;left:2.51%;width:82.93%'><span style='font-family:"Gill Sans";
-font-size:200%;color:#E9EB5D;mso-color-index:3'>co-vary. </span></span></div>
-</div>
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-style='position:absolute;top:60.66%;left:0%;width:87.92%'><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
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-</span></span><span
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-</span></span><span style='position:absolute;
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-in this presentation are part of an </span></span><span style='position:absolute;
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-style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:
-3;mso-special-format:lastCR;display:none'><br>
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Welcome to a short
-   demonstration of the GeneNetwork and its WebQTL module. Please adjust the
-   size of the windows on your monitor so that you can see part of this page,
-   as well as GeneNetwork windows. WebQTL produces a large number of new
-   windows, so you may need to modify your browser preferences to permit
-   pop-ups. In this demonstration, we explore one important transcript
-   expressed in the brain: the amyloid beta precursor protein messenger RNA. A
-   protein product of this mRNA, the APP protein, is associated with
-   Alzheimer�s disease.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>My thanks to Dr. Robert
-   F. Clark and Wenli Cai for testing this PowerPoint demonstration and making
-   many improvements.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>(Initial version of
-   June 2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14,
-   2005 by WC. Final edits by RF Clark, July 22, 2005.</font><br>
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-  </tr>
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deleted file mode 100755
index e2cb435a..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019_notes_pane.htm
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Please link to the web
-   site:<span style="mso-spacerun: yes">&nbsp;
-   </span>http://www.genenetwork.org</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>To begin a search you
-   make choices about what species, group, and database to explore.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>For this demonstration
-   enter APP as above and click on the SEARCH button. Make sure that the
-   DEFAULT SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and
-   Database = INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>1. The GeneNetwork and
-   WebQTL are often used to work with public data sets. However, it is possible
-   to enter and analyze your own data for specific genetic reference
-   populations such as the BXD genetic reference population of mice or the HXB
-   strains of rat. Entering your own data is a more advanced topic, but if you
-   click on the HOME pop-down menu (upper left), you will see �Enter Trait
-   Data� that will explain the process.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>2.</font><font
-   face=Helvetica size=3> For help on advanced searching methods read the left
-   side of the page (INTRODUCTION).<span style="mso-spacerun: yes">&nbsp;
-   </span>If you make a search term too complex, you may get no hits (try
-   entering �amyloid beta� for example). If you make it too simple, you may
-   also get too many.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>3.</font><font
-   face=Helvetica size=3> Use the asterisk * as a wildcard. For example, to
-   find all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>4.</font><font
-   face=Helvetica size=3> In some cases you can also research for transcripts
-   and genes using special search strings such as �</font><font face=Geneva
-   size=3>Mb = (Chr1, 100 102)� to find all genes on Chromosome 1 between 98
-   and 104 megabases (don�t actually use the quotes). Details are described at </font><font
-   face=Verdana size=3>http://www.genenetwork.org/searchHelp.html</font><font
-   face=Geneva size=3>.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>5.<span
-   style="mso-spacerun: yes">&nbsp;&nbsp; </span>These INFO buttons provide
-   links to data about the different data types. Try them.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>6.<span
-   style="mso-spacerun: yes">&nbsp; </span>The SET TO DEFAULT button is used to
-   change the database default setting to match your typical search categories.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm
deleted file mode 100755
index 0e0eb529..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm
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-<layer>
- <div id=NotesObj style='display:none'>
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>SHORT DETOUR to the
-   HELP menu. If you are new to the GeneNetwork, you may find it helpful to
-   review the The Glossary and FAQ pages shown above. We are in the process of
-   making �live� demos for some of the key modules in the GeneNetwork. Check
-   the NEWS every month or two to find out about new features.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
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-//-->
-</script><script language=JavaScript><!--
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-
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-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0022.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0022.htm
deleted file mode 100755
index 663a5f0f..00000000
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@@ -1,140 +0,0 @@
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-</i></span></span></layer></div>
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-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
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-style='mso-special-format:lastCR;display:none'><br>
-</span></div>
-</layer></div>
-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>RESULTS OF THE APP
-   SEARCH.<span style="mso-spacerun: yes">&nbsp; </span>A search of the INIA
-   Brain database generates 18 matches, 10 of which are shown above. The
-   GeneNetwork will display several hundred matches in pages of 40 each. If a
-   search generates a larger numbers of hits, then you will need to refine
-   search terms.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>1. APP is a great
-   transcript to introduce you to the complexity and power of new array
-   platforms that often provide �alternative� expression estimates for single
-   genes. There are seven probe sets that target different parts of the APP
-   transcript. Which of the alternative measurements is most appropriate and
-   informative? Have a look at the FAQ page for more on this topic, but general
-   advice: 1. be skeptical and try to validate that the correct transcript and
-   gene is being measured; 2. check what part of the transcript is
-   complementary to the probes; 3. evaluate the performance of individual
-   probes based on expression level, signal-to-noise and other error terms such
-   as the standard deviation and error.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. In this particular
-   case we have highlighted and selected # 5 on this SEARCH RESULTS page. The
-   annotation for this probe set mentions that it targets the last three exons
-   and the 3� untranslated region (UTR) of the amyloid precursor protein (APP).<span
-   style="mso-spacerun: yes">&nbsp; </span>That is just what we want.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. Most probe sets have
-   not been annotated in as much detail as App. Refer tot the FAQ to learn how
-   to annotate probe sets yourself.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0023.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0023.htm
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+++ /dev/null
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-<html>
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-display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3'>First page of data: The
-Trait Data and Analysis Form</span><span style='font-size:106%;color:#E9EB5D;
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-</layer></div>
-</layer></div>
-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>The Trait Data and
-   Analysis Form is the single most important page from the point of view of
-   working with GeneNetwork data. Please read the text carefully. Explore the
-   links, but do not close this page. We will need it many more times in this
-   demonstration.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>1. What is this
-   database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that
-   actually mean. How much of the brain was used? How were the animals
-   processed? Most of these types of questions can be answered by clicking on
-   the DATABASE link.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. Transcript/gene
-   LOCATION data is usually from the most recent assembly. You can VERIFY the
-   location of the probes and probe set using the two VERIFY buttons. VERIFY
-   UCSC performs a sequence alignment (BLAT analysis) of the probes to the most
-   recent assembly.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. The PROBE TOOL
-   button provides you with highly detailed information on the probe sequences
-   used to assemble the probe set. For example, in this case you can find out
-   which probes correspond to which of the three exons. You can also review the
-   performance of the individual probes. Please check the GLOSSARY for
-   additional details on probes.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>4. The identifiers
-   (IDs) provide links to other key resources.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0024.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0024.htm
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@@ -1,93 +0,0 @@
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-display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
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-   <td align=left colspan=1><font face=Helvetica size=3>Most of the database
-   components and resources in The GeneNetwork are linked to metadata pages
-   that provide a human-readable summary of how, why, where, when, and with
-   whom the data were generated. Before you get too involved with a data set,
-   it is naturally important to read this information. While the data in The
-   GeneNetwork may be accessible and useful, that does not always mean that the
-   data is public domain and available for you to use in publication or for
-   profit purposes. If you want to know more about the data ownership and
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm
deleted file mode 100755
index 32820d64..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm
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-  </tr>
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-   <td align=left colspan=1><font face=Helvetica size=3>This slide shows you
-   the lower parts of the Trait Data and Analysis Form with the data for the
-   first set of BXD strains</font><br>
-   </td>
-  </tr>
- </table>
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-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm
deleted file mode 100755
index 7dac49e1..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm
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@@ -1,130 +0,0 @@
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-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> data the Trait Data</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
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-</script>
-<div><script>
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-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:150%;
-color:#E9EB5D;mso-color-index:3'>Use the BASIC STATISTICS button to evaluate
-the App data. You will find that App data </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:150%;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:150%;
-color:#E9EB5D;mso-color-index:3'>replication (no error bar)</span><span
-style='font-size:150%;color:#E9EB5D;mso-color-index:3'>. BXD33 is also
-suspiciously low. BXD5 is noisy. </span><span style='font-family:"Gill Sans";
-font-size:150%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></span></layer></div>
-</layer></div>
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-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>The Basic Statistics
-   page allows you to evaluate some aspects of the data quality. In this case,
-   BXD8 is a potential problem. An outlier of this type may be generated by a
-   technical artifact (bad sample?). However, it is also possible that BXD8
-   just has genuine low endogenous expression of App and may therefore be a
-   particularly valuable model for research. There are different ways to treat
-   problematic data of these types. One way is simply to discard this datum.
-   The other way is to prevent outliers from have too much influence
-   quantitatively, while leaving them in their low (or high positions). This is
-   called windsorizing the data (after King Henry the VIII who had a habit of
-   chopping heads). In this case, we have windsorized the BXD8 to a value of 16.0
-   and the BXD33 to a value of 16.02. Rank is retained. We are making a bet
-   that the two lowest strains are really low, but we are hedging our bet and
-   just making them a little lower than BXD90. This removes their �undue�
-   influence.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>1. It turns out that
-   BXD8 is a strain with many odd phenotypes. The whole strain is essentially
-   an outlier for many traits. Therefore, the low App expression data may be
-   quite accurate. Still, it would be comforting to have at least two more
-   replicates.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0027.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0027.htm
deleted file mode 100755
index 0a23d59d..00000000
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-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Now we get a much
-   better feel for the variation in the error among the cases. Those without
-   error bars are of course the �noisiest� of all. This data set is not
-   complete yet (the aim is to acquire at least one male-female sample for each
-   BXD strain).</font><br>
-   </td>
-  </tr>
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- </div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm
deleted file mode 100755
index cde4a136..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm
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@@ -1,104 +0,0 @@
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Finally, we can now
-   start an analysis.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>We ask a simple
-   question:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Do differences in this
-   particular App transcript steady-state abundance level correlate with those
-   of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>You can CHOOSE many other DATABASES at this point if
-   you want, but for now let�s stick with the default.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. There are different
-   ways to sort the correlations. The most obvious is by p-value (most
-   significant values at the top of the list), but it is also interesting to
-   sort the top 100 or top 500 by their gene symbol (gene ID) or by their
-   chromosomal location (position).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. If you don�t want
-   your analysis to be sensitive to outliers, then you may want to choose to
-   use the Spearman Rank Order method of calculating correlations.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
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-
-}
-//-->
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-</body>
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-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0029.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0029.htm
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-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>The Traits Correlation
-   output window (Correlation Results) compares App expression data with all
-   other traits in this INIA Brain data set. The most significant 100 or 500
-   transcripts are sorted by their p-values. The top correlation is that of the
-   probe set to itself (often a value of 1.0, but in this case we modified the
-   App values manually by windsorizing the data). The next best correlation is
-   to another App probe set. The fourth correlation is interesting and suggests
-   that there may be a link between App and a particular type of ataxia
-   (Atcay).</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>Use the checkboxes to the far left to select traits
-   that you want to study together. Once you have selected interesting traits,
-   click on the ADD SELECTION button. This puts all of the selected traits into
-   a SELECTIONS WINDOW for other types of analysis.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. The p-value is not
-   corrected for multiple tests. A conservative approach for array data would
-   be to assume 10,000 nominally independent tests. Subtract 4 from the
-   exponent and if the value is still smaller than 0.05 you may have a real
-   correlation.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. The LITERATURE
-   CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael
-   Berry. Click on the header column by the asterisk for more information on
-   this highly useful data type.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>4. We are using Pearson
-   product moment correlations rather that the Spearman rank order correlation.
-   But you can select either in the previous step.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0030.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0030.htm
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-   <td width="100%"></td>
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-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>By clicking on the
-   CORRELATION of the Atcay transcript to the App transcript, you can generate
-   a Correlation plot between these two transcripts. In this App and Atcay
-   scatterplot, each point is a strain mean value. For example, BXD33 and BXD8
-   have low App and Atcay expressions. The two parental strains and the F1 are
-   also included in this plot.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
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diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0031.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0031.htm
deleted file mode 100755
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-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
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-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>A group of traits from
-   many different databases can be selected and brought together for joint
-   analysis. In this case all of the content of the BXD SELECTIONS is from a
-   single BRAIN database, the top 20 neighbors of the App transcript from the
-   Correlation Results table. Eight of these neighbors plus App is shown in the
-   slide.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>All of items in the BXD SELECTIONS were selected using
-   the SELECT ALL button</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. The buttons at the
-   top (and bottom) of this page can do some cool stuff. We will work with
-   NETWORK GRAPH first.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. Think of the
-   SELECTIONS as your shopping cart. You go to different aisles in the
-   supermarket to acquire different types of items of interest. These could
-   include transcripts, classical phenotypes (longevity, brain weight, prepulse
-   inhibition, iron levels in midbrain). �Checking out� in this case involves
-   doing some analysis with the items in the cart.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>4. Different tools
-   handle different numbers of items. Most will handle up to 100 traits.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
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-</script><script language=JavaScript><!--
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-</body>
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-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm
deleted file mode 100755
index 85ee47fe..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm
+++ /dev/null
@@ -1,118 +0,0 @@
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-font-style:normal;text-decoration:none;text-shadow:none;text-effect:none;
-mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%;
-mso-text-raise:0%'><span style='font-size:82%'><i>App</i></span><span
-style='font-size:82%'> transcript coexpression neighborhood</span><span
-style='mso-special-format:lastCR;display:none'><br>
-</span></div>
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-</layer></div>
-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Output of the Network
-   Graph. Warm colors (orange and red) are positive correlations above 0.5
-   whereas cool colors (green and blue) are negative correlations. Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3> All of the nodes (gene/transcripts) on this graph are
-   clickable.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. For this graph the
-   App expression values have �reverted� to their pre-Windsorized values.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>3. To generate this
-   graph, we used the default setting:<span style="mso-spacerun: yes">&nbsp;
-   </span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use
-   curved lines (aka �edges�).</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0033.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0033.htm
deleted file mode 100755
index 042ca4ad..00000000
--- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0033.htm
+++ /dev/null
@@ -1,104 +0,0 @@
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-none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Correlations of </span><span
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-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
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-
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- <table style='color:white' border=0 width="100%">
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-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Going back to the Trait
-   Data and Analysis Form window, we have computed the correlations between
-   strain variation in App expression level and other classical phenotypes that
-   have already been measured in many of the same BXD strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Arial size=3>1.</font><font
-   face=Helvetica size=3>The number of common strains varies widely--in this
-   case from 14 to 23 strains.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>2. We can add these
-   traits (four are selected) to our BXD SELECTIONS window.</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
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-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0034.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0034.htm
deleted file mode 100755
index 3cf1ac70..00000000
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-none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Network Graph of </span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'> with classical traits</span><span
-style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;
-display:none'><br>
-</span></div>
-</layer></div>
-</layer><script>
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-</script>
-<div><script language=JavaScript><!--
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-</LAYER>
-
-<layer>
- <div id=NotesObj style='display:none'>
- <table style='color:white' border=0 width="100%">
-  <tr>
-   <td width=5 nowrap></td>
-   <td width="100%"></td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>We have computed the
-   Network Graph, now using other types of traits.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Saline Hot Plate
-   Latency is the green node labeled 10020.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Freezing (fear) is the
-   green node labeled 10447.</font><br>
-   </td>
-  </tr>
-  <tr>
-   <td colspan=1></td>
-   <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
-   </td>
-  </tr>
- </table>
- </div>
-</layer>
-<script language=JavaScript><!--
-//-->
-</script><script language=JavaScript><!--
-function playList() {
-
-}
-//-->
-</script>
-</body>
-</html>
-\ No newline at end of file
diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0035.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0035.htm
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-<title>PowerPoint Presentation  -  Complex trait analysis, develop-ment, and
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-none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
-style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Summary of Part 1:</span><span
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-</span></div>
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- no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
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-<layer>
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-<layer>
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-<layer>
- <div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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- mso-text-raise:0%'></div>
-</layer>
-<script>
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-</script>
-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
-font-family:Verdana;font-weight:normal;font-style:normal;text-decoration:none;
-text-shadow:none;text-effect:none;mso-fareast-hint:no;layout-flow:horizontal;
-color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt:
-144;mso-margin-left-alt:144'><script>
-	mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.88 * g_width;
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-3'><span style="mso-spacerun: yes">&nbsp;</span>You have learned the basics
-about searching for traits<br>
-</span></span></layer></div>
-</layer><script>
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-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
-font-family:Verdana;font-weight:normal;font-style:normal;text-decoration:none;
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-144;mso-margin-left-alt:144'><script>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know some methods to check
-data quality<br>
-</span></span></layer></div>
-</layer><script>
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-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
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-text-shadow:none;text-effect:none;mso-fareast-hint:no;layout-flow:horizontal;
-color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt:
-144;mso-margin-left-alt:144'><script>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
-position:absolute;left:-3.03%;font-family:Arial'>3.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to edit bad or
-suspicious data<br>
-</span></span></layer></div>
-</layer><script>
-	mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.9 * g_width;
-	document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
-</script>
-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
-font-family:Verdana;font-weight:normal;font-style:normal;text-decoration:none;
-text-shadow:none;text-effect:none;mso-fareast-hint:no;layout-flow:horizontal;
-color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt:
-144;mso-margin-left-alt:144'><script>
-	mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.88 * g_width;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
-position:absolute;left:-2.85%;font-family:Arial'>4.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to review the
-basic statistics of a trait<br>
-</span></span></layer></div>
-</layer><script>
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-144;mso-margin-left-alt:144'><script>
-	mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.91 * g_width;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
-position:absolute;left:-2.74%;font-family:Arial'>5.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to generate a
-scattergram between two </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'>traits using the Traits Correlation tool<br>
-</span></span></layer></div>
-</layer><script>
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-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
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-color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt:
-144;mso-margin-left-alt:144'><script>
-	mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.98 * g_width;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
-position:absolute;left:-2.56%;font-family:Arial'>6.</span></span><span
-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to add items to
-your SELECTIONS window<br>
-</span></span></layer></div>
-</layer><script>
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-<div style='mso-special-format:numbullet;font-family:Arial;text-align:left;
-font-family:Verdana;font-weight:normal;font-style:normal;text-decoration:none;
-text-shadow:none;text-effect:none;mso-fareast-hint:no;layout-flow:horizontal;
-color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt:
-144;mso-margin-left-alt:144'><script>
-	mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.97 * g_width;
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
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-style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
-3'><span style="mso-spacerun: yes">&nbsp;</span>You know how to generate a
-Network Graph of traits that </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
-color:#E9EB5D;mso-color-index:3'>co-vary. </span></span></layer></div>
-</layer></div>
-</layer><script>
-	mytop = 0.67 * g_height; myleft = 0.05 * g_width; myheight = 0.26 * g_height; mywidth = 1.05 * g_width;
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-</script>
-<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
-normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint:
-no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%;
-mso-text-raise:0%'><script>
-	mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.05 * g_width;
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
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-covariance can </span></span></layer><script>
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-</script><span
-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
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-be due to linkage </span></span></layer><script>
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-style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
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-sampling error or poor </span></span></layer><script>
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