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<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID10 VISIBILITY=hidden >></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 >></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 >></ilayer>'); } </script></td>
<td width=100% id="p12" ><font face=Arial size=2><b><a
href="javascript:parent.base.Slide('12')" id=AREF>"Summary of Part 2"</a></b></font></td>
</tr>
</table>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID13 VISIBILITY=hidden >></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 >></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>
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<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>
<meta name=Robots content=NoIndex>
<style>
<!--a {text-decoration: none;}-->
</style>
</head>
<body bgcolor=black text=white link=white vlink=white alink=white
onload=" parent.base.highlite();" onresize="self.location.reload();">
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID1 VISIBILITY=hidden >></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"> </span><br>
link to www.genenetwork.org</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>Part 1. How to study expression
variation and genetic correlation (slides 2–17)</font></td>
</tr>
<tr>
<td colspan=1></td>
<td colspan=1><font face=Arial size=2>Part 2. Discovering upstream modulators
(slides 18–29)</font></td>
</tr>
</table>
<br>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID2 VISIBILITY=hidden >></ilayer>'); } </script></td>
<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>
</tr>
</table>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID3 VISIBILITY=hidden >></ilayer>'); } </script></td>
<td width=100% id="p3" ><font face=Arial size=2><b><a
href="javascript:parent.base.Slide('3')" id=AREF>Slide 3</a></b></font></td>
</tr>
</table>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID4 VISIBILITY=hidden >></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 >></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 >></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 >></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 >></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>
</tr>
</table>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID9 VISIBILITY=hidden >></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>
</tr>
</table>
<table width=100%>
<tr>
<td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID10 VISIBILITY=hidden >></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 >></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 >></ilayer>'); } </script></td>
<td width=100% id="p12" ><font face=Arial size=2><b><a
href="javascript:parent.base.Slide('12')" id=AREF>"Summary of Part 2"</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 >></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 >></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>
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<body background=navbg.gif topmargin=1 onresize="restore()" scroll="no" >
<script language=JavaScript><!--
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+ 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( " >   " + 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>' ); + } + 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( 14 ); + 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( 14 ); + } + else + window.location.replace( "webqtl_demo2.ppt_files/error.htm" ); + } + else { + if ( isNAVFiles > 0 && ver < 5) + navArray( 14 ); + 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( 14 ); + } + else + window.location.replace( "webqtl_demo2.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.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 ( 14 ); + } + +} + +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.ppt_files/slide0001.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001.htm new file mode 100755 index 00000000..11938baa --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0001.htm @@ -0,0 +1,25 @@ +<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: The GeneNetwork and WebQTL : PART 2 link to www.genenetwork.org">
<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:3.53%;left:2.11%;width:96.15%;height:18.19%;
filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
<div class=T style='mso-line-spacing:"-277 0 -1";mso-margin-left-alt:232;
mso-text-indent-alt:0;position:absolute;top:11.65%;left:.96%;width:98.2%;
height:73.78%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span
style='font-size:73%'>The GeneNetwork and WebQTL : PART 2<span
style="mso-spacerun: yes"> </span><br>
</span></span><span
style='position:absolute;top:48.68%;left:4.34%;width:95.23%'><span
style='font-size:73%'>link to www.genenetwork.org</span><span style='font-size:
73%;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></div>
</div>
<div style='position:absolute;top:24.02%;left:5.82%;width:54.03%;height:68.55%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=B style='position:absolute;top:0%;left:3.67%;width:96.32%;
height:61.34%'>
<div style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
56;position:absolute;top:0%;left:0%;width:100.0%;height:51.68%'><span
style='position:absolute;top:0%;left:0%;width:89.05%'><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'>Part
1. How to study </span></span><span style='position:absolute;top:23.57%;
left:9.66%;width:79.13%'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
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;
mso-color-index:3'>and genetic correlation </span></span><span
style='position:absolute;top:70.73%;left:9.66%;width:79.13%'><span
style='font-size:94%;color:#E9EB5D;mso-color-index:3'>(slides 2–17)<br>
</span></span></div>
<div style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
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:
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'>Part
2. Discovering </span></span><span style='position:absolute;top:30.52%;
left:10.32%;width:89.67%'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>upstream modulators </span></span><span style='position:absolute;top:61.05%;
left:10.32%;width:84.51%'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>(slides 18–29)</span></span></div>
</div>
</div>
<img border=0 src="slide0001_image001.png" style='position:absolute;top:17.84%;
left:74.17%;width:23.57%;height:64.31%'>
<div class=O style='position:absolute;top:75.44%;left:74.56%;width:10.46%;
height:14.48%'>
<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:
17;position:absolute;top:45.12%;left:0%;width:82.27%;height:54.87%'><span
style='font-family:"Arial Rounded MT Bold";font-size:300%;color:#6E6E6E;
mso-special-format:lastCR;display:none'><br>
</span></div>
</div>
<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>
<img border=0 src="slide0001_image002.png" style='position:absolute;top:50.53%;
left:48.74%;width:25.56%;height:13.07%'></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>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>
</div>
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+function playList() { + +} +//-->
+</script>
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<head>
<meta name=ProgId content=PowerPoint.Slide>
<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
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</head>
<body bgcolor=black text=white>
<table 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=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>
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<meta http-equiv=Content-Type content="text/html; charset=macintosh">
<meta name=ProgId content=PowerPoint.Slide>
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<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="master05_stylesheet.css">
<style media=print>
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+gId="slide0002.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="master05_background.png" v:shapes="_x0000_s3075"
style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'>
<div class=O style='position:absolute;top:92.93%;left:8.74%;width:18.67%;
height:5.83%'>
<div style='mso-line-spacing:"-134 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:0%;left:0%;width:100.0%;height:48.48%'><span
style='font-family:Times;font-size:117%;color:white;display:none'><br>
</span></div>
<div style='mso-line-spacing:"-134 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:51.51%;left:0%;width:100.0%;height:48.48%'><span
style='font-family:Times;font-size:117%;color:white;mso-special-format:lastCR;
display:none'><br>
</span></div>
</div>
<div class=O style='position:absolute;top:92.93%;left:35.49%;width:29.4%;
height:5.83%'>
<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:0%;width:100.0%;
height:48.48%'><span style='font-family:Times;font-size:117%;color:white;
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:51.51%;left:0%;width:100.0%;
height:48.48%'><span style='font-family:Times;font-size:117%;color:white;
mso-special-format:lastCR;display:none'><br>
</span></div>
</div>
<div style='position:absolute;top:2.12%;left:-5.43%;width:105.96%;height:11.13%;
filter:DropShadow(Color=#000000, OffX=2, OffY=2)'>
<div class=O style='position:absolute;top:0%;left:0%;width:100.0%;height:92.06%'>
<div style='text-align:center;mso-line-spacing:"-240 0 0";mso-margin-left-alt:
16;mso-text-indent-alt:16;position:absolute;top:0%;left:0%;width:100.0%;
height:65.51%'><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>
<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'>+ É +<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"> </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 TaylorÕs 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 ÒblueÓ and ÒredÓ
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>
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<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>
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<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"> </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 TaylorÕs 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 ÒblueÓ and ÒredÓ
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>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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href="webqtl_demo2.ppt.ppt">
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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%'><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
style='font-size:300%;color:#E2EBF0;mso-special-format:lastCR;display:none'><br>
</span></div>
</div>
</div>
<div style='position:absolute;top:63.78%;left:8.74%;width:6.35%;height:17.84%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=O style='position:absolute;top:3.96%;left:20.83%;width:75.0%;
height:92.07%'>
<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>
<div style='position:absolute;top:63.78%;left:15.09%;width:5.96%;height:17.84%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=O style='position:absolute;top:3.96%;left:20.0%;width:71.11%;
height:92.07%'>
<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>
<div style='position:absolute;top:71.02%;left:7.54%;width:16.02%;height:12.54%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=O style='position:absolute;top:5.63%;left:7.43%;width:91.73%;
height:87.32%'>
<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:0%;left:0%;width:100.0%;height:50.0%'><span
style='font-size:200%;color:#E9EB5D'><i>cis QTL</i></span><span
style='font-size:200%;color:#E9EB5D;display:none'><br>
</span></div>
<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:48.38%;left:0%;width:82.88%;height:50.0%'><span
style='font-size:200%;color:#E9EB5D;mso-special-format:lastCR;display:none'><br>
</span></div>
</div>
</div>
<img border=0 src="slide0003_image059.png" style='position:absolute;top:57.24%;
left:-1.05%;width:101.98%;height:7.59%'>
<div class=O style='position:absolute;top:44.16%;left:47.15%;width:9.4%;
height:12.72%'>
<div style='mso-line-spacing:"-272 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:0%;left:0%;width:100.0%;height:51.38%'><span
style='font-size:233%;color:#F6BF69'>Low<br>
</span></div>
<div style='mso-line-spacing:"-272 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:50.0%;left:0%;width:83.09%;height:51.38%'><span
style='font-size:233%;color:#F6BF69;mso-special-format:lastCR;display:none'><br>
</span></div>
</div>
<div style='position:absolute;top:58.12%;left:.79%;width:113.37%;height:6.36%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=O style='mso-line-spacing:"-200 0 0";mso-margin-left-alt:17;
mso-text-indent-alt:17;position:absolute;top:11.11%;left:1.16%;width:98.83%;
height:75.0%'><span style='font-family:Gadget;font-size:167%;color:white'>>>>>PROMOTER--ATG-Exon1-Intron1-Exon2-Intron2
- etc-3'UTR >>>>></span></div>
</div>
<img border=0 src="slide0003_image060.png" style='position:absolute;top:37.98%;
left:8.6%;width:13.77%;height:20.67%'>
<div class=O style='position:absolute;top:40.28%;left:10.99%;width:1.72%;
height:11.48%'>
<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:46.15%'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
font-size:233%;color:white'><b></b></span><span style='font-family:Palatino;
font-size:233%;color:white;display:none'><b><br>
</b></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:50.76%;left:7.69%;width:84.61%;
height:50.76%'><span style='font-family:Palatino;font-size:233%;color:white;
mso-special-format:lastCR;display:none'><b><br>
</b></span></div>
</div>
<div class=O style='position:absolute;top:40.63%;left:18.41%;width:1.72%;
height:11.48%'>
<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:46.15%'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
font-size:233%;color:white'><b></b></span><span style='font-family:Palatino;
font-size:233%;color:white;display:none'><b><br>
</b></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:49.23%;left:7.69%;width:84.61%;
height:50.76%'><span style='font-family:Palatino;font-size:233%;color:white;
mso-special-format:lastCR;display:none'><b><br>
</b></span></div>
</div>
<img border=0 src="slide0003_image061.png" style='position:absolute;top:33.74%;
left:8.6%;width:13.77%;height:20.67%'>
<div class=O style='position:absolute;top:36.39%;left:18.41%;width:1.72%;
height:11.48%'>
<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:46.15%'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
font-size:233%;color:white'><b></b></span><span style='font-family:Palatino;
font-size:233%;color:white;display:none'><b><br>
</b></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:49.23%;left:7.69%;width:84.61%;
height:50.76%'><span style='font-family:Palatino;font-size:233%;color:white;
mso-special-format:lastCR;display:none'><b><br>
</b></span></div>
</div>
<div class=O style='position:absolute;top:36.04%;left:10.99%;width:1.72%;
height:11.48%'>
<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:46.15%'><span style='font-family:"\30D2\30E9\30AE\30CE\89D2\30B4 Pro W3";
font-size:233%;color:white'><b></b></span><span style='font-family:Palatino;
font-size:233%;color:white;display:none'><b><br>
</b></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:49.23%;left:7.69%;width:84.61%;
height:50.76%'><span style='font-family:Palatino;font-size:233%;color:white;
mso-special-format:lastCR;display:none'><b><br>
</b></span></div>
</div>
<div class=O style='position:absolute;top:37.8%;left:20.66%;width:.13%;
height:12.01%'>
<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:48.52%'><span style='font-family:Palatino;font-size:233%;color:white;
display:none'><b><br>
</b></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:51.47%;left:0%;width:100.0%;
height:48.52%'><span style='font-family:Palatino;font-size:233%;color:white;
mso-special-format:lastCR;display:none'><b><br>
</b></span></div>
</div>
<img border=0 src="slide0003_image062.png" style='position:absolute;top:27.38%;
left:4.9%;width:21.45%;height:21.37%'>
<div style='position:absolute;top:27.38%;left:5.03%;width:20.92%;height:12.54%;
filter:DropShadow(Color=#000000, OffX=1, OffY=1)'>
<div class=O style='position:absolute;top:5.63%;left:6.32%;width:94.3%;
height:87.32%'>
<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:0%;left:0%;width:100.0%;height:50.0%'><span
style='font-size:200%;color:#E9EB5D'><i>trans QTL</i></span><span
style='font-size:200%;color:#E9EB5D;display:none'><br>
</span></div>
<div style='mso-line-spacing:"-233 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17;position:absolute;top:48.38%;left:0%;width:83.22%;height:50.0%'><span
style='font-size:200%;color:#E9EB5D;mso-special-format:lastCR;display:none'><br>
</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>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 3Õ 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"> </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"> </span>a.<span style="mso-spacerun:
yes"> </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"> </span>b.<span style="mso-spacerun:
yes"> </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"> </span>c.<span style="mso-spacerun:
yes"> </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>
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<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 3Õ 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"> </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"> </span>a.<span style="mso-spacerun:
yes"> </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"> </span>b.<span style="mso-spacerun:
yes"> </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"> </span>c.<span style="mso-spacerun:
yes"> </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>
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<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: Discovering upstream modulatory loci">
<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><!--
+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="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"> </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"> </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>
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<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"> </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"> </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>
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<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); +} +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:-.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"> </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">
</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"> </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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image013.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image013.png Binary files differnew file mode 100755 index 00000000..55769e36 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image013.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image014.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image014.png Binary files differnew file mode 100755 index 00000000..e49ba16e --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image014.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image066.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image066.png Binary files differnew file mode 100755 index 00000000..5ab7794c --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image066.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image067.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image067.png Binary files differnew file mode 100755 index 00000000..c26d4792 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image067.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image068.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image068.png Binary files differnew file mode 100755 index 00000000..af0745a5 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image068.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image069.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image069.png Binary files differnew file mode 100755 index 00000000..6ec88720 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image069.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image070.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image070.png Binary files differnew file mode 100755 index 00000000..9c156ddc --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_image070.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_notes_pane.htm new file mode 100755 index 00000000..279e38cf --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0005_notes_pane.htm @@ -0,0 +1,5 @@ +<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"> </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">
</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"> </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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006.htm new file mode 100755 index 00000000..f647c55a --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006.htm @@ -0,0 +1,25 @@ +<html>
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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 ) { + window.location.replace( "endshow.htm" ); +} +</script>
<meta name=Description
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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<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:-.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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image015.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image015.png Binary files differnew file mode 100755 index 00000000..ff7d776a --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image015.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image071.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image071.png Binary files differnew file mode 100755 index 00000000..0e63f836 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image071.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image072.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image072.png Binary files differnew file mode 100755 index 00000000..3c44c2ab --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_image072.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_notes_pane.htm new file mode 100755 index 00000000..c1f7d244 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0006_notes_pane.htm @@ -0,0 +1,5 @@ +<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 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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007.htm new file mode 100755 index 00000000..01fb76a9 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007.htm @@ -0,0 +1,25 @@ +<html>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
<link title="Presentation File" type="application/powerpoint" rel=alternate
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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 ÒDISPLAY from XXX Mb TO
YYY MbÉ..Ó<span style="mso-spacerun: yes"> </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><!--
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\ 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 Binary files differnew file mode 100755 index 00000000..53a17c76 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image016.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image017.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image017.png Binary files differnew file mode 100755 index 00000000..308c4df0 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image017.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image073.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image073.png Binary files differnew file mode 100755 index 00000000..c0174c3f --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image073.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image075.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image075.png Binary files differnew file mode 100755 index 00000000..9a3e3264 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_image075.png 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 new file mode 100755 index 00000000..24c42724 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0007_notes_pane.htm @@ -0,0 +1,5 @@ +<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
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<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 ÒDISPLAY from XXX Mb TO
YYY MbÉ..Ó<span style="mso-spacerun: yes"> </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 new file mode 100755 index 00000000..8a9290b6 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0008.htm @@ -0,0 +1,25 @@ +<html>
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genomics</title>
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<meta name=Description content="Aug-15-05: Evaluating candidate genes">
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<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"> </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"> </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"> </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 Òmap backÓ 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">
</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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+function playList() { + +} +//-->
+</script>
</body>
</html>
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<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
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<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"> </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"> </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 Òmap backÓ 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">
</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/slide0009.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009.htm new file mode 100755 index 00000000..16351b5b --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009.htm @@ -0,0 +1,25 @@ +<html>
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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 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"> </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"> </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"> </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"> </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"> </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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+function playList() { + +} +//-->
+</script>
</body>
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\ 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 Binary files differnew file mode 100755 index 00000000..e03c35ed --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image022.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image078.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image078.png Binary files differnew file mode 100755 index 00000000..93d21c90 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image078.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image079.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image079.png Binary files differnew file mode 100755 index 00000000..fdc27d23 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image079.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image080.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image080.png Binary files differnew file mode 100755 index 00000000..d2cb5ee3 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_image080.png 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 new file mode 100755 index 00000000..39c42e72 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0009_notes_pane.htm @@ -0,0 +1,5 @@ +<html>
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<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"> </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"> </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"> </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"> </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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0010.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0010.htm new file mode 100755 index 00000000..91cf9f00 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0010.htm @@ -0,0 +1,25 @@ +<html>
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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"> </span>Ctbp2 is a strong cis QTL in some brain regions (here the
data are taken from the striatum).<span style="mso-spacerun: yes">
</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"> </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>
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<head>
<meta name=ProgId content=PowerPoint.Slide>
<meta name=Generator content="Microsoft Macintosh PowerPoint 11">
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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"> </span>Ctbp2 is a strong cis QTL in some brain regions (here the
data are taken from the striatum).<span style="mso-spacerun: yes">
</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"> </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>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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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: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">
</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"> </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>
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<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
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<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>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">
</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"> </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>
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<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>
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+gId="slide0012.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; +//-->
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<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: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"> </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"> </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"> </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"> </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"> </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 Binary files differnew file mode 100755 index 00000000..a0675ffc --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_image026.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_notes_pane.htm new file mode 100755 index 00000000..895ab29b --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0012_notes_pane.htm @@ -0,0 +1,5 @@ +<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 ) { + 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>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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href="webqtl_demo2.ppt.ppt">
<script> +if ( ! top.PPTPRESENTATION ) { + window.location.replace( "endshow.htm" ); +} +</script>
<meta name=Description content="Aug-15-05: Test Questions">
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<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>
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<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). ÒChecking outÓ 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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<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:">
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<style media=print>
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+</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>
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<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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<td align=left colspan=1><font face=Verdana size=2>END</font><br>
</td>
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</table>
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</html>
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bgcolor="#000000">
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<div><script language=JavaScript><!--
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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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mso-text-indent-alt:0;mso-line-spacing:"-277 0 -1";mso-margin-left-alt:232;
mso-text-indent-alt:0'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:73%'>The GeneNetwork and WebQTL
: PART 2<span style="mso-spacerun: yes"> </span><br>
</span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0.04 * g_width; myheight = 0.06 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:73%'>link to www.genenetwork.org</span><span
style='font-size:73%;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></layer></div>
</layer></div>
</layer><script> + mytop = 0.24 * g_height; myleft = 0.05 * g_width; myheight = 0.68 * g_height; mywidth = 0.54 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
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<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
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<div style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
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style='text-align:left'><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'>Part 1. How to study </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.41 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>expression variation </span></span></layer><script> + mytop = 0.1 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.47 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>and genetic correlation </span></span></layer><script> + mytop = 0.15 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.41 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>(slides 2–17)<br>
</span></span></layer></div>
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style='text-align:left'><span style='mso-special-format:nobullet;display:none;
color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span
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style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>(slides 18–29)</span></span></layer></div>
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<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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<div style='mso-line-spacing:"-346 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
17'><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>
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mso-special-format:lastCR;display:none'><br>
</span></div>
</layer></div>
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<div></div>
</layer><script> + mytop = 0.5 * g_height; myleft = 0.48 * g_width; myheight = 0.13 * g_height; mywidth = 0.25 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></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>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>
</div>
</layer>
<script language=JavaScript><!--
+//-->
+</script><script language=JavaScript><!--
+function playList() { + +} +//-->
+</script>
</body>
</html>
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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" ); +} +</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>
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genomics</title>
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<script> +if ( ! top.PPTPRESENTATION ) { + window.location.replace( "endshow.htm" ); +} +</script>
<meta name=Description content=Aug-15-05>
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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%;
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<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%;
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style='font-family:Arial;font-size:150%;color:aqua;display:none'><br>
</span></div>
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</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'>+ É +<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; + 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="slide0002_image042.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="slide0002_image043.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="slide0002_image044.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="slide0002_image045.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="slide0002_image046.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="slide0002_image047.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.66 * g_height; myleft = 0.6 * g_width; myheight = 0.03 * g_height; mywidth = 0.01 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.6 * g_width; +yy = 0.66 * g_height; +ht = 0.03 * g_height; +wd = 0.01 * g_width; +document.write( +'<img border=0 src="slide0002_image048.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.64 * g_height; myleft = 0.15 * 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><script language=JavaScript><!--
+xx = 0.15 * g_width; +yy = 0.64 * g_height; +ht = 0.05 * g_height; +wd = 0.01 * g_width; +document.write( +'<img border=0 src="slide0002_image049.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.57 * g_height; myleft = 0.75 * g_width; myheight = 0.05 * g_height; mywidth = 0.01 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.75 * g_width; +yy = 0.57 * g_height; +ht = 0.05 * g_height; +wd = 0.01 * g_width; +document.write( +'<img border=0 src="slide0002_image050.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.28 * g_height; myleft = 0.48 * g_width; myheight = 0.08 * 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 = 0.28 * g_height; +ht = 0.08 * g_height; +wd = 0 * g_width; +document.write( +'<img border=0 src="slide0002_image051.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.62 * g_height; myleft = 0.23 * g_width; myheight = 0.16 * g_height; mywidth = 0.03 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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<tr>
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<td width="100%"></td>
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<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">
</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 TaylorÕs 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 ÒblueÓ and ÒredÓ
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>
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<script language=JavaScript><!--
+//-->
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+</script>
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\ No newline at end of file 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 Binary files differnew file mode 100755 index 00000000..baa1d807 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_image036.png 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 new file mode 100755 index 00000000..f5776dad --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0016_notes_pane.htm @@ -0,0 +1,5 @@ +<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>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>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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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%;
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<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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<div style='mso-line-spacing:"-126 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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lastCR;display:none'><br>
</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:
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<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
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</span></div>
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lastCR;display:none'><br>
</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%;
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<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
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</span></div>
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<div style='mso-line-spacing:"-384 0 0";mso-margin-left-alt:16;mso-text-indent-alt:
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</span></div>
</layer></div>
</layer></div>
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<div><script language=JavaScript><!--
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<div><script language=JavaScript><!--
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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%;
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style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>amount of
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style='text-align:left'><span style='font-size:233%;color:#E9EB5D'><i>transcript</i></span><span
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</span></span></layer></div>
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<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:
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</span></div>
</layer></div>
</layer></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:
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<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>
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<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:
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</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'>>>>>PROMOTER--ATG-Exon1-Intron1-Exon2-Intron2 -
etc-3'UTR >>>>></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></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>
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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>
</span></div>
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<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 3Õ 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"> </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"> </span>a.<span style="mso-spacerun:
yes"> </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"> </span>b.<span style="mso-spacerun:
yes"> </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"> </span>c.<span style="mso-spacerun:
yes"> </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>
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<meta name=Description content="Aug-15-05: Discovering upstream modulatory loci">
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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
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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<div><script language=JavaScript><!--
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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>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"> </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"> </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>
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<body bgcolor=black text=white>
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<td width="100%"></td>
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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
steady state expression level of App in the adult mouse forebrain.</font><br>
</td>
</tr>
</table>
</body>
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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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<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%;
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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>
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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=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"> </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"> </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"> </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"> </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>
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<script> +if ( ! top.PPTPRESENTATION ) { + window.location.replace( "endshow.htm" ); +} +</script>
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<body bgcolor=black text=white>
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<tr>
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<td width="100%"></td>
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<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"> </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>
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<td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
</td>
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<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 TaylorÕs 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 ÒblueÓ and ÒredÓ
regions of the chromosomes as shown in the figure above.</font><br>
</td>
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<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>
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</table>
</body>
</html>
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mso-text-indent-alt:0'><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>
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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:
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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> + mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></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=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>
</layer>
<script language=JavaScript><!--
+//-->
+</script><script language=JavaScript><!--
+function playList() { + +} +//-->
+</script>
</body>
</html>
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<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 3Õ 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"> </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"> </span>a.<span style="mso-spacerun:
yes"> </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"> </span>b.<span style="mso-spacerun:
yes"> </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"> </span>c.<span style="mso-spacerun:
yes"> </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 new file mode 100755 index 00000000..c7854145 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021.htm @@ -0,0 +1,110 @@ +<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
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 map for distal chromosome 7">
<style media=print>
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<script language=Javascript src=script.js></script> +<script language=JavaScript> +function font_size() { + var min = window.innerWidth/20; + if ( min > window.innerHeight/20 ) + min = window.innerHeight/20; + + return min+"pt"; +} +var SoundEnabled = navigator.plugins && navigator.plugins["LiveAudio"]; +function restore() { + self.location.reload(); +} +function set_size() { + document.SlideLayer.width = window.innerWidth; + document.SlideLayer.height = window.innerHeight; +} +document.captureEvents(Event.MOUSEDOWN); +document.captureEvents(Event.KEYPRESS); +document.onkeypress = _KPH ; +document.onmousedown = _KPH ; + parent.base.highlite(); +</script><script language=JavaScript><!--
+function DoOnLoad() { + LoadNavSld("slide0021.htm"); +}//-->
+</script>
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<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
<div id=SlideObj class=sld style='position:relative;font-size:&{new_font_size()};'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 1 * g_height; mywidth = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</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 + ' >' ); +</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; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.15 * g_height; myleft = 0.06 * g_width; myheight = 0.75 * g_height; mywidth = 0.68 * g_width; + 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; +ht = 0.75 * g_height; +wd = 0.68 * g_width; +document.write( +'<img border=0 src="slide0007_image075.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>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 ÒDISPLAY from XXX Mb TO
YYY MbÉ..Ó<span style="mso-spacerun: yes"> </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>
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<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"> </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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022.htm new file mode 100755 index 00000000..25d9a02e --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022.htm @@ -0,0 +1,134 @@ +<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
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">
<style media=print>
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</style>
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+function DoOnLoad() { + LoadNavSld("slide0022.htm"); +}//-->
+</script>
</head>
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<div><script> + mytop = 0.01 * g_height; myleft = 0.01 * g_width; myheight = 0.06 * g_height; mywidth = 0.91 * 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;
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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%'>Evaluating candidate genes</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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+</script></div>
</layer><script> + mytop = 0.03 * g_height; myleft = 0.69 * g_width; myheight = 0.17 * g_height; mywidth = 0.33 * 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 = 0.16 * g_height; mywidth = 0.31 * 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 = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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 + ' >' ); +</script>
<div style='text-align:center'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>and
high </i></span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>correlation</i></span></span></layer></div>
</layer></div>
</layer></div>
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<div><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.12 * g_height; mywidth = 0.21 * 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 = 0.07 * g_height; mywidth = 0.18 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='text-align:center'><span style='font-size:267%;color:#E9EB5D'><i><span
style="mso-spacerun: yes"> </span></i></span><span style='font-size:200%;
color:#E9EB5D'><i>= better<br>
</i></span></div>
</layer><script> + mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.21 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<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"> </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"> </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 Òmap backÓ 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">
</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() { + +} +//-->
+</script>
</body>
</html>
\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image102.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image102.png Binary files differnew file mode 100755 index 00000000..5ab7794c --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image102.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image103.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image103.png Binary files differnew file mode 100755 index 00000000..c26d4792 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image103.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image104.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image104.png Binary files differnew file mode 100755 index 00000000..af0745a5 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image104.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image105.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image105.png Binary files differnew file mode 100755 index 00000000..6ec88720 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image105.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image106.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image106.png Binary files differnew file mode 100755 index 00000000..9c156ddc --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_image106.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_notes_pane.htm new file mode 100755 index 00000000..4d30f6e3 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0022_notes_pane.htm @@ -0,0 +1,5 @@ +<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"> </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">
</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"> </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"> </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>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</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 + ' >' ); +</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%;
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mso-text-indent-alt:0'><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>
</layer></div>
</layer><script> + mytop = 0.08 * g_height; myleft = 0.03 * g_width; myheight = 0.41 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.03 * g_width; +yy = 0.08 * g_height; +ht = 0.41 * g_height; +wd = 0.89 * g_width; +document.write( +'<img border=0 src="slide0009_image078.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.44 * g_height; myleft = 0.07 * g_width; myheight = 0.48 * g_height; mywidth = 0.42 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.94 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.97 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0 * g_width; +yy = 0.94 * g_height; +ht = 0.03 * g_height; +wd = 0.97 * g_width; +document.write( +'<img border=0 src="slide0009_image080.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>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"> </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"> </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"> </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"> </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"> </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>
</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/slide0023_image107.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image107.png Binary files differnew file mode 100755 index 00000000..0e63f836 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image107.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image108.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image108.png Binary files differnew file mode 100755 index 00000000..3c44c2ab --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_image108.png 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 new file mode 100755 index 00000000..010f3332 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0023_notes_pane.htm @@ -0,0 +1,5 @@ +<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 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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024.htm new file mode 100755 index 00000000..bf2b9b3c --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0024.htm @@ -0,0 +1,167 @@ +<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
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">
<style media=print>
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<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 1.06 * 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 = 0.06 * 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:"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%'> 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>
</layer></div>
</layer><script> + mytop = 0.94 * g_height; myleft = 0.03 * g_width; myheight = 0.04 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.07 * g_height; myleft = 0.03 * g_width; myheight = 0.4 * g_height; mywidth = 0.48 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.03 * g_width; +yy = 0.07 * g_height; +ht = 0.4 * g_height; +wd = 0.48 * g_width; +document.write( +'<img border=0 src="slide0010_image083.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.52 * g_height; myleft = 0.55 * g_width; myheight = 0.37 * g_height; mywidth = 0.35 * 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 = 0.33 * 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'>This is</span><span
style='font-size:233%;color:#E9EB5D'><i> the </i></span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.34 * 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>Ctbp2 </i></span><span
style='font-size:233%;color:#E9EB5D'>cis QTL, </span></span></layer><script> + mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.35 * 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'>but is
detected </span></span></layer><script> + mytop = 0.18 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.33 * 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'>only in the </span></span></layer><script> + mytop = 0.25 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.35 * 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'>Rosen
striatum </span></span></layer><script> + mytop = 0.31 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.33 * 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'>data set.</span><span
style='font-size:233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></layer></div>
</layer><script> + mytop = 0.16 * g_height; myleft = 0.56 * g_width; myheight = 0.12 * g_height; mywidth = 0.48 * 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 = 0.45 * 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'>This is</span><span
style='font-size:233%;color:#E9EB5D'><i> the App QTL </i></span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.48 * 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'>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>
</layer><script> + mytop = 0.39 * g_height; myleft = 0.03 * g_width; myheight = 0.53 * g_height; mywidth = 0.48 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
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<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.1 * g_height; myleft = 0.31 * g_width; myheight = 0.72 * g_height; mywidth = 0 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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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>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"> </span>Ctbp2 is a strong cis QTL in some
brain regions (here the data are taken from the striatum).<span
style="mso-spacerun: yes"> </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"> </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>
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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>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>
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<tr>
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<td align=left colspan=1><font face=Verdana size=2>Notes:</font><br>
</td>
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<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 ÒDISPLAY from XXX Mb TO
YYY MbÉ..Ó<span style="mso-spacerun: yes"> </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>
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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;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>
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+</script></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=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">
</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"> </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>
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<head>
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<body bgcolor=black text=white>
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<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"> </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>
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<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"> </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 Òmap backÓ 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">
</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>
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+</script></div>
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<div><script> + mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.91 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='mso-special-format:nobullet;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:#FBFDB8;
font-size:213%;mso-text-raise:0%;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt: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'>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>
</layer></div>
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<div>
<layer>
<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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</layer>
<layer>
<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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</layer>
<layer>
<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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</layer>
<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> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.87 * 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 = 0.04 * g_height; mywidth = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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"> </span>Covered the basics of QTL
analysis and mapping.<br>
</span></span></layer></div>
</layer><script> + mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.87 * 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 = 0.04 * g_height; mywidth = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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"> </span>Reviewed difference between
genetic and physical maps.<br>
</span></span></layer></div>
</layer><script> + mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.13 * g_height; mywidth = 1.01 * 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 = 0.04 * g_height; mywidth = 0.98 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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"> </span>Discussed interpreting features
of QTL maps including the LRS function, </span></span></layer><script> + mytop = 0.04 * g_height; myleft = 0.02 * g_width; myheight = 0.04 * g_height; mywidth = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer><script> + mytop = 0.09 * g_height; myleft = 0.02 * g_width; myheight = 0.04 * g_height; mywidth = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'>thresholds.<br>
</span></span></layer></div>
</layer><script> + mytop = 0.22 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.89 * 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 = 0.04 * g_height; mywidth = 0.86 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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"> </span>Illustrated techniques to
generate a list of positional candidates.<br>
</span></span></layer></div>
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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 = 0.04 * g_height; mywidth = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:numbullet;
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"> </span>Discussed some factors used to
evaluate candidate genes.</span></span></layer></div>
</layer></div>
</layer><script> + mytop = 0.58 * g_height; myleft = 0.05 * g_width; myheight = 0.22 * g_height; mywidth = 1.06 * 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 = 0.04 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer><script> + mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.04 * 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-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></layer><script> + mytop = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 1.06 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer><script> + mytop = 0.13 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer><script> + mytop = 0.17 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:167%;
color:#E9EB5D;mso-color-index:3'>skeptical.</span></span></layer></div>
</layer></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/slide0026_image114.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image114.png Binary files differnew file mode 100755 index 00000000..93d21c90 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image114.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image115.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image115.png Binary files differnew file mode 100755 index 00000000..fdc27d23 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image115.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image116.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image116.png Binary files differnew file mode 100755 index 00000000..d2cb5ee3 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_image116.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_notes_pane.htm new file mode 100755 index 00000000..d335b732 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0026_notes_pane.htm @@ -0,0 +1,5 @@ +<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>Even higher blow-up of
part of the Chr 7 physical map of variation in App expression in brain.<span
style="mso-spacerun: yes"> </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"> </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"> </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"> </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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027.htm new file mode 100755 index 00000000..c553bae9 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027.htm @@ -0,0 +1,115 @@ +<html>
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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%;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> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * 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'>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; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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> + mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * 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>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> + mytop = 0.06 * 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><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() { + +} +//-->
+</script>
</body>
</html>
\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image118.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image118.png Binary files differnew file mode 100755 index 00000000..cf5f70f7 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image118.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image119.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image119.png Binary files differnew file mode 100755 index 00000000..a5886d21 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image119.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image120.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image120.png Binary files differnew file mode 100755 index 00000000..7eb77319 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image120.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image121.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image121.png Binary files differnew file mode 100755 index 00000000..99f4d04d --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image121.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image122.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image122.png Binary files differnew file mode 100755 index 00000000..ac87ce02 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_image122.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_notes_pane.htm new file mode 100755 index 00000000..26d15c0e --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0027_notes_pane.htm @@ -0,0 +1,5 @@ +<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"> </span>Ctbp2 is a strong cis QTL in some brain regions (here the
data are taken from the striatum).<span style="mso-spacerun: yes">
</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"> </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 diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028.htm new file mode 100755 index 00000000..67711e7c --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028.htm @@ -0,0 +1,112 @@ +<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
genomics</title>
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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:">
<style media=print>
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<script language=Javascript src=script.js></script> +<script language=JavaScript> +function font_size() { + var min = window.innerWidth/20; + if ( min > window.innerHeight/20 ) + min = window.innerHeight/20; + + return min+"pt"; +} +var SoundEnabled = navigator.plugins && navigator.plugins["LiveAudio"]; +function restore() { + self.location.reload(); +} +function set_size() { + document.SlideLayer.width = window.innerWidth; + document.SlideLayer.height = window.innerHeight; +} +document.captureEvents(Event.MOUSEDOWN); +document.captureEvents(Event.KEYPRESS); +document.onkeypress = _KPH ; +document.onmousedown = _KPH ; + parent.base.highlite(); +</script><script language=JavaScript><!--
+function DoOnLoad() { + LoadNavSld("slide0028.htm"); +}//-->
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<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
<div id=SlideObj class=sld style='position:relative;font-size:&{new_font_size()};'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 1 * g_height; mywidth = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.02 * g_height; myleft = 0.02 * g_width; myheight = 0.09 * g_height; mywidth = 0.94 * 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 = 0.06 * 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:"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-size:73%'><i>Contact for comments and improvements:</i></span><span
style='font-size:82%;mso-special-format:lastCR;display:none'><br>
</span></div>
</layer></div>
</layer><script> + mytop = 0.16 * g_height; myleft = 0.06 * g_width; myheight = 0.24 * g_height; mywidth = 0.9 * 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 = 0.24 * g_height; mywidth = 0.87 * 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-line-spacing:"-358 0 -1"'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.87 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:82%'>rwilliam@nb.utmem.edu<br>
</span></span></layer><script> + mytop = 0.08 * g_height; myleft = 0.04 * g_width; myheight = 0.07 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:82%'><br>
</span></span></layer><script> + mytop = 0.16 * g_height; myleft = 0.04 * g_width; myheight = 0.07 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:82%;mso-special-format:lastCR;
display:none'><br>
</span></span></layer></div>
</layer></div>
</layer><script> + mytop = 0.27 * g_height; myleft = 0.09 * g_width; myheight = 0.07 * g_height; mywidth = 0.5 * 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-family:"Gill Sans";font-size:300%;
color:#E9EB5D'>kmanly@utmem.edu</span></div>
</layer><script> + mytop = 0.83 * g_height; myleft = 0.04 * g_width; myheight = 0.15 * 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%'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.98 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
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
of an </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.08 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer><script> + mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.91 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></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=Verdana size=3>END</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/slide0028_image123.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image123.png Binary files differnew file mode 100755 index 00000000..a6ca39ae --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image123.png diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image124.png b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image124.png Binary files differnew file mode 100755 index 00000000..c17a41bc --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_image124.png 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 new file mode 100755 index 00000000..3693ce68 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0028_notes_pane.htm @@ -0,0 +1,5 @@ +<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>Ctbp2 should also be
considered a high priority biological candidate gene responsible for
modulating App expression levels. The<span style="mso-spacerun: yes">
</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"> </span>with several transcription factors
including EVI1, ZFPM1, and<span style="mso-spacerun: yes">
</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">
</span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene<span
style="mso-spacerun: yes"> </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"> </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>
</body>
</html>
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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>
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<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>
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style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript and eight of
its neighbors</span></div>
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<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>
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<tr>
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<td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br>
</td>
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<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). ÒChecking outÓ 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() { + +} +//-->
+</script>
</body>
</html>
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+function DoOnLoad() { + LoadNavSld("slide0045.htm"); +}//-->
+</script>
</head>
<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.82 * g_height; myleft = 0.04 * g_width; myheight = 0.18 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div></div>
</layer><script> + mytop = -0.02 * g_height; myleft = 0 * g_width; myheight = 0.12 * g_height; mywidth = 1.05 * 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 = 0.07 * g_height; mywidth = 1.04 * 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%'><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>
</layer></div>
</layer><script> + mytop = 0.37 * g_height; myleft = 0.01 * g_width; myheight = 0.62 * g_height; mywidth = 0.97 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.11 * g_height; myleft = 0.01 * g_width; myheight = 0.25 * g_height; mywidth = 0.79 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.1 * g_height; myleft = 0.81 * g_width; myheight = 0.09 * g_height; mywidth = 0.18 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.81 * g_width; +yy = 0.1 * g_height; +ht = 0.09 * g_height; +wd = 0.18 * g_width; +document.write( +'<img border=0 src="slide0014_image033.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=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 ÒrevertedÓ 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">
</span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use
curved lines (aka ÒedgesÓ).</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 new file mode 100755 index 00000000..93429543 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0046.htm @@ -0,0 +1,104 @@ +<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
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=Jul-18-05>
<style media=print>
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+function DoOnLoad() { + LoadNavSld("slide0046.htm"); +}//-->
+</script>
</head>
<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.14 * g_height; mywidth = 0.93 * 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 = 0.91 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='mso-special-format:nobullet;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:#FBFDB8;
font-size:213%;mso-text-raise:0%;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
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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
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> + mytop = 0.28 * g_height; myleft = 0.04 * g_width; myheight = 0.7 * g_height; mywidth = 0.78 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.08 * g_height; myleft = 0.04 * g_width; myheight = 0.19 * g_height; mywidth = 0.33 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.04 * g_width; +yy = 0.08 * g_height; +ht = 0.19 * g_height; +wd = 0.33 * g_width; +document.write( +'<img border=0 src="slide0015_image035.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=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 new file mode 100755 index 00000000..e7568e44 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0047.htm @@ -0,0 +1,93 @@ +<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
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=Jul-18-05>
<style media=print>
<!--.sld
{left:0px !important;
width:6.0in !important;
height:4.5in !important;
font-size:76% !important;}
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</style>
<script language=Javascript src=script.js></script> +<script language=JavaScript> +function font_size() { + var min = window.innerWidth/20; + if ( min > window.innerHeight/20 ) + min = window.innerHeight/20; + + return min+"pt"; +} +var SoundEnabled = navigator.plugins && navigator.plugins["LiveAudio"]; +function restore() { + self.location.reload(); +} +function set_size() { + document.SlideLayer.width = window.innerWidth; + document.SlideLayer.height = window.innerHeight; +} +document.captureEvents(Event.MOUSEDOWN); +document.captureEvents(Event.KEYPRESS); +document.onkeypress = _KPH ; +document.onmousedown = _KPH ; + parent.base.highlite(); +</script><script language=JavaScript><!--
+function DoOnLoad() { + LoadNavSld("slide0047.htm"); +}//-->
+</script>
</head>
<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
<div id=SlideObj class=sld style='position:relative;font-size:&{new_font_size()};'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 1 * g_height; mywidth = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.1 * g_height; mywidth = 0.99 * 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 = 0.98 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='mso-special-format:nobullet;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:#FBFDB8;
font-size:213%;mso-text-raise:0%;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt: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'>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> + mytop = 0.08 * g_height; myleft = 0.03 * g_width; myheight = 0.9 * g_height; mywidth = 0.88 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+xx = 0.03 * g_width; +yy = 0.08 * g_height; +ht = 0.9 * g_height; +wd = 0.88 * g_width; +document.write( +'<img border=0 src="slide0016_image036.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=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.ppt_files/slide0048.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0048.htm new file mode 100755 index 00000000..f36b1e25 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0048.htm @@ -0,0 +1,151 @@ +<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
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=Jul-18-05>
<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> +function font_size() { + var min = window.innerWidth/20; + if ( min > window.innerHeight/20 ) + min = window.innerHeight/20; + + return min+"pt"; +} +var SoundEnabled = navigator.plugins && navigator.plugins["LiveAudio"]; +function restore() { + self.location.reload(); +} +function set_size() { + document.SlideLayer.width = window.innerWidth; + document.SlideLayer.height = window.innerHeight; +} +document.captureEvents(Event.MOUSEDOWN); +document.captureEvents(Event.KEYPRESS); +document.onkeypress = _KPH ; +document.onmousedown = _KPH ; + parent.base.highlite(); +</script><script language=JavaScript><!--
+function DoOnLoad() { + LoadNavSld("slide0048.htm"); +}//-->
+</script>
</head>
<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.01 * g_height; myleft = 0.03 * g_width; myheight = 0.14 * g_height; mywidth = 0.93 * 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 = 0.91 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='mso-special-format:nobullet;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:#FBFDB8;
font-size:213%;mso-text-raise:0%;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt: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'>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>
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<layer>
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</layer>
<script> + mytop = 0 * 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; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.84%;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"> </span>You have learned the basics
about searching for traits<br>
</span></span></layer></div>
</layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.85 * 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 = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-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"> </span>You know some methods to check
data quality<br>
</span></span></layer></div>
</layer><script> + mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.85 * 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 = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-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"> </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; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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"> </span>You know how to review the
basic statistics of a trait<br>
</span></span></layer></div>
</layer><script> + mytop = 0.21 * g_height; myleft = 0 * g_width; myheight = 0.1 * g_height; mywidth = 0.94 * 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 = 0.91 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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"> </span>You know how to generate a
scattergram between two </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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> + mytop = 0.31 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1 * 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;
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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"> </span>You know how to add items to
your SELECTIONS window<br>
</span></span></layer></div>
</layer><script> + mytop = 0.37 * g_height; myleft = 0 * g_width; myheight = 0.1 * g_height; mywidth = 1 * 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 = 0.97 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.57%;font-family:Arial'>7.</span></span><span
style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index:
3'><span style="mso-spacerun: yes"> </span>You know how to generate a
Network Graph of traits that </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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; + 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 = 1.05 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>What does genetic covariance mean? The genetic
covariance can </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.01 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>be functional and mechanistic, but it can also
be due to linkage </span></span></layer><script> + mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.01 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>disequilibrium. Finally, it can be due to
sampling error or poor </span></span></layer><script> + mytop = 0.16 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>experimental design. Evaluate the biological
plausibility of </span></span></layer><script> + mytop = 0.21 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>correlations. Test and be skeptical.</span></span></layer></div>
</layer></div>
</LAYER>
+<script language=JavaScript><!--
+//-->
+</script><script language=JavaScript><!--
+function playList() { + +} +//-->
+</script>
</body>
</html>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.03 * g_height; myleft = 0.02 * g_width; myheight = 0.18 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script> + mytop = 0.02 * g_height; myleft = 0 * g_width; myheight = 0.13 * g_height; mywidth = 0.94 * 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:"-277 0 -1";mso-margin-left-alt:232;
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mso-text-indent-alt:0'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:73%'>The GeneNetwork and WebQTL
: PART 2<span style="mso-spacerun: yes"> </span><br>
</span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0.04 * g_width; myheight = 0.06 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:73%'>link to www.genenetwork.org</span><span
style='font-size:73%;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></layer></div>
</layer></div>
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<div style='text-align:left;font-family:"Gill Sans";font-weight:normal;
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<div style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348;mso-text-indent-alt:
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style='text-align:left'><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'>Part 1. How to study </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.41 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
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style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>(slides 2–17)<br>
</span></span></layer></div>
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style='text-align:left'><span style='font-size:94%;color:#E9EB5D;mso-color-index:
3'>(slides 18–29)</span></span></layer></div>
</layer></div>
</layer></div>
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<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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style='font-family:"Arial Rounded MT Bold";font-size:300%;color:#6E6E6E;
display:none'><br>
</span></div>
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<div style='mso-line-spacing:"-346 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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mso-special-format:lastCR;display:none'><br>
</span></div>
</layer></div>
</layer><script> + mytop = 0.82 * g_height; myleft = 0.04 * g_width; myheight = 0.18 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div></div>
</layer><script> + mytop = 0.5 * g_height; myleft = 0.48 * g_width; myheight = 0.13 * g_height; mywidth = 0.25 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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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>
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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>
</td>
</tr>
</table>
</div>
</layer>
<script language=JavaScript><!--
+//-->
+</script><script language=JavaScript><!--
+function playList() { + +} +//-->
+</script>
</body>
</html>
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</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:
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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:
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</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:
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<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
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<div style='text-align:center;mso-line-spacing:"-134 0 0";mso-margin-left-alt:
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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> + 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%;
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style='font-family:Arial;font-size:150%;color:aqua;display:none'><br>
</span></div>
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<div style='text-align:center;mso-line-spacing:"-160 0 0";mso-margin-left-alt:
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<div><script language=JavaScript><!--
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<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:
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<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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(B)<br>
</span></div>
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</span></div>
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<div><script language=JavaScript><!--
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<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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<div style='mso-line-spacing:"-173 0 0";mso-margin-left-alt:17;mso-text-indent-alt:
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(D)<br>
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</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'>+ É +<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>
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<div style='text-align:left;font-family:Verdana;font-weight:normal;font-style:
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<td width="100%"></td>
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<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">
</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 TaylorÕs 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 ÒblueÓ and ÒredÓ
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>
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<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
<div id=SlideObj class=sld style='position:relative;font-size:&{new_font_size()};'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 1 * g_height; mywidth = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.4 * 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 = 0.4 * g_height; +ht = 0.05 * g_height; +wd = 0.14 * g_width; +document.write( +'<img border=0 src="slide0020_image090.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); +//-->
+</script></div>
</layer><script> + mytop = 0.4 * 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'>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="slide0020_image091.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="slide0020_image092.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="slide0020_image093.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="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>
</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'>>>>>PROMOTER--ATG-Exon1-Intron1-Exon2-Intron2 -
etc-3'UTR >>>>></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="slide0020_image096.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></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></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="slide0020_image097.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></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></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>
</layer><script> + mytop = 0.27 * g_height; myleft = 0.04 * 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 language=JavaScript><!--
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+</script></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> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.19 * 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>trans 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 = 0.16 * 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></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>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 3Õ 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"> </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"> </span>a.<span style="mso-spacerun:
yes"> </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"> </span>b.<span style="mso-spacerun:
yes"> </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"> </span>c.<span style="mso-spacerun:
yes"> </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/slide0052.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0052.htm new file mode 100755 index 00000000..7a2e03db --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0052.htm @@ -0,0 +1,115 @@ +<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
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="Jul-18-05: Discovering upstream modulatory loci">
<style media=print>
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+</script></div>
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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; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
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<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=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"> </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"> </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 new file mode 100755 index 00000000..d729b467 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0053.htm @@ -0,0 +1,155 @@ +<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
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="Jul-18-05: WebQTL searches for upstream controllers">
<style media=print>
<!--.sld
{left:0px !important;
width:6.0in !important;
height:4.5in !important;
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</style>
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+function DoOnLoad() { + LoadNavSld("slide0053.htm"); +}//-->
+</script>
</head>
<body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};'
bgcolor="#000000">
<script> + +g_origHeight = 566; +g_origWidth = 755; +g_width = window.innerWidth - 10; +g_height = window.innerHeight - 10; + +g_top = 0; +g_left = 0; + +if ( g_width < ( g_origWidth * g_height /g_origHeight ) ) + g_height = g_width * g_origHeight / g_origWidth; +else + g_width = g_origWidth * g_height / g_origHeight; + +g_top = (window.innerHeight - g_height) / 2; +g_left = (window.innerWidth - g_width) / 2; + +document.write( '<layer id=SlideLayer BGCOLOR=#484848 background="" top=' + g_top + ' left=' + g_left + ' height=' + g_height + ' width=' + g_width + ' >' ); +document.SlideLayer.clip.top = 0; +document.SlideLayer.clip.left = 0; +document.SlideLayer.clip.height = g_height; +document.SlideLayer.clip.width = g_width; +function new_font_size() { + var size = 11 * g_width / g_origWidth; + if ( size < 1 ) size = 1; + return size+"pt"; +} +</script>
<div id=SlideObj class=sld style='position:relative;font-size:&{new_font_size()};'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 1 * g_height; mywidth = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</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 + ' >' ); +</script>
<div><script> + mytop = 0.01 * 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>
<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%'><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>
</layer></div>
</layer><script> + mytop = 0.71 * g_height; myleft = 0.34 * g_width; myheight = 0.19 * g_height; mywidth = 0.45 * 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 = 0.18 * 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><!--
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+</script></div>
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<div><script language=JavaScript><!--
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<div><script language=JavaScript><!--
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<div><script language=JavaScript><!--
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<div><script language=JavaScript><!--
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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=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"> </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"> </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"> </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"> </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 new file mode 100755 index 00000000..64dbe68f --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0054.htm @@ -0,0 +1,113 @@ +<html>
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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;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
mso-text-indent-alt:0'><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>
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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> + mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><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></layer></div>
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<table style='color:white' border=0 width="100%">
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<td width="100%"></td>
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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>
</table>
</div>
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\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0055.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0055.htm new file mode 100755 index 00000000..cae5b4b9 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0055.htm @@ -0,0 +1,110 @@ +<html>
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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%'>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>
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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%'><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>
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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=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 ÒDISPLAY from XXX Mb TO
YYY MbÉ..Ó<span style="mso-spacerun: yes"> </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 new file mode 100755 index 00000000..eba3fc05 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0056.htm @@ -0,0 +1,134 @@ +<html>
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</layer><script> + mytop = -0.01 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 0.93 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
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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%'>Evaluating candidate genes</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 = 0.08 * g_height; myleft = 0.01 * g_width; myheight = 0.22 * g_height; mywidth = 0.34 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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</layer><script> + mytop = 0.03 * g_height; myleft = 0.69 * g_width; myheight = 0.17 * g_height; mywidth = 0.33 * 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 = 0.16 * g_height; mywidth = 0.31 * 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 = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>Right
position<br>
</i></span></div>
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<div style='text-align:center'><script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>and
high </i></span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.31 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:center'><span style='font-size:200%;color:#E9EB5D'><i>correlation</i></span></span></layer></div>
</layer></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> + 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:center'><span style='font-size:267%;color:#E9EB5D'><i><span
style="mso-spacerun: yes"> </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"> </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"> </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 Òmap backÓ 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">
</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><!--
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+</script><script language=JavaScript><!--
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\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0057.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0057.htm new file mode 100755 index 00000000..dcc5ede7 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0057.htm @@ -0,0 +1,115 @@ +<html>
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genomics</title>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</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 + ' >' ); +</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%;
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mso-text-indent-alt:0'><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>
</layer></div>
</layer><script> + mytop = 0.08 * g_height; myleft = 0.03 * g_width; myheight = 0.41 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
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<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.94 * g_height; myleft = 0 * g_width; myheight = 0.03 * g_height; mywidth = 0.97 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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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>Even higher blow-up of
part of the Chr 7 physical map of variation in App expression in brain.<span
style="mso-spacerun: yes"> </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"> </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"> </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"> </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"> </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>
</layer>
<script language=JavaScript><!--
+//-->
+</script><script language=JavaScript><!--
+function playList() { + +} +//-->
+</script>
</body>
</html>
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<div><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: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;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%'> 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>
</layer></div>
</layer><script> + mytop = 0.94 * g_height; myleft = 0.03 * g_width; myheight = 0.04 * g_height; mywidth = 0.96 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
<div><script language=JavaScript><!--
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+</script></div>
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<div><script language=JavaScript><!--
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+</script></div>
</layer><script> + mytop = 0.52 * g_height; myleft = 0.55 * g_width; myheight = 0.37 * g_height; mywidth = 0.35 * 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 = 0.33 * 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'>This is</span><span
style='font-size:233%;color:#E9EB5D'><i> the </i></span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.34 * 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>Ctbp2 </i></span><span
style='font-size:233%;color:#E9EB5D'>cis QTL, </span></span></layer><script> + mytop = 0.12 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.35 * 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'>but is
detected </span></span></layer><script> + mytop = 0.18 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.33 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
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striatum </span></span></layer><script> + mytop = 0.31 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.33 * 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'>data set.</span><span
style='font-size:233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></layer></div>
</layer><script> + mytop = 0.16 * g_height; myleft = 0.56 * g_width; myheight = 0.12 * g_height; mywidth = 0.48 * 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 = 0.45 * 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'>This is</span><span
style='font-size:233%;color:#E9EB5D'><i> the App QTL </i></span></span></layer><script> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.48 * 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'>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>
</layer><script> + mytop = 0.39 * g_height; myleft = 0.03 * g_width; myheight = 0.53 * g_height; mywidth = 0.48 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script>
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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>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"> </span>Ctbp2 is a strong cis QTL in some
brain regions (here the data are taken from the striatum).<span
style="mso-spacerun: yes"> </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"> </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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\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm new file mode 100755 index 00000000..5ba9ff5c --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm @@ -0,0 +1,104 @@ +<html>
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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%'>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>
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<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">
</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"> </span>with several transcription factors
including EVI1, ZFPM1, and<span style="mso-spacerun: yes">
</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">
</span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene<span
style="mso-spacerun: yes"> </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"> </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>
</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/slide0060.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0060.htm new file mode 100755 index 00000000..2f1c5b7b --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0060.htm @@ -0,0 +1,139 @@ +<html>
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<div style='mso-special-format:nobullet;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:#FBFDB8;
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292;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt:
292;mso-text-indent-alt: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'>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>
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<layer>
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<layer>
<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%'></div>
</layer>
<script> + mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.87 * 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 = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.96%;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"> </span>Covered the basics of QTL
analysis and mapping.<br>
</span></span></layer></div>
</layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.95 * 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 = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.71%;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"> </span>Reviewed difference between
genetic and physical maps.<br>
</span></span></layer></div>
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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 = 0.95 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.62%;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"> </span>Discussed interpreting features
of QTL maps including the </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.98 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>LRS function, the additive effect function,
the bootstrap bars, </span></span></layer><script> + mytop = 0.1 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.84 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>and the permutation thresholds.<br>
</span></span></layer></div>
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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 = 1 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.51%;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"> </span>Illustrated technics to
generate a list of positional candidates.<br>
</span></span></layer></div>
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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 = 0.94 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</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:-2.65%;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"> </span>Discussed some factors used to
evaluate candidate genes.</span></span></layer></div>
</layer></div>
</layer><script> + mytop = 0.58 * g_height; myleft = 0.05 * g_width; myheight = 0.26 * g_height; mywidth = 1.06 * 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 = 0.05 * g_height; mywidth = 1.06 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>What does a QTL signify? A good QTL is a claim
that a particular </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.03 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>chromosomal region contains a causal source of
variation in the </span></span></layer><script> + mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * 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-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>phenotype. The importance of this hypothesis
depends on the </span></span></layer><script> + mytop = 0.15 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.92 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>quality and relevance of the phenotype and the
statistical </span></span></layer><script> + mytop = 0.21 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.89 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D;mso-color-index:3'>strength of the QTL. As usual, test and be
skeptical.</span></span></layer></div>
</layer></div>
</LAYER>
+<script language=JavaScript><!--
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\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0061.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0061.htm new file mode 100755 index 00000000..a2816092 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0061.htm @@ -0,0 +1,112 @@ +<html>
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
+</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 + ' >' ); +</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%;
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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:
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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> + mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * 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'>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>
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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:
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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 = 1.05 * 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'>find strong
relation between </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'>? </span><span
style='font-size:233%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br>
</i></span></span></layer></div>
</layer><script> + mytop = 0.66 * 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> + mytop = 0.06 * 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><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() { + +} +//-->
+</script>
</body>
</html>
\ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0062.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0062.htm new file mode 100755 index 00000000..6b671799 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0062.htm @@ -0,0 +1,109 @@ +<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
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="Jul-18-05: Contact for comments and improvements:">
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<div><script language=JavaScript><!--
+ht = g_height; +wd = g_width; +document.write( +'<img src="master03_background.png" height=' + ht + ' width=' + wd + '>' ); +//-->
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</layer><script> + mytop = 0.02 * g_height; myleft = 0.02 * g_width; myheight = 0.09 * g_height; mywidth = 0.94 * 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 = 0.06 * 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:"Gill Sans";font-weight:normal;
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style='font-size:82%;mso-special-format:lastCR;display:none'><br>
</span></div>
</layer></div>
</layer><script> + mytop = 0.16 * g_height; myleft = 0.06 * g_width; myheight = 0.24 * g_height; mywidth = 0.9 * 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 = 0.24 * g_height; mywidth = 0.87 * 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%;
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style='text-align:left'><span style='font-size:82%'>rwilliam@nb.utmem.edu<br>
</span></span></layer><script> + mytop = 0.08 * g_height; myleft = 0.04 * g_width; myheight = 0.07 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:82%'><br>
</span></span></layer><script> + mytop = 0.16 * g_height; myleft = 0.04 * g_width; myheight = 0.07 * g_height; mywidth = 0.83 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-size:82%;mso-special-format:lastCR;
display:none'><br>
</span></span></layer></div>
</layer></div>
</layer><script> + mytop = 0.27 * g_height; myleft = 0.09 * g_width; myheight = 0.07 * g_height; mywidth = 0.5 * 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:
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mso-text-raise:0%'><span style='font-family:"Gill Sans";font-size:300%;
color:#E9EB5D'>kmanly@utmem.edu</span></div>
</layer><script> + mytop = 0.83 * g_height; myleft = 0.04 * g_width; myheight = 0.1 * g_height; mywidth = 1.01 * 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 = 0.98 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
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
of an </span></span></layer><script> + mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 1.01 * g_width; + document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); +</script><span
style='text-align:left'><span style='font-family:"Gill Sans";font-size:200%;
color:#E9EB5D'>ongoing study of R. Wiliams and R. Homayouni (July 15, 2005)</span><span
style='font-family:"Gill Sans";font-size:300%;color:#E9EB5D;mso-special-format:
lastCR;display:none'><br>
</span></span></layer></div>
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<td align=left colspan=1><font face=Verdana size=3>END</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/slide0063.htm b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0063.htm new file mode 100755 index 00000000..0c358615 --- /dev/null +++ b/web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0063.htm @@ -0,0 +1,34 @@ +<html>
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<script> +if ( ! top.PPTPRESENTATION ) { + window.location.replace( "endshow.htm" ); +} +</script>
<meta name=Description content="Jul-18-05: GeneNetwork and WebQTL:">
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<meta name=ProgId content=PowerPoint.Slide>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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<script> +if ( ! top.PPTPRESENTATION ) { + window.location.replace( "endshow.htm" ); +} +</script>
<meta name=Description content=Jul-18-05>
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<title>PowerPoint Presentation - Complex trait analysis, develop-ment, and
genomics</title>
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