diff options
Diffstat (limited to 'web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files')
156 files changed, 0 insertions, 5082 deletions
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100755 index 2d4aa484..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline.gif +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapse.gif b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapse.gif deleted file mode 100755 index 4c804d69..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapse.gif +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapsed.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapsed.htm deleted file mode 100755 index 5da9503b..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_collapsed.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <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>GeneNetwork and WebQTL:</a></b></font></td> </tr> </table> <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="Gill Sans">Search results</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>"First page of data:"</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>"Data sources:"</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>"Expression estimates for App on..."</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>"Critiquing the App data the..."</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>"App expression after windsorizing"</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>"Discovering shared expression patterns"</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>"Transcript neighborhoods"</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>"App and Atcay transcript scatterplot"</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>"App transcript and eight of..."</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>App transcript coexpression neighborhood</a></b></font></td> </tr> </table> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID15 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p15" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('15')" id=AREF>"Correlations of App with classical..."</a></b></font></td> </tr> </table> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID16 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p16" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('16')" id=AREF>"Network Graph of App with..."</a></b></font></td> </tr> </table> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID17 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p17" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('17')" id=AREF>"Summary of Part 1:"</a></b></font></td> </tr> </table> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID18 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p18" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('18')" id=AREF>Contact for comments and improvements:</a></b></font></td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expand.gif b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expand.gif deleted file mode 100755 index c8c72b13..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expand.gif +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expanded.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expanded.htm deleted file mode 100755 index a45e9c0c..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_expanded.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <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>GeneNetwork and WebQTL:</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 covariation (slides 2–16)</font></td> </tr> <tr> <td colspan=1></td> <td colspan=1><font face=Arial size=2>Part 2. Discovering upstream modulators (slides 17–30)</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="Gill Sans">Search results</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>"First page of data:"</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>First page of data: The Trait Data and Analysis Form</font></td> </tr> </table> <br> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID6 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p6" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('6')" id=AREF>"Data sources:"</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>Data sources: Metadata for each resource</font></td> </tr> </table> <br> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID7 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p7" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('7')" id=AREF>"Expression estimates for App on..."</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>Expression estimates for App on the Trait Data form</font></td> </tr> </table> <br> <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>"Critiquing the App data the..."</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>Critiquing the App data the Trait Data</font></td> </tr> </table> <br> <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>"App expression after windsorizing"</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>App expression after windsorizing</font></td> </tr> </table> <br> <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>"Discovering shared expression patterns"</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>Discovering shared expression patterns</font></td> </tr> </table> <br> <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>"Transcript neighborhoods"</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>Transcript neighborhoods</font></td> </tr> </table> <br> <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>"App and Atcay transcript scatterplot"</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>App and Atcay transcript scatterplot</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>"App transcript and eight of..."</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>App transcript and eight of its neighbors</font></td> </tr> </table> <br> <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>App transcript coexpression neighborhood</a></b></font></td> </tr> </table> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID15 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p15" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('15')" id=AREF>"Correlations of App with classical..."</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>Correlations of App with classical traits</font></td> </tr> </table> <br> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID16 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p16" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('16')" id=AREF>"Network Graph of App with..."</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>Network Graph of App with classical traits</font></td> </tr> </table> <br> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID17 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p17" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('17')" id=AREF>"Summary of Part 1:"</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 1:</font></td> </tr> </table> <br> <table width=100%> <tr> <td width=1 ><script> if ( parent.base.isnav ) { document.write('<ilayer id= LAYERID18 VISIBILITY=hidden >></ilayer>'); } </script></td> <td width=100% id="p18" ><font face=Arial size=2><b><a href="javascript:parent.base.Slide('18')" id=AREF>Contact for comments and improvements:</a></b></font></td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_navigation_bar.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_navigation_bar.htm deleted file mode 100755 index f47a3707..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/outline_navigation_bar.htm +++ /dev/null @@ -1,37 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script><script language=JavaScript><!-- - -function restore() { -if( navigator.platform != "MacPPC" ) - self.location.reload(); -} - -function writebody() { - - if ( parent.g_showoutline ) { - document.write('<table border=0 valign=top cellspacing=0 width=\"100%\">' + - '<tr valign=top><td align=left valign=top>' ); - document.write( '<a href=\"javascript:parent.ToggleOutline()\" ><img src=\"outline.gif\" title=\"Show/Hide Outline\" alt=\"Show/Hide Outline\" border=0></a>' ); - document.write( '</td>' ); - if( parent.g_outline_href == parent.OUTLINE_EXPAND_HREF ) { - document.write( '<td align=right valign=top><a href=\"javascript:parent.CollapseOutline()\">' + - '<img src="outline_collapse.gif" title="Collapse Outline" alt="Collapse Outline" border=0>' + - '</a></td>'); - } else { - document.write('<td align=right valign=top><a href=\"javascript:parent.ExpandOutline()\">' + - '<img src="outline_expand.gif" title="Expand Outline" alt="Expand Outline" border=0>' + - '</a></td>'); - } - document.write("</tr></table>"); - } - else { - document.write( '<table border=0 valign=top cellspacing=0 width=\"100%\"><td align=\"left\"><a href=\"javascript:parent.ToggleOutline()\" ><img border=0 src=\"outline.gif\" title=\"Show/Hide Outline\" alt=\"Show/Hide Outline\"></a></td></table>' ); - } -}//--> -</script> </head> <body background=navbg.gif topmargin=1 onresize="restore()" scroll="no" > <script language=JavaScript><!-- -writebody(); -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_active.gif b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_active.gif deleted file mode 100755 index 004a872f..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_active.gif +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_disabled.gif b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_disabled.gif deleted file mode 100755 index 8a467185..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/prev_disabled.gif +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/script.js b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/script.js deleted file mode 100755 index 7c9fb703..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/script.js +++ /dev/null @@ -1,1351 +0,0 @@ -var CtxAlwaysOn = false; -function LoadSld( slideId ) -{ - if( !g_supportsPPTHTML ) return - if( slideId ) - parent.base.SldUpdated(slideId) - g_origSz=parseInt(SlideObj.style.fontSize) - g_origH=SlideObj.style.posHeight - g_origW=SlideObj.style.posWidth - g_scaleHyperlinks=(document.all.tags("AREA").length>0) - if ( IsWin("PPTSld") && !parent.IsFullScrMode() ) - parent.base.highlite(); - if( g_scaleHyperlinks ) - InitHLinkArray() - if( g_scaleInFrame||(IsWin("PPTSld") && parent.IsFullScrMode() ) ) - document.body.scroll="no" - _RSW() - if( IsWin("PPTSld") && (parent.IsFullScrMode() || CtxAlwaysOn ) ) { - document.oncontextmenu=parent._CM; - self.focus(); - - } -} -function MakeSldVis( fTrans ) -{ - fTrans=fTrans && g_showAnimation - if( fTrans ) - { - if( g_bgSound ) { - idx=g_bgSound.indexOf(","); - pptSound.src=g_bgSound.substr( 0, idx ); - pptSound.loop= -(parseInt(g_bgSound.substr(idx+1))); - } - SlideObj.filters.revealtrans.Apply() - } - SlideObj.style.visibility="visible" - if( fTrans ) - SlideObj.filters.revealtrans.Play() -} -function MakeNotesVis() -{ - if( !IsNts() ) return false - SlideObj.style.display="none" - nObj = document.all.item("NotesObj") - parent.SetHasNts(0) - if( nObj ) { - nObj.style.display="" - parent.SetHasNts(1) - } - return 1 -} -function Redirect( frmId,sId ) -{ - var str=document.location.hash,idx=str.indexOf('#') - if(idx>=0) str=str.substr(1); - if( window.name != frmId && ( sId != str) ) { - obj = document.all.item("Main-File") - window.location.href=obj.href+"#"+sId - return 1 - } - return 0 -} -function HideMenu() { if( frames["PPTSld"] && PPTSld.document.all.item("ctxtmenu") && PPTSld.ctxtmenu.style.display!="none" ) { PPTSld.ctxtmenu.style.display='none'; return true } return false } -function IsWin( name ) { return window.name == name } -function IsNts() { return IsWin("PPTNts") } -function IsSldOrNts() { return( IsWin("PPTSld")||IsWin("PPTNts") ) } -function SupportsPPTAnimation() { return( navigator.platform == "Win32" && navigator.appVersion.indexOf("Windows")>0 ) } -function SupportsPPTHTML() -{ - var appVer=navigator.appVersion, msie=appVer.indexOf( "MSIE " ), inex = appVer.indexOf( "Internet Explorer " ), ver=0 - if( msie >= 0 ) - ver=parseFloat( appVer.substring( msie+5, appVer.indexOf(";",msie) ) ) - else if( inex >= 0 ) - ver=parseFloat( appVer.substring( inex+18, appVer.indexOf(";",inex) ) ) - else - ver=parseInt(appVer) - - return( ver >= 4 ) -} -var MHTMLPrefix = CalculateMHTMLPrefix(); -function CalculateMHTMLPrefix() -{ - if ( document.location.protocol == 'mhtml:') { - href=new String(document.location.href) - Start=href.indexOf('!')+1 - End=href.lastIndexOf('/')+1 - if (End < Start) - return href.substring(0, Start) - else - return href.substring(0, End) - } - return ''; -} - -function LoadNavSld(slideId) { -playList(); -parent.createCM(); - if( !g_supportsPPTHTML ) return - if( IsWin("PPTSld") && slideId ) - parent.base.SldUpdated(slideId) - self.focus(); - -} -var hasNarration = false; -function _RSW() -{ - if( !g_supportsPPTHTML || IsNts() || - ( !g_scaleInFrame && (( window.name != "PPTSld" ) ) ) ) - return - - cltWidth=document.body.clientWidth - cltHeight=document.body.clientHeight - factor=(1.0*cltWidth)/g_origW - if( cltHeight < g_origH*factor ) - factor=(1.0*cltHeight)/g_origH - - newSize = g_origSz * factor - if( newSize < 1 ) newSize=1 - - s=SlideObj.style - s.fontSize=newSize+"px" - s.posWidth=g_origW*factor - s.posHeight=g_origH*factor - s.posLeft=(cltWidth-s.posWidth)/2 - s.posTop=(cltHeight-s.posHeight)/2 - - if ( hasNarration ) { - obj = document.all.NSPlay.style; - mySld = document.all.SlideObj.style; - obj.position = 'absolute'; - obj.posTop = mySld.posTop + mySld.posHeight - 20; - obj.posLeft = mySld.posLeft + mySld.posWidth - 20; - } - if( g_scaleHyperlinks ) - ScaleHyperlinks( factor ); -} -function IsMac() { - return (window.navigator.platform.indexOf("Mac") >= 0 ); -} - -function HitOK( evt ) { - //Nav Only function - return (evt.which == 1 || (IsMac() && evt.which == 3) ); -} -function _KPH(event) -{ - - if ( parent.base.msie < 0 ) { - - if ( ( (event.target.name && event.target.name == "hasMap" ) || (event.target.href && event.target.href != "") ) && parent.g_docTable[0].type != "jpeg" && HitOK( event ) ) { - return; /* to make hyperlinks in fullscreen mode traversable */ - } - if( IsContextMenu() ) - return parent.KPH(event); - if ( parent.IsFullScrMode() && event.which == 27 ) - parent.base.CloseFullScreen(); - else if ( parent.base.IsFullScrMode() && ( (!IsMac() && event.which == 3) || ( IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 ) ) ) - return parent.KPH(event); - else if( (event.which == 32) || (event.which == 13) || HitOK( event ) ) { - if( window.name == "PPTSld" ) - parent.PPTSld.DocumentOnClick(); - else - parent.M_GoNextSld(); - } - else if ( parent.IsFullScrMode() && ((event.which == 78) || (event.which == 110) || (event.which == 29) || (event.which == 31) || (event.which == 12)) ) - parent.M_GoNextSld(); - else if ( parent.IsFullScrMode() && ( (event.which == 80) || (event.which == 112) || (event.which == 30) || (event.which == 28) || (event.which == 11) || (event.which == 8)) ) - parent.M_GoPrevSld(); - - return; - } - - if( IsNts() ) return; - - if(parent.IsFullScrMode() && event.keyCode == 27 && !parent.HideMenu() ) - parent.base.CloseFullScreen(); - else if( (event.keyCode == 32) || (event.keyCode == 13) ) - { - if( window.name == "PPTSld" ) - parent.PPTSld.DocumentOnClick(); - else - parent.M_GoNextSld(); - } - else if ( parent.IsFullScrMode() && ((event.keyCode == 78) || (event.keyCode == 110)) ) - parent.M_GoNextSld(); - else if ( parent.IsFullScrMode() && ((event.keyCode == 80) || (event.keyCode == 112)) ) - parent.M_GoPrevSld(); -} - -function DocumentOnClick(event) -{ - if ( g_doAdvOnClick && !parent.IsFullScrMode() ) { - parent.base.TP_GoToNextSld(); - return; - } - - if ( parent.base.msie < 0 ) - { - if( ( g_allowAdvOnClick && parent.IsFullScrMode() ) || g_doAdvOnClick || - (event && ( (event.which == 32) || (event.which == 13) ) ) ) - parent.M_GoNextSld(); - return; - } - if( IsNts() || (parent.IsFullScrMode() && parent.HideMenu() ) ) return; - if( ( g_allowAdvOnClick && parent.IsFullScrMode() ) || g_doAdvOnClick || - (event && ( (event.keyCode==32) || (event.keyCode == 13) ) ) ) - parent.M_GoNextSld(); -} - - -var g_supportsPPTHTML = SupportsPPTHTML(), g_scaleInFrame = true, gId="", g_bgSound="", - g_scaleHyperlinks = false, g_allowAdvOnClick = true, g_showInBrowser = false, g_doAdvOnClick = false; - - var g_showAnimation = 0; -var g_hasTrans = false, g_autoTrans = false, g_transSecs = 0; -var g_animManager = null; - -var ENDSHOW_MESG="End of slide show, click to exit.", SCREEN_MODE="Frames", gIsEndShow=0, NUM_VIS_SLDS=18, 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), - new hrefList("slide0015.htm", 1, 15), - new hrefList("slide0016.htm", 1, 16), - new hrefList("slide0017.htm", 1, 17), - new hrefList("slide0018.htm", 1, 18) -); - -function ImgBtn( oId,bId,w,action ) -{ - var t=this - t.Perform = _IBP - t.SetActive = _IBSetA - t.SetInactive= _IBSetI - t.SetPressed = _IBSetP - t.SetDisabled= _IBSetD - t.Enabled = _IBSetE - t.ChangeIcon = null - t.UserAction = action - t.ChgState = _IBUI - t.mObjId = oId - t.mBorderId= bId - t.mWidth = w - t.mIsOn = t.mCurState = 0 -} -function _IBSetA() -{ - if( this.mIsOn ) { - obj=this.ChgState( gHiliteClr,gShadowClr,2 ) - obj.style.posTop=0 - } -} -function _IBSetI() -{ - if( this.mIsOn ) { - obj=this.ChgState( gFaceClr,gFaceClr,1 ) - obj.style.posTop=0 - } -} -function _IBSetP() -{ - if( this.mIsOn ) { - obj=this.ChgState( gShadowClr,gHiliteClr,2 ) - obj.style.posLeft+=1; obj.style.posTop+=1 - } -} -function _IBSetD() -{ - obj=this.ChgState( gFaceClr,gFaceClr,0 ) - obj.style.posTop=0 -} -function _IBSetE( state ) -{ - var t=this - GetObj( t.mBorderId ).style.visibility="visible" - if( state != t.mIsOn ) { - t.mIsOn=state - if( state ) - t.SetInactive() - else - t.SetDisabled() - } -} -function _IBP() -{ - var t=this - if( t.mIsOn ) { - if( t.UserAction != null ) - t.UserAction() - if( t.ChangeIcon ) { - obj=GetObj(t.mObjId) - if( t.ChangeIcon() ) - obj.style.posLeft=obj.style.posLeft+(t.mCurState-4)*t.mWidth - else - obj.style.posLeft=obj.style.posLeft+(t.mCurState-0)*t.mWidth - } - t.SetActive() - } -} -function _IBUI( clr1,clr2,nextState ) -{ - var t=this - SetBorder( GetObj( t.mBorderId ),clr1,clr2 ) - obj=GetObj( t.mObjId ) - obj.style.posLeft=obj.style.posLeft+(t.mCurState-nextState)*t.mWidth-obj.style.posTop - t.mCurState=nextState - return obj -} -function TxtBtn( oId,oeId,action,chkState ) -{ - var t=this - t.Perform = _TBP - t.SetActive = _TBSetA - t.SetInactive= _TBSetI - t.SetPressed = _TBSetP - t.SetDisabled= _TBSetD - t.SetEnabled = _TBSetE - t.GetState = chkState - t.UserAction = action - t.ChgState = _TBUI - t.mObjId = oId - t.m_elementsId= oeId - t.mIsOn = 1 -} -function _TBSetA() -{ - var t=this - if( t.mIsOn && !t.GetState() ) - t.ChgState( gHiliteClr,gShadowClr,0,0 ) -} -function _TBSetI() -{ - var t=this - if( t.mIsOn && !t.GetState() ) - t.ChgState( gFaceClr,gFaceClr,0,0 ) -} -function _TBSetP() -{ - if( this.mIsOn ) - this.ChgState( gShadowClr,gHiliteClr,1,1 ) -} -function _TBSetD() -{ - this.ChgState( gFaceClr,gFaceClr,0,0 ) - this.mIsOn = 0 -} -function _TBSetE() -{ - var t=this - if( !t.GetState() ) - t.ChgState( gFaceClr,gFaceClr,0,0 ) - else - t.ChgState( gShadowClr,gHiliteClr,1,1 ) - t.mIsOn = 1 -} -function _TBP() -{ - var t=this - if( t.mIsOn ) { - if( t.UserAction != null ) - t.UserAction() - if( t.GetState() ) - t.SetPressed() - else - t.SetActive() - } -} -function _TBUI( clr1,clr2,lOffset,tOffset ) -{ - SetBorder( GetObj( this.mObjId ),clr1,clr2 ) - Offset( GetObj( this.m_elementsId ),lOffset,tOffset ) -} -function GetObj( objId ){ return document.all.item( objId ) } -function Offset( obj, top, left ){ obj.style.top=top; obj.style.left=left } -function SetBorder( obj, upperLeft, lowerRight ) -{ - s=obj.style; - s.borderStyle = "solid" - s.borderWidth = 1 - s.borderLeftColor = s.borderTopColor = upperLeft - s.borderBottomColor= s.borderRightColor = lowerRight -} -function GetBtnObj(){ return gBtnArr[window.event.srcElement.id] } -function BtnOnOver(){ b=GetBtnObj(); if( b != null ) b.SetActive() } -function BtnOnDown(){ b=GetBtnObj(); if( b != null ) b.SetPressed() } -function BtnOnOut(){ b=GetBtnObj(); if( b != null ) b.SetInactive() } -function BtnOnUp() -{ - b=GetBtnObj() - if( b != null ) - b.Perform() - else - Upd() -} -function GetNtsState(){ return parent.gNtsOpen } -function GetOtlState(){ return parent.gOtlOpen } -function GetOtlTxtState(){ return parent.gOtlTxtExp } -function NtsBtnSetFlag( fVal ) -{ - s=document.all.item( this.m_flagId ).style - s.display="none" - if( fVal ) - s.display="" - else - s.display="none" -} - -var gHiliteClr="THREEDHIGHLIGHT",gShadowClr="THREEDSHADOW",gFaceClr="THREEDFACE" -var gBtnArr = new Array() -gBtnArr["nb_otl"] = new TxtBtn( "nb_otl","nb_otlElem",parent.ToggleOtlPane,GetOtlState ) -gBtnArr["nb_nts"] = new TxtBtn( "nb_nts","nb_ntsElem",parent.ToggleNtsPane,GetNtsState ) -gBtnArr["nb_prev"]= new ImgBtn( "nb_prev","nb_prevBorder",30,parent.GoToPrevSld ) -gBtnArr["nb_next"]= new ImgBtn( "nb_next","nb_nextBorder",30,parent.GoToNextSld ) -gBtnArr["nb_sldshw"]= new ImgBtn( "nb_sldshw","nb_sldshwBorder",18,parent.FullScreen ) -gBtnArr["nb_voice"] = new ImgBtn( "nb_voice","nb_voiceBorder",18,parent.ToggleVNarration ) -gBtnArr["nb_otlTxt"]= new ImgBtn( "nb_otlTxt","nb_otlTxtBorder",23,parent.ToggleOtlText ) -gBtnArr["nb_nts"].m_flagId= "notes_flag" -gBtnArr["nb_nts"].SetFlag = NtsBtnSetFlag -gBtnArr["nb_otlTxt"].ChangeIcon= GetOtlTxtState -var sNext="Next",sPrev="Previous",sEnd="End Show",sFont="Arial", alwaysOn = false -function ShowMenu() -{ - BuildMenu(); - var doc=PPTSld.document.body,x=PPTSld.event.clientX+doc.scrollLeft,y=PPTSld.event.clientY+doc.scrollTop - - m = PPTSld.document.all.item("ctxtmenu") - m.style.pixelLeft=x - if( (x+m.scrollWidth > doc.clientWidth)&&(x-m.scrollWidth > 0) ) - m.style.pixelLeft=x-m.scrollWidth - - m.style.pixelTop=y - if( (y+m.scrollHeight > doc.clientHeight)&&(y-m.scrollHeight > 0) ) - m.style.pixelTop=y-m.scrollHeight - - m.style.display="" -} -function _CM() -{ - if( !parent.IsFullScrMode() && !alwaysOn) return; - - if(!PPTSld.event.ctrlKey) { - ShowMenu() - return false - } else - HideMenu() -} - -function processNavKPH(event) { - if ( PPTSld && (event.keyCode != 13 || !event.srcElement.href || event.srcElement.href == "" ) ) - return PPTSld._KPH(event); -} -function processNavClick() { - HideMenu(); - return true; -} -function BuildMenu() -{ - if( PPTSld.document.all.item("ctxtmenu") ) return - - var mObj=CreateItem( PPTSld.document.body ) -mObj.id="ctxtmenu" - var s=mObj.style - s.position="absolute" - s.cursor="default" - s.width="100px" - SetCMBorder(mObj,"menu","black") - - var iObj=CreateItem( mObj ) - SetCMBorder( iObj, "threedhighlight","threedshadow" ) - iObj.style.padding=2 - if ( self.IsFullScrMode() ) { - CreateMenuItem( iObj,sNext,M_GoNextSld,M_True ) - CreateMenuItem( iObj,sPrev,M_GoPrevSld,M_HasPrevSld ) - } - else { - CreateMenuItem( iObj,sNext, base.TP_GoToNextSld, base.HasNextSld ) - CreateMenuItem( iObj,sPrev,base.GoToPrevSld, base.HasPrevSld ) - } - var sObj=CreateItem( iObj ) - SetCMBorder(sObj,"menu","menu") - var s=sObj.style - s.borderTopColor="threedshadow" - s.borderBottomColor="threedhighlight" - s.height=1 - s.fontSize="0px" - if ( self.IsFullScrMode() ) - CreateMenuItem( iObj,sEnd,M_End,M_True ) - else - CreateMenuItem( iObj,sEnd,M_End,M_False ) -} -function Highlight() { ChangeClr("activecaption","threedhighlight") } -function Deselect() { ChangeClr("threedface","menutext") } -function Perform() -{ - e=PPTSld.event.srcElement - if( e.type=="menuitem" && e.IsActive() ) - e.Action() - else - PPTSld.event.cancelBubble=true -} -function ChangeClr( bg,clr ) -{ - e=PPTSld.event.srcElement - if( e.type=="menuitem" && e.IsActive() ) { - e.style.backgroundColor=bg - e.style.color=clr - } -} - -function M_HasPrevSld() { return( base.HasPrevSld() ) } -function M_GoNextSld() { - base.SetFSMode(1); - if( gIsEndShow ) - M_End(); - else { - if ( base.HasNextSld() ) - base.GoToNextSld(); - else if ( base.EndSlideShow ) { - StartEndShow(); - gIsEndShow = 1; - - PPTNav.location.reload(); - } - else - base.CloseFullScreen(); - } -} -function M_GoPrevSld() { - base.SetFSMode(1); - g_hideNav = 0; - if( gIsEndShow ) { - gIsEndShow = 0; - if ( base.msie > 0 && IsMac() ) - ChangeFrame( SLIDE_FRAME, GetHrefObj( g_currentSlide ).m_slideHref ); - else - PPTSld.history.back(); - - PPTNav.location.reload(); - if( PPTSld.event ) - PPTSld.event.cancelBubble=true; - } - else - base.GoToPrevSld(); -} -function M_True() { return true } -function M_False() { return false } - -function M_End() { - base.CloseFullScreen(); - /*PPTSld.event.cancelBubble=true; - window.close( self )*/ -} - -function CreateMenuItem( node,text,action,eval ) -{ - var e=CreateItem( node ) - e.type="menuitem" - e.Action=action - e.IsActive=eval - e.innerHTML=text - - if( !e.IsActive() ) - e.style.color="threedshadow" - e.onclick=Perform - e.onmouseover=Highlight - e.onmouseout=Deselect - s=e.style; - s.fontFamily=sFont - s.fontSize="8pt" - s.paddingLeft=2 -} -function CreateItem( node ) -{ - var elem=PPTSld.document.createElement("DIV") - node.insertBefore( elem ) - return elem -} -function SetCMBorder( o,ltClr,rbClr ) -{ - var s=o.style - s.backgroundColor="menu" - s.borderStyle="solid" - s.borderWidth=1 - s.borderColor=ltClr+" "+rbClr+" "+rbClr+" "+ltClr -} - -/* netscape context menu */ -g_ctxmenu = 0; -function setRect( obj, X, Y, W, H ) { - obj.top = Y; - obj.left = X; - obj.clip.top = 0; - obj.clip.left = 0; - obj.clip.bottom = H; - obj.clip.right = W; -} - -function KPH(event) { - if ( ! base.IsFullScrMode() && !alwaysOn ) - return true; - - if ( (!IsMac() &&event.which == 3) || ( IsMac() && (event.modifiers & Event.CONTROL_MASK) && event.which == 1 ) ) { - PPTSld.g_ctxmenu = 1; - PPTSld.stripUobj.visibility = "show"; - PPTSld.stripDobj.visibility = "show"; - PPTSld.shadeUobj.visibility = "show"; - PPTSld.shadeDobj.visibility = "show"; - PPTSld.panelobj.visibility = "show"; - PPTSld.Fobj.visibility = "show"; - PPTSld.Bobj.visibility = "show"; - PPTSld.Eobj.visibility = "show"; - - setRect(PPTSld.shadeUobj, event.pageX-2, event.pageY-2, 82, 67 ); - setRect(PPTSld.shadeDobj, event.pageX, event.pageY, 82, 67 ); - setRect(PPTSld.panelobj, event.pageX, event.pageY, 80, 65 ); - setRect(PPTSld.Fobj, event.pageX, event.pageY, 80, 20 ); - setRect(PPTSld.Bobj, event.pageX, event.pageY+20, 80, 20 ); - setRect(PPTSld.stripUobj, event.pageX, event.pageY+41, 80, 1 ); - setRect(PPTSld.stripDobj, event.pageX, event.pageY+43, 80, 1 ); - setRect(PPTSld.Eobj, event.pageX, event.pageY+45, 80, 20 ); - return false; - } - if ( HitOK( event ) ) { - PPTSld.g_ctxmenu = 0; - PPTSld.stripUobj.visibility = "hide"; - PPTSld.stripDobj.visibility = "hide"; - PPTSld.shadeUobj.visibility = "hide"; - PPTSld.shadeDobj.visibility = "hide"; - PPTSld.panelobj.visibility = "hide"; - PPTSld.Fobj.visibility = "hide"; - PPTSld.Bobj.visibility = "hide"; - PPTSld.Eobj.visibility = "hide"; - } - return true; -} - -function overMe() { - this.bgColor = "blue"; -} - -function outMe() { - this.bgColor = "#AAAAAA"; -} - -function makeElement( whichEl, whichContainer ) { - if ( arguments.length == 1 ) { - whichContainer = PPTSld; - } - tmp = new Layer(100,whichContainer); - eval( whichEl + " = tmp" ); - return eval(whichEl); -} - -function initMe( obj, clr, text ) { - obj.bgColor = clr; -// obj.document.write("<a href='javascript:return false'>" + text + "</a>"); - obj.document.write( "<font size=2 face=Arial " ); - if ( !M_HasPrevSld() && (obj == PPTSld.Bobj ) ) { - obj.document.write( " color='#808080' " ); - } - else { - obj.onmouseover = overMe; - obj.onmouseout = outMe; - } - obj.document.write( " >   " + text +"</font> <layer top=0 left=0 width=100 height=40 ></layer>"); - obj.document.close(); - obj.captureEvents(Event.CLICK); - obj.color = "black"; -} - -function createCM() { - if ( base.IsFullScrMode() ) { - var clr = "#AAAAAA"; - PPTSld.shadeUobj = makeElement("SHADEU"); - PPTSld.shadeDobj = makeElement("SHADED"); - PPTSld.panelobj = makeElement("PANEL"); - PPTSld.stripUobj = makeElement("STRIPU"); - PPTSld.stripDobj = makeElement("STRIPD"); - PPTSld.shadeUobj.bgColor = "#BBBBBB"; - PPTSld.shadeDobj.bgColor = "#888888"; - PPTSld.stripUobj.bgColor = "#777777"; - PPTSld.stripDobj.bgColor = "#CCCCCC"; - PPTSld.panelobj.bgColor = clr; - PPTSld.Fobj = makeElement("Next"); - PPTSld.Bobj = makeElement("Previous"); - PPTSld.Eobj = makeElement("EndShow"); - initMe( PPTSld.Fobj, clr, "Next" ); - PPTSld.Fobj.onclick = M_GoNextSld; - - initMe( PPTSld.Bobj, clr, "Previous" ); - PPTSld.Bobj.onclick = M_GoPrevSld; - - initMe( PPTSld.Eobj, clr, "End Show"); - PPTSld.Eobj.onclick = base.CloseFullScreen; - } -} - -function IsContextMenu() { - return (g_ctxmenu == 1) -} -var g_notesTable = new Array() -var g_hiddenSlide = new Array() -makeSlide( 0,1,1); -makeSlide( 1,1,1); -makeSlide( 2,1,1); -makeSlide( 3,1,1); -makeSlide( 4,1,1); -makeSlide( 5,1,1); -makeSlide( 6,1,1); -makeSlide( 7,1,1); -makeSlide( 8,1,1); -makeSlide( 9,1,1); -makeSlide( 10,1,1); -makeSlide( 11,1,1); -makeSlide( 12,1,1); -makeSlide( 13,1,1); -makeSlide( 14,1,1); -makeSlide( 15,1,1); -makeSlide( 16,0,1); -makeSlide( 17,1,1); - -var END_SHOW_HREF = "endshow.htm", - OUTLINE_EXPAND_HREF = "outline_expanded.htm", - OUTLINE_COLLAPSE_HREF = "outline_collapsed.htm", - OUTLINE_NAVBAR_HREF = "outline_navigation_bar.htm", - NAVBAR_HREF = "navigation_bar.htm", - BLANK_NOTES_HREF = "blank_notes.htm", - NUM_VISIBLE_SLIDES = 18, - SIMPLE_FRAMESET = 0, - SLIDE_FRAME = "PPTSld", - NOTES_FRAME = "PPTNts", - OUTLINE_FRAME = "PPTOtl", - OUTLINE_NAVBAR_FRAME = "PPTOtlNav", - NAVBAR_FRAME = "PPTNav", - MAIN_FRAME = "MainFrame", - FS_NAVBAR_HREF = "fs_navigation_bar.htm", - isIEFiles = 2, - isNAVFiles = 8, - isFLATFiles = 16, - includeNotes = 1, - PPTPRESENTATION = 1; -var INITSLIDENUM = 1; - -var EndSlideShow = 0; -var g_outline_href = OUTLINE_COLLAPSE_HREF; -var g_fullscrMode = 0; -var FSWin = null; -var gtmpstr = document.location.href; -var g_baseURL = gtmpstr.substr(0, gtmpstr.lastIndexOf("/") ) + "/" + "webqtl_demo2_part1.ppt_files"; -var g_showoutline = 1; -var g_shownotes = includeNotes; -var g_currentSlide = INITSLIDENUM, g_prevSlide = INITSLIDENUM; -var saveFSSlideNum = saveTPSlideNum = g_currentSlide; -var saveFSprevSlide = saveTPprevSlide = g_prevSlide; -var g_slideType="ie"; -var appVer = navigator.appVersion; -var msie = appVer.indexOf( "MSIE " ) + appVer.indexOf( "Internet Explorer " ); -var isnav = ( navigator.appName.indexOf( "Netscape" ) >= 0 ); -var msieWin31 = (appVer.indexOf( "Windows 3.1" ) > 0); -var ver = 0; -var g_done = 0; -var g_prevotlobjidx = 0; -var g_ShowFSDefault = 0; -var g_lastVisibleSld = 1; -var g_allHidden = false; -function IsIE() { - return (msie >= 0 ); -} - -function IsNav() { - return (isnav); -} -var msiePos = appVer.indexOf( "MSIE " ); -var inexPos = appVer.indexOf( "Internet Explorer " ); -if ( msiePos >= 0 ) - ver = parseFloat( appVer.substring( msiePos+5, appVer.indexOf ( ";", msiePos ) ) ); -else if( inexPos >= 0 ) - ver=parseFloat( appVer.substring( inexPos+18, appVer.indexOf(";",inexPos) ) ) -else - ver = parseInt( appVer ); - -//var g_supportsPPTHTML = 0; //!msieWin31 && ( ( msie >= 0 && ver >= 3.02 ) || ( msie < 0 && ver >= 3 ) ); - -function GetCurrentSlideNum() -{ - obj = GetHrefObj( g_currentSlide ); - if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 ) - return obj.m_slideIdx; - else - return g_currentSlide; -} - -function GetNumSlides() -{ - if ( GetHrefObj( g_currentSlide ).m_origVisibility == 1 ) - return NUM_VISIBLE_SLIDES; - else - return g_docTable.length; -} - -function GetHrefObj( slideIdx ) -{ return g_docTable[slideIdx - 1]; -} - -function GetSlideNum( slideHref ) -{ - for (ii=0; ii<g_docTable.length; ii++) { - if ( g_docTable[ii].m_slideHref == slideHref ) - return ii+1; - } - return 1; -} - -function GoToNextSld() -{ - targetIdx = g_currentSlide + 1; - if ( GetHrefObj( targetIdx-1 ).m_origVisibility == 0 ) { - if ( targetIdx<=g_docTable.length ) { - obj = GetHrefObj( targetIdx ); - obj.m_visibility = 1; - GoToSld( obj.m_slideHref ); - } - } - else { - obj = GetHrefObj( targetIdx ); - while ( obj && ( obj.m_origVisibility == 0 ) && ( targetIdx<=g_docTable.length ) ) - obj = GetHrefObj( targetIdx++ ); - if( obj && obj.m_origVisibility ) - GoToSld( obj.m_slideHref ); - } -} - -function GoToPrevSld() -{ - targetIdx = g_currentSlide - 1; - if ( targetIdx > 0 ) { - obj = GetHrefObj( targetIdx ); - while ( ( obj.m_visibility == 0 ) && ( targetIdx>0 ) ) - obj = GetHrefObj( targetIdx-- ); - GoToSld( obj.m_slideHref ); - } -} - -function GoToLast() -{ - targetIdx = g_docTable.length; - if ( targetIdx != g_currentSlide ) - GoToSld( GetHrefObj( targetIdx ).m_slideHref ); -} - -function GoToFirst() -{ GoToSld( GetHrefObj(1).m_slideHref ); -} - -function highlite() { - if ( IsFullScrMode() ) - return; - index = GetCurrentSlideNum(); - if ( !frames[MAIN_FRAME].frames[OUTLINE_FRAME] ) - return; - if ( msie < 0 ) { - if ( g_prevotlobjidx != 0 ) { - eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + g_prevotlobjidx ); - otlobj.hidden = true; - } - else - index = GetCurrentSlideNum(); - eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.LAYERID" + index ); - otlobj.hidden = false; - - g_prevotlobjidx = index; - - return; - } - if ( !g_showoutline ) - return; - - backclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.bgColor; - textclr = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.body.text; - if ( g_prevotlobjidx != 0 ) { - eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + g_prevotlobjidx ); - otlobj.style.backgroundColor = backclr; - otlobj.style.color = textclr; - otlobj.all.AREF.style.color = textclr; - } - else - index = GetCurrentSlideNum(); - eval( "otlobj = frames[MAIN_FRAME].frames[OUTLINE_FRAME].document.all.p" + index ); - otlobj.style.backgroundColor = textclr; - otlobj.style.color = backclr; - otlobj.all.AREF.style.color = backclr; - g_prevotlobjidx = index; -} - -function ChangeFrame( frame, href ) -{ -if ( IsFramesMode() ) { - if ( NAVBAR_FRAME == frame || OUTLINE_NAVBAR_FRAME == frame ) { - frames[frame].location.replace(href); - } - else if( ! ( ( OUTLINE_FRAME == frame && !g_showoutline) || (NOTES_FRAME == frame && !g_shownotes ) ) ){ - frames[MAIN_FRAME].frames[frame].location.href = href; - } - } - else { - if ( frame == NAVBAR_FRAME || frame == SLIDE_FRAME ) { - if( frame == NAVBAR_FRAME ) { - href = FS_NAVBAR_HREF; - - } - if( frame == NAVBAR_FRAME ) - window.frames[frame].location.replace(href); - else - window.frames[frame].location.href = href; - } - } - -} - -function shutEventPropagation() { - if ( IsNav() ) - return; - - var slideFrame; - if ( IsFramesMode() ) - slideFrame = frames[MAIN_FRAME].frames[SLIDE_FRAME]; - else - slideFrame = window.frames[SLIDE_FRAME]; - if ( slideFrame.event ) - slideFrame.event.cancelBubble=true; -} - -function GoToSld( slideHref ) -{ - shutEventPropagation(); - if ( slideHref != GetHrefObj( g_currentSlide ).m_slideHref || g_slideType != GetHrefObj( g_currentSlide ).type) { - g_prevSlide = g_currentSlide; - g_currentSlide = GetSlideNum( slideHref ); - g_slideType = GetHrefObj( g_currentSlide ).type; - obj = GetHrefObj( g_currentSlide ); - obj.m_visibility = 1; - ChangeFrame( SLIDE_FRAME, slideHref ); - if( !SIMPLE_FRAMESET ) - ChangeFrame( NOTES_FRAME, obj.m_notesHref ); - ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF ); - - } -} - -function PrevSldViewed() -{ GoToSld( GetHrefObj( g_prevSlide ).m_slideHref ); -} - -function NoHref() {} - -function ExpandOutline( ) -{ - g_outline_href = OUTLINE_EXPAND_HREF; - ChangeFrame( OUTLINE_FRAME, OUTLINE_EXPAND_HREF ); - frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF); -} - -function CollapseOutline() -{ - g_outline_href = OUTLINE_COLLAPSE_HREF; - ChangeFrame( OUTLINE_FRAME, OUTLINE_COLLAPSE_HREF ); - frames[OUTLINE_NAVBAR_FRAME].location.replace( OUTLINE_NAVBAR_HREF); - } - -function SlideUpdated( id ) -{ - if ( id != GetHrefObj( g_currentSlide ).m_slideHref ) { - g_prevSlide = g_currentSlide; - g_currentSlide = GetSlideNum( id ); - obj = GetHrefObj( g_currentSlide ); - if( !SIMPLE_FRAMESET ) - ChangeFrame( NOTES_FRAME, obj.m_notesHref ); - ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF ); - } -} - -function hrefList( slideHref, notesHref, visible, slideIdx, type ) -{ - this.m_slideHref = slideHref; - this.m_notesHref = notesHref; - this.m_navbarHref = NAVBAR_HREF; - this.m_origVisibility = visible; - this.m_visibility = visible; - this.m_slideIdx = slideIdx; - this.type = type; -} - -function IsFullScrMode() { - return g_fullscrMode; -} - - -function IsFramesMode() { - return (1 - g_fullscrMode); -} - -function SldUpdated( id ) -{ - if ( ( id != GetHrefObj( g_currentSlide ).m_slideHref ) || ( g_currentSlide == g_lastVisibleSld ) ){ - g_prevSlide = g_currentSlide; - g_currentSlide = GetSlideNum( id ); - obj = GetHrefObj( g_currentSlide ); - if( !SIMPLE_FRAMESET ) - ChangeFrame( NOTES_FRAME, obj.m_notesHref ); - ChangeFrame( NAVBAR_FRAME, NAVBAR_HREF ); - } -} - -function ToggleOutline() { - g_showoutline = 1 - g_showoutline; - writeMyFrame(); -} - -function ShowHideNotes() { - g_shownotes = 1 - g_shownotes; - writeMyFrame(); -} - -function writeMyFrame() { - SetFSMode(0); - obj = frames[MAIN_FRAME]; - - var curslide = g_baseURL + "/" + GetHrefObj( g_currentSlide ).m_slideHref; - var curnotes = g_baseURL + "/" + GetHrefObj( g_currentSlide ).m_notesHref; - var otlhref = g_baseURL + "/" + g_outline_href; - if ( msie < 0 ) { - if ( ! g_showoutline && g_shownotes ) { - obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \ - <frameset rows=\"*,20%\" id=\"frameset2\" > \ - <frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \ - <frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \ - </frameset> </html>' ); - } - else if( g_showoutline && g_shownotes ){ - obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \ - <frameset cols=\"20%,*\" id=\"frameset1\"> \ - <frame src=\"' + otlhref + '\" name=PPTOtl> \ - <frameset rows=\"*,20%\" id=\"frameset2\" > \ - <frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \ - <frame src=\"' + curnotes + '\" name=PPTNts marginheight=0 marginwidth=0> \ - </frameset> </frameset></html>' ); - } - else if ( !g_shownotes && !g_showoutline ) { - obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \ - <frameset rows="*,0" frameborder=0 > \ - <frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \ - </frameset> </html>' ); - } - else if( !g_shownotes && g_showoutline ) { - obj.document.write( '<HTML><HEAD><SCRIPT language=JavaScript src=' + g_baseURL + '/script.js></SCRIPT><SCRIPT> base = parent; <\/SCRIPT><\/HEAD> \ - <frameset cols=\"20%,*\" id=\"frameset1\"> \ - <frame src=\"' + otlhref + '\" name=PPTOtl> \ - <frame src=\"' + curslide + '\" name=PPTSld marginheight=0 marginwidth=0> \ - </frameset></html>' ); - } - obj.document.close(); - } - else { - if ( g_showoutline ) { - obj.PPTHorizAdjust.cols = "20%,*"; - obj.PPTOtl.location.reload(); - } - else { - obj.PPTHorizAdjust.cols = "0,*"; - } - if ( g_shownotes ) { - obj.PPTVertAdjust.rows = "*,20%"; - obj.PPTNts.location.href = curnotes; - } - else { - obj.PPTVertAdjust.rows = "*,0"; - } - } - ChangeFrame( OUTLINE_NAVBAR_FRAME, OUTLINE_NAVBAR_HREF ); -} - -function FullScreen() { - g_done = 0; - - - SetFSMode(1); - if ( msie >= 0 ) - FSWin = window.open( g_baseURL + "/" + "fullscreen.htm", null, "fullscreen=yes"); - else { - var height = screen.availHeight; - if ( window.navigator.platform.indexOf( "Mac" ) >= 0 ) { - height -= 30; - } - FSWin = window.open( g_baseURL + "/" + "fullscreen.htm", "null", "height="+ height + ",width=" + screen.availWidth + ",screenX=0,screenY=0"); - } -} - -function SetFSMode( i ) { - -} - -function Slide( i ) { - SetFSMode(0); - GoToSld(GetHrefObj(i).m_slideHref); -} - -function TP_GoToNextSld() { - SetFSMode(0); - GoToNextSld(); -} - -function TP_GoToPrevSld() { - SetFSMode(0); - GoToPrevSld(); -} - -function CloseFullScreen() { - g_done = 0; - - if ( IsNav() ){ - if ( self.opener ) - opener.FSWin = null; - } - window.close(); -} - -function slidenum(i) { - var slidename = "slide"; - if ( i < 10 ) - return ( slidename + "000" + i); 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This presentation was optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator."); - */ - if ( isFLATFiles <= 0 ) { - /* if ( IsFramesMode() ) - window.alert("This presentation contains content that your browser may not be able to display properly. This presentation is optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator." ); - */ - window.location.replace( "webqtl_demo2_part1.ppt_files/error.htm" ); - } - /* - else if ( IsFramesMode() && !isWebTV() ) - StatusPlay( "This presentation contains content that your browser may not be able to show properly. This presentation was optimized for more recent versions of Microsoft Internet Explorer or Netscape Navigator." ); - */ - jpegArray ( 18 ); - } - -} - -function isWebTV() { - if ( window.navigator.appName.indexOf( 'WebTV' ) >= 0 ) - return true; - return false; -} - -var count; -var statusText; -var statusfirst = 0; - function display50( text ) -{ - len = text.length; - if ( len < 50 && count < 2) { - window.status = text; - window.setTimeout( "repeat()", 300 ); - } - else { - var period = 200; - window.status = text; - newtext = text.substring( 1, len ); - if ( statusfirst ) { - statusfirst = 0; - period = 2000; - } - window.setTimeout( "display50( newtext )", period ); - } -} -function repeat( ) { - count++; - statusfirst = 1; - display50( statusText ); -} - -function StatusPlay( text ) { - count = 0; - statusText = text; - repeat( ); - } -function makeSlide( i, notes, visible ) { - g_notesTable[i] = notes; - g_hiddenSlide[i] = visible; -} - diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm deleted file mode 100755 index d17c2490..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: GeneNetwork and WebQTL:"> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0001.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:.88%;left:3.31%;width:84.37%;height:9.89%; 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:0%;left:1.25%;width:97.95%; height:100.0%'><span style='font-size:105%'><i>GeneNetwork and WebQTL:</i></span><span style='font-size:68%;mso-special-format:lastCR;display:none'><i><br> </i></span></div> </div> <div style='position:absolute;top:24.02%;left:5.82%;width:69.0%;height:50.7%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='position:absolute;top:0%;left:2.87%;width:97.12%; height:71.08%'> <div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt: 56;position:absolute;top:0%;left:0%;width:92.68%;height:53.43%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span style='mso-special-format: nobullet;display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size: 99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Part 1: How to study </span></span><span style='position:absolute;top:31.19%; left:8.1%;width:91.89%'><span style='font-size:106%;color:#E9EB5D;mso-color-index: 3'>expression variation and </span></span><span style='position:absolute; top:61.46%;left:8.1%;width:91.89%'><span style='font-size:106%;color:#E9EB5D; mso-color-index:3'>covariation (slides 2–16)<br> </span></span></div> <div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt: 56;position:absolute;top:63.23%;left:0%;width:100.0%;height:36.76%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span style='mso-special-format: nobullet;display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size: 99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Part 2. Discovering upstream </span></span><span style='position:absolute; top:45.33%;left:7.5%;width:89.32%'><span style='font-size:106%;color:#E9EB5D; mso-color-index:3'>modulators (slides 17–30)</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></span></div> </div> </div> <img border=0 src="slide0001_image001.png" style='position:absolute;top:21.9%; left:74.56%;width:23.57%;height:64.31%'> <div class=O style='position:absolute;top:79.32%;left:75.89%;width:10.46%; 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:46.34%;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 class=O style='position:absolute;top:66.43%;left:3.44%;width:80.66%; height:11.48%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'><i>PowerPoint ÒNormal viewÓ has notes that may be </i></span></span><span style='position:absolute;top:50.76%;left:0%;width:86.53%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'><i>useful companions to these slides.</i></span><span style='font-family: "Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index:3;mso-special-format: lastCR;display:none'><br> </span></span></div> <div class=O style='position:absolute;top:10.95%;left:6.35%;width:55.23%; height:7.42%'><span style='font-family:"Gill Sans";font-size:283%;color:#E9EB5D'><i>a PowerPoint Presentation</i></span><span style='font-family:"Gill Sans"; font-size:317%;color:#E9EB5D;mso-special-format:lastCR;display:none'><i><br> </i></span></div> <div class=O style='position:absolute;top:92.4%;left:75.23%;width:26.49%; height:3.88%'><span style='font-family:Helvetica;font-size:167%;color:#E9EB5D'><i>RWW 07.23.2005</i></span></div> <div class=O style='position:absolute;top:81.97%;left:3.44%;width:77.21%; height:11.48%'> <div style='position:absolute;top:0%;left:0%;width:88.16%;height:49.23%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'><i>You can also download this PowerPoint at<br> </i></span></div> <div style='position:absolute;top:50.76%;left:0%;width:100.0%;height:49.23%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'><i>ftp://atlas.utmem.edu/public/webqtl_demo2.ppt </i></span><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3;mso-special-format:lastCR;display:none'><br> </span></div> </div> </div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Welcome to a short demonstration of the GeneNetwork and its WebQTL module. Please adjust the size of the windows on your monitor so that you can see part of this page, as well as GeneNetwork windows. WebQTL produces a large number of new windows, so you may need to modify your browser preferences to permit pop-ups. In this demonstration, we explore one important transcript expressed in the brain: the amyloid beta precursor protein messenger RNA. A protein product of this mRNA, the APP protein, is associated with AlzheimerÕs disease.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>My thanks to Dr. Robert F. Clark and Wenli Cai for testing this PowerPoint demonstration and making many improvements.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>(Initial version of June 2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14, 2005 by WC. Final edits by RF Clark, July 22, 2005.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_image001.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_image001.png deleted file mode 100755 index a1cb20e4..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_image001.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm deleted file mode 100755 index 7c670210..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0001_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Welcome to a short demonstration of the GeneNetwork and its WebQTL module. Please adjust the size of the windows on your monitor so that you can see part of this page, as well as GeneNetwork windows. WebQTL produces a large number of new windows, so you may need to modify your browser preferences to permit pop-ups. In this demonstration, we explore one important transcript expressed in the brain: the amyloid beta precursor protein messenger RNA. A protein product of this mRNA, the APP protein, is associated with AlzheimerÕs disease.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>My thanks to Dr. Robert F. Clark and Wenli Cai for testing this PowerPoint demonstration and making many improvements.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>(Initial version of June 2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14, 2005 by WC. Final edits by RF Clark, July 22, 2005.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002.htm deleted file mode 100755 index 8627e129..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="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="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img border=0 src="slide0002_image002.png" style='position:absolute;top:8.3%; left:.39%;width:86.35%;height:86.21%'><img border=0 src="slide0002_image003.png" style='position:absolute;top:34.27%;left:59.07%;width:12.18%;height:14.48%'> <div style='position:absolute;top:46.64%;left:85.43%;width:16.29%;height:12.01%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=O style='position:absolute;top:2.94%;left:5.69%;width:93.49%; height:91.17%'> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:0%;left:0%; width:91.3%;height:51.61%'><span style='font-family:"Gill Sans";font-size:217%; color:#E9EB5D;mso-color-index:3'>Choose<br> </span></div> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%; left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>database</span></div> </div> </div> <div style='position:absolute;top:62.19%;left:86.62%;width:21.05%;height:12.72%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=O style='position:absolute;top:6.94%;left:5.03%;width:89.93%; height:86.11%'> <div style='position:absolute;top:0%;left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>Enter<br> </span></div> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%; left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'><i>APP</i></span><span style='font-family:"Gill Sans";font-size:250%;color:#E9EB5D;mso-color-index: 3;mso-special-format:lastCR;display:none'><i><br> </i></span></div> </div> </div> <div style='position:absolute;top:77.73%;left:85.96%;width:12.58%;height:12.72%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=O style='position:absolute;top:6.94%;left:8.42%;width:91.57%; height:86.11%'> <div style='position:absolute;top:0%;left:0%;width:91.95%;height:51.61%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>Select<br> </span></div> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:48.38%; left:0%;width:100.0%;height:51.61%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>search</span></div> </div> </div> <div style='position:absolute;top:.88%;left:0%;width:111.92%;height:9.18%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div style='position:absolute;top:0%;left:.94%;width:99.05%;height:80.76%'> <div class=B1 style='mso-margin-left-alt:644;mso-text-indent-alt:420'></div> <div class=B2 style='mso-margin-left-alt:937;mso-text-indent-alt:716'></div> <div class=B3 style='mso-margin-left-alt:1232;mso-text-indent-alt:1009'></div> <div class=B4 style='mso-margin-left-alt:1544;mso-text-indent-alt:1304'></div> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:0;position:absolute;top:0%;left:0%;width:100.0%;height: 100.0%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8; font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size: 106%;color:#E9EB5D;mso-color-index:3'>PART 1: How to study variation and covariation</span></div> </div> </div> <div style='position:absolute;top:15.54%;left:85.82%;width:16.15%;height:22.43%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=O style='mso-line-spacing:"-224 0 0";position:absolute;top:1.57%; left:6.55%;width:94.26%;height:94.48%'><span style='position:absolute; top:0%;left:0%;width:91.3%'><span style='font-family:"Gill Sans";font-size: 217%;color:#E9EB5D;mso-color-index:3'>Choose<span style="mso-spacerun: yes"> </span></span></span><span style='position:absolute;top:25.0%; left:0%;width:91.3%'><span style='font-family:"Gill Sans";font-size:217%; color:#E9EB5D;mso-color-index:3'>species, </span></span><span style='position: absolute;top:49.16%;left:0%;width:91.3%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>group, </span></span><span style='position:absolute;top:73.33%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>and type</span></span></div> </div> <img border=0 src="slide0002_image004.png" style='position:absolute;top:71.37%; left:48.87%;width:12.58%;height:13.78%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Please link to the web site:<span style="mso-spacerun: yes"> </span>http://www.genenetwork.org</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>To begin a search you make choices about what species, group, and database to explore.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>For this demonstration enter APP as above and click on the SEARCH button. Make sure that the DEFAULT SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and Database = INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. The GeneNetwork and WebQTL are often used to work with public data sets. However, it is possible to enter and analyze your own data for specific genetic reference populations such as the BXD genetic reference population of mice or the HXB strains of rat. Entering your own data is a more advanced topic, but if you click on the HOME pop-down menu (upper left), you will see ÒEnter Trait DataÓ that will explain the process.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>2.</font><font face=Helvetica size=3> For help on advanced searching methods read the left side of the page (INTRODUCTION).<span style="mso-spacerun: yes"> </span>If you make a search term too complex, you may get no hits (try entering Òamyloid betaÓ for example). If you make it too simple, you may also get too many.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>3.</font><font face=Helvetica size=3> Use the asterisk * as a wildcard. For example, to find all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>4.</font><font face=Helvetica size=3> In some cases you can also research for transcripts and genes using special search strings such as Ò</font><font face=Geneva size=3>Mb = (Chr1, 100 102)Ó to find all genes on Chromosome 1 between 98 and 104 megabases (donÕt actually use the quotes). Details are described at </font><font face=Verdana size=3>http://www.genenetwork.org/searchHelp.html</font><font face=Geneva size=3>.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>5.<span style="mso-spacerun: yes"> </span>These INFO buttons provide links to data about the different data types. Try them.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>6.<span style="mso-spacerun: yes"> </span>The SET TO DEFAULT button is used to change the database default setting to match your typical search categories.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image002.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image002.png deleted file mode 100755 index 2eb797be..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image002.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image003.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image003.png deleted file mode 100755 index d1370484..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image003.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image004.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image004.png deleted file mode 100755 index a4f088b8..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_image004.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_notes_pane.htm deleted file mode 100755 index 5f7740c5..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0002_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Please link to the web site:<span style="mso-spacerun: yes"> </span>http://www.genenetwork.org</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>To begin a search you make choices about what species, group, and database to explore.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>For this demonstration enter APP as above and click on the SEARCH button. Make sure that the DEFAULT SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and Database = INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>1. The GeneNetwork and WebQTL are often used to work with public data sets. However, it is possible to enter and analyze your own data for specific genetic reference populations such as the BXD genetic reference population of mice or the HXB strains of rat. Entering your own data is a more advanced topic, but if you click on the HOME pop-down menu (upper left), you will see ÒEnter Trait DataÓ that will explain the process.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>2.</font><font face=Helvetica size=2> For help on advanced searching methods read the left side of the page (INTRODUCTION).<span style="mso-spacerun: yes"> </span>If you make a search term too complex, you may get no hits (try entering Òamyloid betaÓ for example). If you make it too simple, you may also get too many.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>3.</font><font face=Helvetica size=2> Use the asterisk * as a wildcard. For example, to find all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>4.</font><font face=Helvetica size=2> In some cases you can also research for transcripts and genes using special search strings such as Ò</font><font face=Geneva color="#222222" size=2>Mb = (Chr1, 100 102)Ó to find all genes on Chromosome 1 between 98 and 104 megabases (donÕt actually use the quotes). Details are described at </font><font face=Verdana color=black size=2>http://www.genenetwork.org/searchHelp.html</font><font face=Geneva color="#222222" size=2>.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>5.<span style="mso-spacerun: yes"> </span>These INFO buttons provide links to data about the different data types. Try them.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>6.<span style="mso-spacerun: yes"> </span>The SET TO DEFAULT button is used to change the database default setting to match your typical search categories.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003.htm deleted file mode 100755 index 5507bd68..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0003.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img border=0 src="slide0003_image005.png" style='position:absolute;top:34.27%; left:59.07%;width:12.18%;height:14.48%'> <div style='position:absolute;top:.88%;left:.79%;width:105.69%;height:9.18%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div style='position:absolute;top:0%;left:1.0%;width:98.99%;height:80.76%'> <div class=B1 style='mso-margin-left-alt:644;mso-text-indent-alt:420'></div> <div class=B2 style='mso-margin-left-alt:937;mso-text-indent-alt:716'></div> <div class=B3 style='mso-margin-left-alt:1232;mso-text-indent-alt:1009'></div> <div class=B4 style='mso-margin-left-alt:1544;mso-text-indent-alt:1304'></div> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:0;position:absolute;top:0%;left:0%;width:100.0%;height: 100.0%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8; font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size: 106%;color:#E9EB5D;mso-color-index:3'>Please also use the Glossary, FAQ, and News</span></div> </div> </div> <img border=0 src="slide0003_image006.png" style='position:absolute;top:10.07%; left:1.72%;width:69.66%;height:60.95%'><img border=0 src="slide0003_image008.png" style='position:absolute;top:9.18%;left:18.8%; width:12.58%;height:13.78%'><img border=0 src="slide0003_image009.png" style='position:absolute;top:49.11%;left:38.27%;width:60.0%;height:48.58%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>SHORT DETOUR to the HELP menu. If you are new to the GeneNetwork, you may find it helpful to review the The Glossary and FAQ pages shown above. We are in the process of making ÒliveÓ demos for some of the key modules in the GeneNetwork. Check the NEWS every month or two to find out about new features.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image005.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image005.png deleted file mode 100755 index d1370484..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image005.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image006.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image006.png deleted file mode 100755 index c9843a48..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image006.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image008.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image008.png deleted file mode 100755 index 504177df..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image008.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image009.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image009.png deleted file mode 100755 index 901c77a0..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_image009.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_notes_pane.htm deleted file mode 100755 index b8742fdc..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0003_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>SHORT DETOUR to the HELP menu. If you are new to the GeneNetwork, you may find it helpful to review the The Glossary and FAQ pages shown above. We are in the process of making ÒliveÓ demos for some of the key modules in the GeneNetwork. Check the NEWS every month or two to find out about new features.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004.htm deleted file mode 100755 index ab2d96f6..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: Search results"> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0004.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -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_image010.png" style='position:absolute;top:9.18%; left:3.31%;width:68.74%;height:90.81%'><img border=0 src="slide0004_image012.png" style='position:absolute;top:63.78%;left:63.57%; width:14.7%;height:6.53%'> <div class=O style='position:absolute;top:45.93%;left:80.13%;width:18.94%; height:47.17%'> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:0%;left:0%; width:100.0%;height:44.94%'><span style='position:absolute;top:0%;left:0%; width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'>Highlight </span></span><span style='position:absolute; top:24.16%;left:0%;width:100.0%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>this probe </span></span><span style='position:absolute;top:49.16%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>set in red </span></span><span style='position:absolute;top:73.33%; left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%; color:#E9EB5D;mso-color-index:3'>and</span><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3;display:none'><i><br> </i></span></span></div> <div style='mso-line-spacing:"-224 0 0";position:absolute;top:43.82%; left:0%;width:100.0%;height:56.17%'><span style='position:absolute;top:0%; left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%; color:#E9EB5D;mso-color-index:3'>click. You </span></span><span style='position:absolute;top:20.0%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>do NOT </span></span><span style='position:absolute;top:39.33%;left:0%; width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'>have to </span></span><span style='position:absolute; top:59.33%;left:0%;width:100.0%'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>select the </span></span><span style='position:absolute;top:78.66%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3'>checkbox</span><span style='font-family:"Gill Sans";font-size:250%; color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR;display:none'><br> </span></span></div> </div> <div style='position:absolute;top:-4.41%;left:1.72%;width:84.63%;height:18.19%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=T style='position:absolute;top:29.12%;left:1.4%;width:97.18%; height:42.71%'><span style='font-size:82%'>Search results</span><span style='mso-special-format:lastCR;display:none'><br> </span></div> </div> </div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>RESULTS OF THE APP SEARCH.<span style="mso-spacerun: yes"> </span>A search of the INIA Brain database generates 18 matches, 10 of which are shown above. The GeneNetwork will display several hundred matches in pages of 40 each. If a search generates a larger numbers of hits, then you will need to refine search terms.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. APP is a great transcript to introduce you to the complexity and power of new array platforms that often provide ÒalternativeÓ expression estimates for single genes. There are seven probe sets that target different parts of the APP transcript. Which of the alternative measurements is most appropriate and informative? Have a look at the FAQ page for more on this topic, but general advice: 1. be skeptical and try to validate that the correct transcript and gene is being measured; 2. check what part of the transcript is complementary to the probes; 3. evaluate the performance of individual probes based on expression level, signal-to-noise and other error terms such as the standard deviation and error.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. In this particular case we have highlighted and selected # 5 on this SEARCH RESULTS page. The annotation for this probe set mentions that it targets the last three exons and the 3Õ untranslated region (UTR) of the amyloid precursor protein (APP).<span style="mso-spacerun: yes"> </span>That is just what we want.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. Most probe sets have not been annotated in as much detail as App. Refer tot the FAQ to learn how to annotate probe sets yourself.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image010.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image010.png deleted file mode 100755 index 08c136e3..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image010.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image012.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image012.png deleted file mode 100755 index b8e67f4d..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_image012.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm deleted file mode 100755 index f7336dcc..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0004_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>RESULTS OF THE APP SEARCH.<span style="mso-spacerun: yes"> </span>A search of the INIA Brain database generates 18 matches, 10 of which are shown above. The GeneNetwork will display several hundred matches in pages of 40 each. If a search generates a larger numbers of hits, then you will need to refine search terms.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>1. APP is a great transcript to introduce you to the complexity and power of new array platforms that often provide ÒalternativeÓ expression estimates for single genes. There are seven probe sets that target different parts of the APP transcript. Which of the alternative measurements is most appropriate and informative? Have a look at the FAQ page for more on this topic, but general advice: 1. be skeptical and try to validate that the correct transcript and gene is being measured; 2. check what part of the transcript is complementary to the probes; 3. evaluate the performance of individual probes based on expression level, signal-to-noise and other error terms such as the standard deviation and error.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. In this particular case we have highlighted and selected # 5 on this SEARCH RESULTS page. The annotation for this probe set mentions that it targets the last three exons and the 3Õ untranslated region (UTR) of the amyloid precursor protein (APP).<span style="mso-spacerun: yes"> </span>That is just what we want.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. Most probe sets have not been annotated in as much detail as App. Refer tot the FAQ to learn how to annotate probe sets yourself.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm deleted file mode 100755 index 53f61532..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0005.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'><img border=0 src="slide0005_image013.png" style='position:absolute;top:8.83%; left:2.51%;width:77.48%;height:80.56%'> <div style='position:absolute;top:1.06%;left:0%;width:108.21%;height:8.3%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:1.83%;width:98.16%; height:78.72%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'>First page of data: The Trait Data and Analysis Form</span><span style='font-size:106%;color:#E9EB5D; mso-color-index:3;mso-special-format:lastCR;display:none'><br> </span></div> </div> <img border=0 src="slide0005_image014.png" style='position:absolute;top:34.98%; left:68.74%;width:16.42%;height:9.71%'> <div style='position:absolute;top:23.32%;left:84.76%;width:16.68%;height:34.09%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=O style='position:absolute;top:2.07%;left:6.34%;width:93.65%; height:95.33%'><span style='position:absolute;top:0%;left:0%;width:90.67%'><span style='font-size:200%;color:#E9EB5D'><i>Click </i></span></span><span style='position:absolute;top:16.3%;left:0%;width:90.67%'><span style='font-size:200%;color:#E9EB5D'><i>here<br> </i></span></span> <div style='position:absolute;top:33.15%;left:0%;width:100.0%;height:16.84%'><span style='font-size:200%;color:#E9EB5D'><i>to learn<br> </i></span></div> <div style='position:absolute;top:49.45%;left:0%;width:90.67%;height:16.84%'><span style='font-size:200%;color:#E9EB5D'><i>about<br> </i></span></div> <div style='position:absolute;top:66.3%;left:0%;width:90.67%;height:16.84%'><span style='font-size:200%;color:#E9EB5D'><i>data<br> </i></span></div> <div style='position:absolute;top:83.15%;left:0%;width:90.67%;height:16.84%'><span style='font-size:200%;color:#E9EB5D'><i>source</i></span></div> </div> </div> </div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>The Trait Data and Analysis Form is the single most important page from the point of view of working with GeneNetwork data. Please read the text carefully. Explore the links, but do not close this page. We will need it many more times in this demonstration.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. What is this database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that actually mean. How much of the brain was used? How were the animals processed? Most of these types of questions can be answered by clicking on the DATABASE link.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. Transcript/gene LOCATION data is usually from the most recent assembly. You can VERIFY the location of the probes and probe set using the two VERIFY buttons. VERIFY UCSC performs a sequence alignment (BLAT analysis) of the probes to the most recent assembly.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. The PROBE TOOL button provides you with highly detailed information on the probe sequences used to assemble the probe set. For example, in this case you can find out which probes correspond to which of the three exons. You can also review the performance of the individual probes. Please check the GLOSSARY for additional details on probes.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>4. The identifiers (IDs) provide links to other key resources.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png deleted file mode 100755 index 55769e36..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image013.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image014.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image014.png deleted file mode 100755 index e49ba16e..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_image014.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_notes_pane.htm deleted file mode 100755 index fbe8c631..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0005_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>The Trait Data and Analysis Form is the single most important page from the point of view of working with GeneNetwork data. Please read the text carefully. Explore the links, but do not close this page. We will need it many more times in this demonstration.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>1. What is this database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that actually mean. How much of the brain was used? How were the animals processed? Most of these types of questions can be answered by clicking on the DATABASE link.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. Transcript/gene LOCATION data is usually from the most recent assembly. You can VERIFY the location of the probes and probe set using the two VERIFY buttons. VERIFY UCSC performs a sequence alignment (BLAT analysis) of the probes to the most recent assembly.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. The PROBE TOOL button provides you with highly detailed information on the probe sequences used to assemble the probe set. For example, in this case you can find out which probes correspond to which of the three exons. You can also review the performance of the individual probes. Please check the GLOSSARY for additional details on probes.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>4. The identifiers (IDs) provide links to other key resources.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006.htm deleted file mode 100755 index fa44d20c..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0006.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:-1.06%;left:0%;width:100.26%;height:10.07%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:1.98%;width:96.82%; height:73.68%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Data sources: Metadata for each resource</span></div> </div> <img border=0 src="slide0006_image015.png" style='position:absolute;top:6.71%; left:3.31%;width:60.39%;height:92.22%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Most of the database components and resources in The GeneNetwork are linked to metadata pages that provide a human-readable summary of how, why, where, when, and with whom the data were generated. Before you get too involved with a data set, it is naturally important to read this information. While the data in The GeneNetwork may be accessible and useful, that does not always mean that the data is public domain and available for you to use in publication or for profit purposes. If you want to know more about the data ownership and usage, please read through the POLICIES pop-down menu items.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png deleted file mode 100755 index ff7d776a..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_image015.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_notes_pane.htm deleted file mode 100755 index f29819ad..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0006_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Most of the database components and resources in The GeneNetwork are linked to metadata pages that provide a human-readable summary of how, why, where, when, and with whom the data were generated. Before you get too involved with a data set, it is naturally important to read this information. While the data in The GeneNetwork may be accessible and useful, that does not always mean that the data is public domain and available for you to use in publication or for profit purposes. If you want to know more about the data ownership and usage, please read through the POLICIES pop-down menu items.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007.htm deleted file mode 100755 index a30b21f1..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0007.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:-.35%;left:-.79%;width:109.13%;height:7.42%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:1.82%;width:98.17%; height:88.09%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'>Expression estimates for </span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'> on the Trait Data form</span><span style='font-size:81%;color:#E9EB5D;mso-color-index:3'> </span></div> </div> <div style='position:absolute;top:81.09%;left:2.51%;width:110.46%;height:11.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=O style='position:absolute;top:7.69%;left:.83%;width:99.16%; height:84.61%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><span style='font-family:"Gill Sans";font-size:183%;color:#E9EB5D;mso-color-index: 3'>Trait data for each strain with SE when known. For array data the scale is </span></span><span style='position:absolute;top:49.09%;left:0%;width:84.28%'><span style='font-family:"Gill Sans";font-size:183%;color:#E9EB5D;mso-color-index: 3'>~ log base 2.<span style="mso-spacerun: yes"> </span></span><span style='font-size:167%;color:#E9EB5D;mso-color-index:3'>F1 data = 16.723 = 2^16.723 = 108,174</span></span></div> </div> <img border=0 src="slide0007_image016.png" style='position:absolute;top:7.77%; left:2.51%;width:51.65%;height:72.26%'><img border=0 src="slide0007_image017.png" style='position:absolute;top:33.92%;left:57.88%; width:30.72%;height:13.42%'> <div style='position:absolute;top:47.7%;left:57.48%;width:36.29%;height:18.9%; filter:DropShadow(Color=#000000, OffX=2, OffY=1)'> <div class=O style='position:absolute;top:3.73%;left:2.91%;width:97.08%; height:96.26%'><span style='position:absolute;top:0%;left:0%;width:96.24%'><span style='font-size:167%;color:#E9EB5D;mso-color-index:3'>These values can all </span></span><span style='position:absolute;top:25.24%;left:0%;width:93.98%'><span style='font-size:167%;color:#E9EB5D;mso-color-index:3'>be changed by the </span></span><span style='position:absolute;top:49.51%;left:0%;width:100.0%'><span style='font-size:167%;color:#E9EB5D;mso-color-index:3'>user. (Yes, there is a </span></span><span style='position:absolute;top:74.75%;left:0%;width:93.98%'><span style='font-size:167%;color:#E9EB5D;mso-color-index:3'>RESET)</span></span></div> </div> </div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>This slide shows you the lower parts of the Trait Data and Analysis Form with the data for the first set of BXD strains</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image016.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image016.png deleted file mode 100755 index 53a17c76..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image016.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image017.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image017.png deleted file mode 100755 index 308c4df0..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_image017.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_notes_pane.htm deleted file mode 100755 index f5bc813e..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0007_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>This slide shows you the lower parts of the Trait Data and Analysis Form with the data for the first set of BXD strains</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm deleted file mode 100755 index c0fa9166..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0008.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:.53%;left:.79%;width:98.54%;height:8.12%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:2.01%;width:96.9%; height:91.3%'><span style='mso-special-format:nobullet;display:none;color:#FBFDB8; font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size: 106%;color:#E9EB5D;mso-color-index:3'>Critiquing the </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> data the Trait Data</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></div> </div> <div style='position:absolute;top:74.38%;left:2.51%;width:110.86%;height:13.78%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=O style='position:absolute;top:6.41%;left:.83%;width:99.16%; height:88.46%'><span style='position:absolute;top:0%;left:0%;width:98.55%'><span style='font-family:"Gill Sans";font-size:150%;color:#E9EB5D;mso-color-index: 3'>Use the BASIC STATISTICS button to evaluate the App data. You will find that App data </span></span><span style='position:absolute;top:31.88%;left:0%; width:100.0%'><span style='font-family:"Gill Sans";font-size:150%;color:#E9EB5D; mso-color-index:3'>from the different strains are not equally trustworthy. BXD8 is an obvious outlier without </span></span><span style='position:absolute; top:63.76%;left:0%;width:93.85%'><span style='font-family:"Gill Sans"; font-size:150%;color:#E9EB5D;mso-color-index:3'>replication (no error bar)</span><span style='font-size:150%;color:#E9EB5D;mso-color-index:3'>. BXD33 is also suspiciously low. BXD5 is noisy. </span><span style='font-family:"Gill Sans"; font-size:150%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></span></div> </div> <img border=0 src="slide0008_image018.png" style='position:absolute;top:7.77%; left:2.11%;width:16.02%;height:18.72%'><img border=0 src="slide0008_image019.png" style='position:absolute;top:8.3%;left:18.27%; width:73.37%;height:66.07%'><img border=0 src="slide0008_image021.png" style='position:absolute;top:87.27%;left:59.6%;width:30.72%;height:13.42%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>The Basic Statistics page allows you to evaluate some aspects of the data quality. In this case, BXD8 is a potential problem. An outlier of this type may be generated by a technical artifact (bad sample?). However, it is also possible that BXD8 just has genuine low endogenous expression of App and may therefore be a particularly valuable model for research. There are different ways to treat problematic data of these types. One way is simply to discard this datum. The other way is to prevent outliers from have too much influence quantitatively, while leaving them in their low (or high positions). This is called windsorizing the data (after King Henry the VIII who had a habit of chopping heads). In this case, we have windsorized the BXD8 to a value of 16.0 and the BXD33 to a value of 16.02. Rank is retained. We are making a bet that the two lowest strains are really low, but we are hedging our bet and just making them a little lower than BXD90. This removes their ÒundueÓ influence.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. It turns out that BXD8 is a strain with many odd phenotypes. The whole strain is essentially an outlier for many traits. Therefore, the low App expression data may be quite accurate. Still, it would be comforting to have at least two more replicates.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image018.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image018.png deleted file mode 100755 index 9535e6bb..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image018.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image019.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image019.png deleted file mode 100755 index 7e86d735..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image019.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image021.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image021.png deleted file mode 100755 index 2f8dfb0a..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_image021.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm deleted file mode 100755 index 455928c7..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0008_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>The Basic Statistics page allows you to evaluate some aspects of the data quality. In this case, BXD8 is a potential problem. An outlier of this type may be generated by a technical artifact (bad sample?). However, it is also possible that BXD8 just has genuine low endogenous expression of App and may therefore be a particularly valuable model for research. There are different ways to treat problematic data of these types. One way is simply to discard this datum. The other way is to prevent outliers from have too much influence quantitatively, while leaving them in their low (or high positions). This is called windsorizing the data (after King Henry the VIII who had a habit of chopping heads). In this case, we have windsorized the BXD8 to a value of 16.0 and the BXD33 to a value of 16.02. Rank is retained. We are making a bet that the two lowest strains are really low, but we are hedging our bet and just making them a little lower than BXD90. This removes their ÒundueÓ influence.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>1. It turns out that BXD8 is a strain with many odd phenotypes. The whole strain is essentially an outlier for many traits. Therefore, the low App expression data may be quite accurate. Still, it would be comforting to have at least two more replicates.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009.htm deleted file mode 100755 index 2daff7ac..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0009.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:0%;left:1.72%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:96.6%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> expression after windsorizing</span></div> </div> <img border=0 src="slide0009_image022.png" style='position:absolute;top:8.83%; left:2.51%;width:94.17%;height:83.74%'></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>Now we get a much better feel for the variation in the error among the cases. Those without error bars are of course the ÒnoisiestÓ of all. This data set is not complete yet (the aim is to acquire at least one male-female sample for each BXD strain).</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_image022.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_image022.png deleted file mode 100755 index e03c35ed..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_image022.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_notes_pane.htm deleted file mode 100755 index b2f9f9f2..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0009_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Now we get a much better feel for the variation in the error among the cases. Those without error bars are of course the ÒnoisiestÓ of all. This data set is not complete yet (the aim is to acquire at least one male-female sample for each BXD strain).</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010.htm deleted file mode 100755 index 4d02c34e..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0010.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:0%;left:.79%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:97.45%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Discovering shared expression patterns</span></div> </div> <img border=0 src="slide0010_image023.png" style='position:absolute;top:10.07%; left:3.31%;width:94.17%;height:37.27%'><img border=0 src="slide0010_image024.png" style='position:absolute;top:38.86%;left:61.72%; width:13.77%;height:14.84%'></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>Finally, we can now start an analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>We ask a simple question:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Do differences in this particular App transcript steady-state abundance level correlate with those of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>You can CHOOSE many other DATABASES at this point if you want, but for now letÕs stick with the default.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. There are different ways to sort the correlations. The most obvious is by p-value (most significant values at the top of the list), but it is also interesting to sort the top 100 or top 500 by their gene symbol (gene ID) or by their chromosomal location (position).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. If you donÕt want your analysis to be sensitive to outliers, then you may want to choose to use the Spearman Rank Order method of calculating correlations.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png deleted file mode 100755 index 1d32d035..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image023.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png deleted file mode 100755 index 152e5045..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_image024.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm deleted file mode 100755 index 3d3f0e48..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0010_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Finally, we can now start an analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>We ask a simple question:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Do differences in this particular App transcript steady-state abundance level correlate with those of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Helvetica size=2>You can CHOOSE many other DATABASES at this point if you want, but for now letÕs stick with the default.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. There are different ways to sort the correlations. The most obvious is by p-value (most significant values at the top of the list), but it is also interesting to sort the top 100 or top 500 by their gene symbol (gene ID) or by their chromosomal location (position).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. If you donÕt want your analysis to be sensitive to outliers, then you may want to choose to use the Spearman Rank Order method of calculating correlations.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011.htm deleted file mode 100755 index 362057fc..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0011.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:.35%;left:-.79%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:96.6%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Transcript neighborhoods</span></div> </div> <img border=0 src="slide0011_image025.png" style='position:absolute;top:7.77%; left:2.51%;width:85.82%;height:91.87%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>The Traits Correlation output window (Correlation Results) compares App expression data with all other traits in this INIA Brain data set. The most significant 100 or 500 transcripts are sorted by their p-values. The top correlation is that of the probe set to itself (often a value of 1.0, but in this case we modified the App values manually by windsorizing the data). The next best correlation is to another App probe set. The fourth correlation is interesting and suggests that there may be a link between App and a particular type of ataxia (Atcay).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>Use the checkboxes to the far left to select traits that you want to study together. Once you have selected interesting traits, click on the ADD SELECTION button. This puts all of the selected traits into a SELECTIONS WINDOW for other types of analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. The p-value is not corrected for multiple tests. A conservative approach for array data would be to assume 10,000 nominally independent tests. Subtract 4 from the exponent and if the value is still smaller than 0.05 you may have a real correlation.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. The LITERATURE CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael Berry. Click on the header column by the asterisk for more information on this highly useful data type.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>4. We are using Pearson product moment correlations rather that the Spearman rank order correlation. But you can select either in the previous step.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png deleted file mode 100755 index d29a333f..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_image025.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm deleted file mode 100755 index 1f0dd0d1..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0011_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>The Traits Correlation output window (Correlation Results) compares App expression data with all other traits in this INIA Brain data set. The most significant 100 or 500 transcripts are sorted by their p-values. The top correlation is that of the probe set to itself (often a value of 1.0, but in this case we modified the App values manually by windsorizing the data). The next best correlation is to another App probe set. The fourth correlation is interesting and suggests that there may be a link between App and a particular type of ataxia (Atcay).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Helvetica size=2>Use the checkboxes to the far left to select traits that you want to study together. Once you have selected interesting traits, click on the ADD SELECTION button. This puts all of the selected traits into a SELECTIONS WINDOW for other types of analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. The p-value is not corrected for multiple tests. A conservative approach for array data would be to assume 10,000 nominally independent tests. Subtract 4 from the exponent and if the value is still smaller than 0.05 you may have a real correlation.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. The LITERATURE CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael Berry. Click on the header column by the asterisk for more information on this highly useful data type.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>4. We are using Pearson product moment correlations rather that the Spearman rank order correlation. But you can select either in the previous step.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm deleted file mode 100755 index 4f1cf425..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="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; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:.35%;left:1.72%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:2.12%;width:96.6%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> and </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>Atcay</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript scatterplot </span></div> </div> <img border=0 src="slide0012_image026.png" style='position:absolute;top:8.48%; left:5.03%;width:66.22%;height:91.16%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>By clicking on the CORRELATION of the Atcay transcript to the App transcript, you can generate a Correlation plot between these two transcripts. In this App and Atcay scatterplot, each point is a strain mean value. For example, BXD33 and BXD8 have low App and Atcay expressions. The two parental strains and the F1 are also included in this plot.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png deleted file mode 100755 index a0675ffc..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_image026.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm deleted file mode 100755 index c13d07ec..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0012_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>By clicking on the CORRELATION of the Atcay transcript to the App transcript, you can generate a Correlation plot between these two transcripts. In this App and Atcay scatterplot, each point is a strain mean value. For example, BXD33 and BXD8 have low App and Atcay expressions. The two parental strains and the F1 are also included in this plot.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm deleted file mode 100755 index 5aa623bf..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0013.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:.35%;left:.79%;width:99.47%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:348; mso-text-indent-alt:56;position:absolute;top:0%;left:1.99%;width:96.8%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript and eight of its neighbors</span></div> </div> <img border=0 src="slide0013_image027.png" style='position:absolute;top:9.71%; left:2.51%;width:83.84%;height:90.1%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>A group of traits from many different databases can be selected and brought together for joint analysis. In this case all of the content of the BXD SELECTIONS is from a single BRAIN database, the top 20 neighbors of the App transcript from the Correlation Results table. Eight of these neighbors plus App is shown in the slide.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>All of items in the BXD SELECTIONS were selected using the SELECT ALL button</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. The buttons at the top (and bottom) of this page can do some cool stuff. We will work with NETWORK GRAPH first.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. Think of the SELECTIONS as your shopping cart. You go to different aisles in the supermarket to acquire different types of items of interest. These could include transcripts, classical phenotypes (longevity, brain weight, prepulse inhibition, iron levels in midbrain). 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> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png deleted file mode 100755 index ba473846..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_image027.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm deleted file mode 100755 index 4d56b194..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0013_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>A group of traits from many different databases can be selected and brought together for joint analysis. In this case all of the content of the BXD SELECTIONS is from a single BRAIN database, the top 20 neighbors of the App transcript from the Correlation Results table. Eight of these neighbors plus App is shown in the slide.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Helvetica size=2>All of items in the BXD SELECTIONS were selected using the SELECT ALL button</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. The buttons at the top (and bottom) of this page can do some cool stuff. We will work with NETWORK GRAPH first.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. Think of the SELECTIONS as your shopping cart. You go to different aisles in the supermarket to acquire different types of items of interest. These could include transcripts, classical phenotypes (longevity, brain weight, prepulse inhibition, iron levels in midbrain). 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> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm deleted file mode 100755 index 156a5132..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: App transcript coexpression neighborhood"> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0014.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:82.15%;left:4.1%;width:96.15%;height:18.19%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'></div> <div style='position:absolute;top:-2.29%;left:.79%;width:105.43%;height:12.54%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=T style='position:absolute;top:19.71%;left:1.25%;width:98.74%; height:61.97%'><span style='font-size:82%'><i>App</i></span><span style='font-size:82%'> transcript coexpression neighborhood</span><span style='mso-special-format:lastCR;display:none'><br> </span></div> </div> <img border=0 src="slide0014_image029.png" style='position:absolute;top:37.8%; left:1.72%;width:97.48%;height:62.19%'><img border=0 src="slide0014_image031.png" style='position:absolute;top:11.13%;left:1.72%; width:79.47%;height:25.44%'><img border=0 src="slide0014_image033.png" style='position:absolute;top:10.6%;left:81.32%;width:18.8%;height:9.89%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Output of the Network Graph. Warm colors (orange and red) are positive correlations above 0.5 whereas cool colors (green and blue) are negative correlations. Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3> All of the nodes (gene/transcripts) on this graph are clickable.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. For this graph the App expression values have 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> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png deleted file mode 100755 index 8f560834..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image029.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png deleted file mode 100755 index 8d72b4c1..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image031.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png deleted file mode 100755 index c1cd1c01..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_image033.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm deleted file mode 100755 index 728a1a82..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0014_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Output of the Network Graph. Warm colors (orange and red) are positive correlations above 0.5 whereas cool colors (green and blue) are negative correlations. Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Helvetica size=2> All of the nodes (gene/transcripts) on this graph are clickable.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. For this graph the App expression values have ÒrevertedÓ to their pre-Windsorized values.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>3. To generate this graph, we used the default setting:<span style="mso-spacerun: yes"> </span>Size of 16 by 16 inches; Gene Symbols; Don't Show Correlations; Use curved lines (aka ÒedgesÓ).</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm deleted file mode 100755 index c2a26be3..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0015.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:0%;left:.79%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292; mso-text-indent-alt:0;position:absolute;top:0%;left:1.13%;width:97.59%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Correlations of </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> with classical traits</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></div> </div> <img border=0 src="slide0015_image034.png" style='position:absolute;top:28.97%; left:4.1%;width:78.27%;height:70.84%'><img border=0 src="slide0015_image035.png" style='position:absolute;top:8.12%;left:4.1%;width:33.5%;height:19.61%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Going back to the Trait Data and Analysis Form window, we have computed the correlations between strain variation in App expression level and other classical phenotypes that have already been measured in many of the same BXD strains.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>The number of common strains varies widely--in this case from 14 to 23 strains.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. We can add these traits (four are selected) to our BXD SELECTIONS window.</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png deleted file mode 100755 index dafa2898..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image034.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png deleted file mode 100755 index 35566d47..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_image035.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm deleted file mode 100755 index 373646fe..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0015_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Going back to the Trait Data and Analysis Form window, we have computed the correlations between strain variation in App expression level and other classical phenotypes that have already been measured in many of the same BXD strains.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=2>1.</font><font face=Helvetica size=2>The number of common strains varies widely--in this case from 14 to 23 strains.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>2. We can add these traits (four are selected) to our BXD SELECTIONS window.</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm deleted file mode 100755 index 9432ca4c..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0016.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:0%;left:.79%;width:99.47%;height:10.24%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292; mso-text-indent-alt:0;position:absolute;top:0%;left:1.06%;width:98.66%; height:72.41%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Network Graph of </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> with classical traits</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></div> </div> <img border=0 src="slide0016_image036.png" style='position:absolute;top:8.3%; left:3.31%;width:88.21%;height:90.63%'></div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>We have computed the Network Graph, now using other types of traits.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Saline Hot Plate Latency is the green node labeled 10020.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Freezing (fear) is the green node labeled 10447.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png deleted file mode 100755 index baa1d807..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_image036.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm deleted file mode 100755 index c2a078c5..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0016_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>We have computed the Network Graph, now using other types of traits.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Saline Hot Plate Latency is the green node labeled 10020.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Freezing (fear) is the green node labeled 10447.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=2>Notes:</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm deleted file mode 100755 index afb498b8..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0017.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0017.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:1.41%;left:3.31%;width:93.64%;height:14.48%; filter:DropShadow(Color=#000000, OffX=1, OffY=1)'> <div class=B style='mso-line-spacing:"-220 0 -216";mso-margin-left-alt:292; mso-text-indent-alt:0;position:absolute;top:0%;left:1.13%;width:97.59%; height:51.21%'><span style='mso-special-format:nobullet;display:none; color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Summary of Part 1:</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></div> </div> <div style='position:absolute;top:10.77%;left:8.47%;width:100.79%;height:47.87%'> <div class=O1 style='mso-margin-left-alt:432'></div> <div class=O2 style='mso-margin-left-alt:720'></div> <div class=O3 style='mso-margin-left-alt:1008'></div> <div class=O4 style='mso-margin-left-alt:1296'></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:0%; left:0%;width:90.14%;height:11.07%'><span style='position:absolute;top:0%; left:2.76%;width:97.23%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-2.84%;font-family:Arial'>1.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You have learned the basics about searching for traits<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:11.43%; left:0%;width:84.88%;height:11.07%'><span style='position:absolute;top:0%; left:2.94%;width:97.05%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-3.03%;font-family:Arial'>2.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You know some methods to check data quality<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:22.5%; left:0%;width:84.88%;height:11.07%'><span style='position:absolute;top:0%; left:2.94%;width:97.05%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-3.03%;font-family:Arial'>3.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You know how to edit bad or suspicious data<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:33.57%; left:0%;width:90.01%;height:11.07%'><span style='position:absolute;top:0%; left:2.77%;width:97.22%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-2.85%;font-family:Arial'>4.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You know how to review the basic statistics of a trait<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:44.64%; left:0%;width:93.56%;height:22.14%'><span style='position:absolute;top:0%; left:2.66%;width:97.33%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-2.74%;font-family:Arial'>5.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You know how to generate a scattergram between two </span></span><span style='position:absolute; top:50.0%;left:2.66%;width:88.06%'><span style='font-family:"Gill Sans"; font-size:200%;color:#E9EB5D;mso-color-index:3'>traits using the Traits Correlation tool<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:66.78%; left:0%;width:100.0%;height:11.07%'><span style='position:absolute;top:0%; left:2.49%;width:97.5%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-2.56%;font-family:Arial'>6.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </span>You know how to add items to your SELECTIONS window<br> </span></span></div> <div class=O style='mso-margin-left-alt:144;position:absolute;top:77.85%; left:0%;width:99.34%;height:22.14%'><span style='position:absolute;top:0%; left:2.51%;width:97.48%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D;mso-color-index:3'><span style='mso-special-format:"numbullet3\,1"; position:absolute;left:-2.57%;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><span style='position:absolute; top:51.66%;left:2.51%;width:82.93%'><span style='font-family:"Gill Sans"; font-size:200%;color:#E9EB5D;mso-color-index:3'>co-vary. </span></span></div> </div> <div class=O style='position:absolute;top:67.31%;left:5.96%;width:105.29%; height:26.5%'><span style='position:absolute;top:0%;left:0%;width:100.0%'><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><span style='position:absolute;top:20.0%;left:0%;width:96.1%'><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><span style='position:absolute;top:40.0%;left:0%;width:95.97%'><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><span style='position:absolute;top:60.66%;left:0%;width:87.92%'><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'>experimental design. Evaluate the biological plausibility of </span></span><span style='position:absolute;top:80.66%;left:0%;width:85.28%'><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'>correlations. Test and be 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_part1.ppt_files/slide0018.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018.htm deleted file mode 100755 index e1ee283b..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018.htm +++ /dev/null @@ -1,25 +0,0 @@ -<html> <head> <meta http-equiv=Content-Type content="text/html; charset=macintosh"> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: Contact for comments and improvements:"> <link rel=Stylesheet href="master03_stylesheet.css"> <style media=print> <!--.sld {left:0px !important; width:6.0in !important; height:4.5in !important; font-size:76% !important;} --> </style> <script language=JavaScript src=script.js></script><script language=JavaScript><!-- -gId="slide0018.htm" -if ( !parent.base.g_done && (parent.base.msie < 0 ) ) { - parent.base.g_done = 1; - document.location.replace( parent.base.GetHrefObj(parent.base.g_currentSlide).m_slideHref); -} -if( !IsNts() ) Redirect( "PPTSld", gId ); -var g_hasTrans = true, g_autoTrans = false, g_transSecs = 1; -//--> -</script><script for=window event=onload language=JavaScript><!-- -if( !IsSldOrNts() ) return; -if( MakeNotesVis() ) return; -LoadSld( gId ); -playList();MakeSldVis(1); -//--> -</script> </head> <body style='margin:0px;background-color:black' onclick="DocumentOnClick(event)" onresize="_RSW()" onkeypress="_KPH(event)"> <div id=SlideObj class=sld style='position:absolute;top:0px;left:0px; width:755px;height:566px;font-size:16px;background-color:#484848;clip:rect(0%, 101%, 101%, 0%); visibility:hidden'><img src="master03_background.png" v:shapes="_x0000_s1026" style='position:absolute;top:0%;left:0%;width:100.0%;height:100.0%'> <div style='position:absolute;top:2.29%;left:2.51%;width:94.43%;height:9.89%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:19.64%; left:1.4%;width:97.47%;height:69.64%'><span style='font-size:73%'><i>Contact for comments and improvements:</i></span><span style='font-size:82%;mso-special-format: lastCR;display:none'><br> </span></div> </div> <div style='position:absolute;top:16.6%;left:6.62%;width:90.19%;height:24.38%; filter:DropShadow(Color=#000000, OffX=2, OffY=2)'> <div class=T style='mso-line-spacing:"-358 0 -1";position:absolute;top:0%; left:1.46%;width:97.35%;height:100.0%'><span style='position:absolute; top:0%;left:0%;width:100.0%'><span style='font-size:82%'>rwilliam@nb.utmem.edu<br> </span></span><span style='position:absolute;top:34.05%;left:4.67%;width:95.47%'><span style='font-size:82%'><br> </span></span><span style='position:absolute; top:68.11%;left:4.67%;width:95.47%'><span style='font-size:82%;mso-special-format: lastCR;display:none'><br> </span></span></div> </div> <div class=O style='position:absolute;top:27.56%;left:9.4%;width:50.59%; height:7.77%'><span style='font-family:"Gill Sans";font-size:300%;color:#E9EB5D'>kmanly@utmem.edu</span></div> <div class=O style='position:absolute;top:83.56%;left:4.37%;width:108.34%; height:15.9%'><span style='position:absolute;top:0%;left:0%;width:90.83%'><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'>The </span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'><i>App</i></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D'> findings reviewed in this presentation are part of an </span></span><span style='position:absolute; top:33.33%;left:0%;width:100.0%'><span style='font-family:"Gill Sans"; font-size:200%;color:#E9EB5D'>ongoing study by R. Williams. R. Homayouni, and R. Clark (July 15, </span></span><span style='position:absolute;top:66.66%; left:0%;width:84.35%'><span style='font-family:"Gill Sans";font-size:200%; color:#E9EB5D'>2005)</span><span style='font-family:"Gill Sans";font-size:300%; color:#E9EB5D;mso-special-format:lastCR;display:none'><br> </span></span></div> </div> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>END</font><br> </td> </tr> </table> </div> <script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image037.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image037.png deleted file mode 100755 index a1cb20e4..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image037.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image038.png b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image038.png deleted file mode 100755 index e06bd0db..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_image038.png +++ /dev/null Binary files differdiff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_notes_pane.htm deleted file mode 100755 index e2cb435a..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0018_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=2>END</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019.htm deleted file mode 100755 index e6b8658d..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019.htm +++ /dev/null @@ -1,153 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: GeneNetwork and WebQTL:"> <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("slide0019.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 = 0.03 * g_width; myheight = 0.09 * g_height; mywidth = 0.84 * 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 = 0.09 * g_height; mywidth = 0.82 * 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; mso-text-indent-alt:0;mso-line-spacing:"-277 0 -1";mso-margin-left-alt:232; mso-text-indent-alt:0'><span style='font-size:105%'><i>GeneNetwork and WebQTL:</i></span><span style='font-size:68%;mso-special-format:lastCR;display:none'><i><br> </i></span></div> </layer></div> </layer><script> - mytop = 0.24 * g_height; myleft = 0.05 * g_width; myheight = 0.5 * g_height; mywidth = 0.69 * 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 = 0.36 * g_height; mywidth = 0.67 * 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:#FBFDB8;font-size:213%; mso-text-raise:0%'><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.19 * g_height; mywidth = 0.62 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt: 56'><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.62 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script><span 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:106%;color:#E9EB5D;mso-color-index:3'>Part 1: How to study </span></span></layer><script> - mytop = 0.06 * g_height; myleft = 0.05 * g_width; myheight = 0.07 * g_height; mywidth = 0.57 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script><span style='text-align:left'><span style='font-size:106%;color:#E9EB5D;mso-color-index: 3'>expression variation and </span></span></layer><script> - mytop = 0.11 * g_height; myleft = 0.05 * g_width; myheight = 0.07 * g_height; mywidth = 0.57 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script><span style='text-align:left'><span style='font-size:106%;color:#E9EB5D;mso-color-index: 3'>covariation (slides 2–16)<br> </span></span></layer></div> </layer><script> - mytop = 0.22 * g_height; myleft = 0 * g_width; myheight = 0.13 * g_height; mywidth = 0.67 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-256 0 -216";mso-margin-left-alt:348;mso-text-indent-alt: 56'><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.67 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); 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Discovering upstream </span></span></layer><script> - mytop = 0.06 * g_height; myleft = 0.05 * g_width; myheight = 0.07 * g_height; mywidth = 0.59 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script><span style='text-align:left'><span style='font-size:106%;color:#E9EB5D;mso-color-index: 3'>modulators (slides 17–30)</span><span style='font-size:94%;color:#E9EB5D; mso-color-index:3;mso-special-format:lastCR;display:none'><br> </span></span></layer></div> </layer></div> </layer></div> </layer><script> - mytop = 0.21 * g_height; myleft = 0.74 * g_width; myheight = 0.64 * g_height; mywidth = 0.23 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.74 * g_width; -yy = 0.21 * g_height; -ht = 0.64 * g_height; -wd = 0.23 * g_width; -document.write( -'<img border=0 src="slide0001_image001.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.79 * g_height; myleft = 0.75 * g_width; myheight = 0.14 * g_height; mywidth = 0.1 * 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 = 0.1 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <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> </layer><script> - mytop = 0.06 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 0.08 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <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:300%;color:#6E6E6E; mso-special-format:lastCR;display:none'><br> </span></div> </layer></div> </layer><script> - mytop = 0.66 * g_height; myleft = 0.03 * g_width; myheight = 0.11 * g_height; mywidth = 0.8 * 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 = 0.8 * 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:217%; color:#E9EB5D;mso-color-index:3'><i>PowerPoint ÒNormal viewÓ has notes that may be </i></span></span></layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.69 * 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:217%; color:#E9EB5D;mso-color-index:3'><i>useful companions to these slides.</i></span><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3;mso-special-format:lastCR;display:none'><br> </span></span></layer></div> </layer><script> - mytop = 0.1 * g_height; myleft = 0.06 * g_width; myheight = 0.07 * g_height; mywidth = 0.55 * 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:283%; color:#E9EB5D'><i>a PowerPoint Presentation</i></span><span style='font-family: "Gill Sans";font-size:317%;color:#E9EB5D;mso-special-format:lastCR;display: none'><i><br> </i></span></div> </layer><script> - mytop = 0.92 * g_height; myleft = 0.75 * g_width; myheight = 0.03 * g_height; mywidth = 0.26 * 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:Helvetica;font-size:167%; color:#E9EB5D'><i>RWW 07.23.2005</i></span></div> </layer><script> - mytop = 0.81 * g_height; myleft = 0.03 * g_width; myheight = 0.11 * g_height; mywidth = 0.77 * 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 = 0.68 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'><i>You can also download this PowerPoint at<br> </i></span></div> </layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.77 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'><i>ftp://atlas.utmem.edu/public/webqtl_demo2.ppt </i></span><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D;mso-color-index: 3;mso-special-format:lastCR;display:none'><br> </span></div> </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>Welcome to a short demonstration of the GeneNetwork and its WebQTL module. Please adjust the size of the windows on your monitor so that you can see part of this page, as well as GeneNetwork windows. WebQTL produces a large number of new windows, so you may need to modify your browser preferences to permit pop-ups. In this demonstration, we explore one important transcript expressed in the brain: the amyloid beta precursor protein messenger RNA. A protein product of this mRNA, the APP protein, is associated with AlzheimerÕs disease.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>My thanks to Dr. Robert F. Clark and Wenli Cai for testing this PowerPoint demonstration and making many improvements.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>(Initial version of June 2003 by Rob Williams. Edits July 13, 2005 by RW and RFC. Edit July 14, 2005 by WC. Final edits by RF Clark, July 22, 2005.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019_notes_pane.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019_notes_pane.htm deleted file mode 100755 index e2cb435a..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0019_notes_pane.htm +++ /dev/null @@ -1,5 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <link id=Main-File rel=Main-File href="webqtl_demo2_part1.ppt.htm"> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> </head> <body bgcolor=black text=white> <table border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=2>END</font><br> </td> </tr> </table> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0020.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0020.htm deleted file mode 100755 index da8b9759..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0020.htm +++ /dev/null @@ -1,172 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); 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- 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 = 0.08 * g_height; myleft = 0 * g_width; myheight = 0.86 * g_height; mywidth = 0.86 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0 * g_width; -yy = 0.08 * g_height; -ht = 0.86 * g_height; -wd = 0.86 * g_width; -document.write( -'<img border=0 src="slide0002_image002.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.34 * g_height; myleft = 0.59 * g_width; myheight = 0.14 * g_height; mywidth = 0.12 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.59 * g_width; -yy = 0.34 * g_height; -ht = 0.14 * g_height; -wd = 0.12 * g_width; -document.write( -'<img border=0 src="slide0002_image003.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.46 * g_height; myleft = 0.85 * 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 * g_width; myheight = 0.1 * 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 = 0.05 * g_height; mywidth = 0.13 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-224 0 0"'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>Choose<br> </span></div> </layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.15 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-224 0 0"'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>database</span></div> </layer></div> </layer></div> </layer><script> - mytop = 0.62 * g_height; myleft = 0.86 * 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><script> - mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.1 * 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 = 0.05 * g_height; mywidth = 0.18 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'>Enter<br> </span></div> </layer><script> - mytop = 0.05 * g_height; myleft = 0 * 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='mso-line-spacing:"-224 0 0"'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'><i>APP</i></span><span style='font-family:"Gill Sans";font-size:250%;color:#E9EB5D;mso-color-index: 3;mso-special-format:lastCR;display:none'><i><br> </i></span></div> </layer></div> </layer></div> </layer><script> - mytop = 0.77 * g_height; myleft = 0.85 * g_width; myheight = 0.12 * g_height; mywidth = 0.12 * 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 = 0.11 * 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 = 0.05 * g_height; mywidth = 0.1 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><span style='font-family:"Gill Sans";font-size:217%;color:#E9EB5D; mso-color-index:3'>Select<br> </span></div> </layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.11 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-224 0 0"'><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3'>search</span></div> </layer></div> </layer></div> </layer><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.09 * g_height; mywidth = 1.11 * 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 = 1.1 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.07 * g_height; mywidth = 1.1 * 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: 348;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;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'>PART 1: How to study variation and covariation</span></div> </layer></div> </layer></div> </layer><script> - mytop = 0.15 * g_height; myleft = 0.85 * g_width; myheight = 0.22 * 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 = 0.21 * 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%;mso-line-spacing:"-224 0 0";mso-line-spacing:"-224 0 0"'><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.13 * 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:217%; color:#E9EB5D;mso-color-index:3'>Choose<span style="mso-spacerun: yes"> </span></span></span></layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.13 * 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:217%; color:#E9EB5D;mso-color-index:3'>species, </span></span></layer><script> - mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.13 * 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:217%; color:#E9EB5D;mso-color-index:3'>group, </span></span></layer><script> - mytop = 0.15 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.15 * 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:217%; color:#E9EB5D;mso-color-index:3'>and type</span></span></layer></div> </layer></div> </layer><script> - mytop = 0.71 * g_height; myleft = 0.48 * 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 language=JavaScript><!-- -xx = 0.48 * g_width; -yy = 0.71 * g_height; -ht = 0.13 * g_height; -wd = 0.12 * g_width; -document.write( -'<img border=0 src="slide0002_image004.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>Please link to the web site:<span style="mso-spacerun: yes"> </span>http://www.genenetwork.org</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>To begin a search you make choices about what species, group, and database to explore.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>For this demonstration enter APP as above and click on the SEARCH button. Make sure that the DEFAULT SETTINGS are species = Mouse, Group = BXD, Type = Whole Brain, and Database = INIA BRAIN mRNA M430 (Apr05) PDNN.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. The GeneNetwork and WebQTL are often used to work with public data sets. However, it is possible to enter and analyze your own data for specific genetic reference populations such as the BXD genetic reference population of mice or the HXB strains of rat. Entering your own data is a more advanced topic, but if you click on the HOME pop-down menu (upper left), you will see ÒEnter Trait DataÓ that will explain the process.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>2.</font><font face=Helvetica size=3> For help on advanced searching methods read the left side of the page (INTRODUCTION).<span style="mso-spacerun: yes"> </span>If you make a search term too complex, you may get no hits (try entering Òamyloid betaÓ for example). If you make it too simple, you may also get too many.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>3.</font><font face=Helvetica size=3> Use the asterisk * as a wildcard. For example, to find all <i>Hoxb</i> transcripts, search for Hoxb*.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>4.</font><font face=Helvetica size=3> In some cases you can also research for transcripts and genes using special search strings such as Ò</font><font face=Geneva size=3>Mb = (Chr1, 100 102)Ó to find all genes on Chromosome 1 between 98 and 104 megabases (donÕt actually use the quotes). Details are described at </font><font face=Verdana size=3>http://www.genenetwork.org/searchHelp.html</font><font face=Geneva size=3>.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>5.<span style="mso-spacerun: yes"> </span>These INFO buttons provide links to data about the different data types. Try them.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>6.<span style="mso-spacerun: yes"> </span>The SET TO DEFAULT button is used to change the database default setting to match your typical search categories.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm deleted file mode 100755 index 0e0eb529..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0021.htm +++ /dev/null @@ -1,129 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0021.htm"); -}//--> -</script> </head> <body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};' bgcolor="#000000"> <script> - -g_origHeight = 566; 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-</script> <div><script> - mytop = 0 * 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> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <layer> <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:#FBFDB8;font-size:213%; mso-text-raise:0%'></div> </layer> <script> - mytop = 0 * g_height; myleft = 0 * 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='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: 348;mso-text-indent-alt:0;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;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'>Please also use the Glossary, FAQ, and News</span></div> </layer></div> </layer></div> </layer><script> - mytop = 0.1 * g_height; 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myleft = 0.38 * g_width; myheight = 0.48 * g_height; mywidth = 0.6 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.38 * g_width; -yy = 0.49 * g_height; -ht = 0.48 * g_height; -wd = 0.6 * g_width; -document.write( -'<img border=0 src="slide0003_image009.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>SHORT DETOUR to the HELP menu. If you are new to the GeneNetwork, you may find it helpful to review the The Glossary and FAQ pages shown above. We are in the process of making ÒliveÓ demos for some of the key modules in the GeneNetwork. Check the NEWS every month or two to find out about new features.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0022.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0022.htm deleted file mode 100755 index 663a5f0f..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0022.htm +++ /dev/null @@ -1,140 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); 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-</script><span style='text-align:left'><span style='font-family:"Gill Sans";font-size:217%; color:#E9EB5D;mso-color-index:3'>set in red </span></span></layer><script> - mytop = 0.15 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>and</span><span style='font-family:"Gill Sans"; font-size:217%;color:#E9EB5D;mso-color-index:3;display:none'><i><br> </i></span></span></layer></div> </layer><script> - mytop = 0.2 * g_height; myleft = 0 * g_width; myheight = 0.26 * g_height; mywidth = 0.18 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div style='mso-line-spacing:"-224 0 0"'><script> - mytop = 0 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>click. You </span></span></layer><script> - mytop = 0.05 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>do NOT </span></span></layer><script> - mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>have to </span></span></layer><script> - mytop = 0.15 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>select the </span></span></layer><script> - mytop = 0.2 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.18 * 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:217%; color:#E9EB5D;mso-color-index:3'>checkbox</span><span style='font-family:"Gill Sans"; font-size:250%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></span></layer></div> </layer></div> </layer><script> - mytop = -0.04 * g_height; myleft = 0.01 * g_width; myheight = 0.18 * g_height; mywidth = 0.84 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script> - mytop = 0.05 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.82 * 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%'>Search results</span><span style='mso-special-format:lastCR;display:none'><br> </span></div> </layer></div> </layer></div> </LAYER> - <layer> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>RESULTS OF THE APP SEARCH.<span style="mso-spacerun: yes"> </span>A search of the INIA Brain database generates 18 matches, 10 of which are shown above. The GeneNetwork will display several hundred matches in pages of 40 each. If a search generates a larger numbers of hits, then you will need to refine search terms.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. APP is a great transcript to introduce you to the complexity and power of new array platforms that often provide ÒalternativeÓ expression estimates for single genes. There are seven probe sets that target different parts of the APP transcript. Which of the alternative measurements is most appropriate and informative? Have a look at the FAQ page for more on this topic, but general advice: 1. be skeptical and try to validate that the correct transcript and gene is being measured; 2. check what part of the transcript is complementary to the probes; 3. evaluate the performance of individual probes based on expression level, signal-to-noise and other error terms such as the standard deviation and error.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. In this particular case we have highlighted and selected # 5 on this SEARCH RESULTS page. The annotation for this probe set mentions that it targets the last three exons and the 3Õ untranslated region (UTR) of the amyloid precursor protein (APP).<span style="mso-spacerun: yes"> </span>That is just what we want.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. Most probe sets have not been annotated in as much detail as App. Refer tot the FAQ to learn how to annotate probe sets yourself.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0023.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0023.htm deleted file mode 100755 index 10a6218a..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0023.htm +++ /dev/null @@ -1,128 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0023.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 = 0.08 * g_height; myleft = 0.02 * g_width; myheight = 0.8 * g_height; mywidth = 0.77 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.08 * g_height; -ht = 0.8 * g_height; -wd = 0.77 * g_width; -document.write( -'<img border=0 src="slide0005_image013.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.08 * g_height; mywidth = 1.08 * 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 = 0.06 * g_height; mywidth = 1.06 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'>First page of data: The Trait Data and Analysis Form</span><span style='font-size:106%;color:#E9EB5D; mso-color-index:3;mso-special-format:lastCR;display:none'><br> </span></div> </layer></div> </layer><script> - mytop = 0.34 * g_height; myleft = 0.68 * 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 language=JavaScript><!-- -xx = 0.68 * g_width; -yy = 0.34 * g_height; -ht = 0.09 * g_height; -wd = 0.16 * g_width; -document.write( -'<img border=0 src="slide0005_image014.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.23 * g_height; myleft = 0.84 * g_width; myheight = 0.34 * 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 = 0.32 * 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 = 0.05 * g_height; mywidth = 0.14 * 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'><i>Click </i></span></span></layer><script> - mytop = 0.05 * 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><span style='text-align:left'><span style='font-size:200%;color:#E9EB5D'><i>here<br> </i></span></span></layer><script> - mytop = 0.1 * g_height; myleft = 0 * g_width; myheight = 0.05 * g_height; mywidth = 0.15 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><span style='font-size:200%;color:#E9EB5D'><i>to learn<br> </i></span></div> </layer><script> - mytop = 0.16 * 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><span style='font-size:200%;color:#E9EB5D'><i>about<br> </i></span></div> </layer><script> - mytop = 0.21 * 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><span style='font-size:200%;color:#E9EB5D'><i>data<br> </i></span></div> </layer><script> - mytop = 0.27 * 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><span style='font-size:200%;color:#E9EB5D'><i>source</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=Helvetica size=3>The Trait Data and Analysis Form is the single most important page from the point of view of working with GeneNetwork data. Please read the text carefully. Explore the links, but do not close this page. We will need it many more times in this demonstration.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. What is this database? It is called INIA Brain mRNA M430 (Apr05) PDNN, but what does that actually mean. How much of the brain was used? How were the animals processed? Most of these types of questions can be answered by clicking on the DATABASE link.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. Transcript/gene LOCATION data is usually from the most recent assembly. You can VERIFY the location of the probes and probe set using the two VERIFY buttons. VERIFY UCSC performs a sequence alignment (BLAT analysis) of the probes to the most recent assembly.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. The PROBE TOOL button provides you with highly detailed information on the probe sequences used to assemble the probe set. For example, in this case you can find out which probes correspond to which of the three exons. You can also review the performance of the individual probes. Please check the GLOSSARY for additional details on probes.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>4. The identifiers (IDs) provide links to other key resources.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0024.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0024.htm deleted file mode 100755 index 97f09734..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0024.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0024.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 = -0.01 * 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><script> - mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.07 * g_height; mywidth = 0.97 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Data sources: Metadata for each resource</span></div> </layer></div> </layer><script> - mytop = 0.06 * g_height; myleft = 0.03 * g_width; myheight = 0.92 * g_height; mywidth = 0.6 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.03 * g_width; -yy = 0.06 * g_height; -ht = 0.92 * g_height; -wd = 0.6 * g_width; -document.write( -'<img border=0 src="slide0006_image015.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>Most of the database components and resources in The GeneNetwork are linked to metadata pages that provide a human-readable summary of how, why, where, when, and with whom the data were generated. Before you get too involved with a data set, it is naturally important to read this information. While the data in The GeneNetwork may be accessible and useful, that does not always mean that the data is public domain and available for you to use in publication or for profit purposes. If you want to know more about the data ownership and usage, please read through the POLICIES pop-down menu items.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm deleted file mode 100755 index 32820d64..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0025.htm +++ /dev/null @@ -1,134 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0025.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 = 0.07 * g_height; mywidth = 1.09 * 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 = 0.06 * g_height; mywidth = 1.07 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'>Expression estimates for </span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3'> on the Trait Data form</span><span style='font-size:81%;color:#E9EB5D;mso-color-index:3'> </span></div> </layer></div> </layer><script> - mytop = 0.81 * g_height; myleft = 0.02 * g_width; myheight = 0.11 * g_height; mywidth = 1.1 * 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 = 0.09 * g_height; mywidth = 1.09 * 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 = 0.04 * g_height; mywidth = 1.09 * 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:183%; color:#E9EB5D;mso-color-index:3'>Trait data for each strain with SE when known. For array data the scale is </span></span></layer><script> - mytop = 0.04 * 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-family:"Gill Sans";font-size:183%; color:#E9EB5D;mso-color-index:3'>~ log base 2.<span style="mso-spacerun: yes"> </span></span><span style='font-size:167%;color:#E9EB5D; mso-color-index:3'>F1 data = 16.723 = 2^16.723 = 108,174</span></span></layer></div> </layer></div> </layer><script> - mytop = 0.07 * g_height; myleft = 0.02 * g_width; myheight = 0.72 * g_height; mywidth = 0.51 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.07 * g_height; -ht = 0.72 * g_height; -wd = 0.51 * g_width; -document.write( -'<img border=0 src="slide0007_image016.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.33 * g_height; myleft = 0.57 * g_width; myheight = 0.13 * g_height; mywidth = 0.3 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.57 * g_width; -yy = 0.33 * g_height; -ht = 0.13 * g_height; -wd = 0.3 * g_width; -document.write( -'<img border=0 src="slide0007_image017.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.47 * g_height; myleft = 0.57 * g_width; myheight = 0.18 * g_height; mywidth = 0.36 * 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 = 0.35 * 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 = 0.04 * 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:167%;color:#E9EB5D;mso-color-index: 3'>These values can all </span></span></layer><script> - mytop = 0.04 * g_height; myleft = 0 * g_width; myheight = 0.04 * 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:167%;color:#E9EB5D;mso-color-index: 3'>be changed by the </span></span></layer><script> - mytop = 0.09 * g_height; myleft = 0 * g_width; myheight = 0.04 * 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:167%;color:#E9EB5D;mso-color-index: 3'>user. (Yes, there is a </span></span></layer><script> - mytop = 0.13 * g_height; myleft = 0 * g_width; myheight = 0.04 * 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:167%;color:#E9EB5D;mso-color-index: 3'>RESET)</span></span></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 shows you the lower parts of the Trait Data and Analysis Form with the data for the first set of BXD strains</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm deleted file mode 100755 index 7dac49e1..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0026.htm +++ /dev/null @@ -1,130 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0026.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 = 0.08 * g_height; mywidth = 0.98 * 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 = 0.95 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Critiquing the </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> data the Trait Data</span><span style='font-size:94%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></div> </layer></div> </layer><script> - mytop = 0.74 * g_height; myleft = 0.02 * g_width; myheight = 0.13 * g_height; mywidth = 1.1 * 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 = 1.09 * 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 = 0.04 * 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:150%; color:#E9EB5D;mso-color-index:3'>Use the BASIC STATISTICS button to evaluate the App data. You will find that App data </span></span></layer><script> - mytop = 0.03 * g_height; myleft = 0 * g_width; myheight = 0.04 * g_height; mywidth = 1.09 * 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:150%; color:#E9EB5D;mso-color-index:3'>from the different strains are not equally trustworthy. BXD8 is an obvious outlier without </span></span></layer><script> - mytop = 0.07 * g_height; myleft = 0 * g_width; myheight = 0.04 * 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:150%; color:#E9EB5D;mso-color-index:3'>replication (no error bar)</span><span style='font-size:150%;color:#E9EB5D;mso-color-index:3'>. BXD33 is also suspiciously low. BXD5 is noisy. </span><span style='font-family:"Gill Sans"; font-size:150%;color:#E9EB5D;mso-color-index:3;mso-special-format:lastCR; display:none'><br> </span></span></layer></div> </layer></div> </layer><script> - mytop = 0.07 * g_height; myleft = 0.02 * g_width; myheight = 0.18 * g_height; mywidth = 0.16 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.07 * g_height; -ht = 0.18 * g_height; -wd = 0.16 * g_width; -document.write( -'<img border=0 src="slide0008_image018.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.08 * g_height; myleft = 0.18 * g_width; myheight = 0.66 * g_height; mywidth = 0.73 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.18 * g_width; -yy = 0.08 * g_height; -ht = 0.66 * g_height; -wd = 0.73 * g_width; -document.write( -'<img border=0 src="slide0008_image019.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.87 * g_height; myleft = 0.59 * g_width; myheight = 0.13 * g_height; mywidth = 0.3 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.59 * g_width; -yy = 0.87 * g_height; -ht = 0.13 * g_height; -wd = 0.3 * g_width; -document.write( -'<img border=0 src="slide0008_image021.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>The Basic Statistics page allows you to evaluate some aspects of the data quality. In this case, BXD8 is a potential problem. An outlier of this type may be generated by a technical artifact (bad sample?). However, it is also possible that BXD8 just has genuine low endogenous expression of App and may therefore be a particularly valuable model for research. There are different ways to treat problematic data of these types. One way is simply to discard this datum. The other way is to prevent outliers from have too much influence quantitatively, while leaving them in their low (or high positions). This is called windsorizing the data (after King Henry the VIII who had a habit of chopping heads). In this case, we have windsorized the BXD8 to a value of 16.0 and the BXD33 to a value of 16.02. Rank is retained. We are making a bet that the two lowest strains are really low, but we are hedging our bet and just making them a little lower than BXD90. This removes their ÒundueÓ influence.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>1. It turns out that BXD8 is a strain with many odd phenotypes. The whole strain is essentially an outlier for many traits. Therefore, the low App expression data may be quite accurate. Still, it would be comforting to have at least two more replicates.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0027.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0027.htm deleted file mode 100755 index 0a23d59d..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0027.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0027.htm"); -}//--> -</script> </head> <body onresize="restore()" onload="DoOnLoad()" style='font-size:&{font_size()};' bgcolor="#000000"> <script> - -g_origHeight = 566; -g_origWidth = 755; 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-</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 = 0.14 * 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 = 0.9 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> expression after windsorizing</span></div> </layer></div> </layer><script> - mytop = 0.08 * g_height; myleft = 0.02 * g_width; myheight = 0.83 * g_height; mywidth = 0.94 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.08 * g_height; -ht = 0.83 * g_height; -wd = 0.94 * g_width; -document.write( -'<img border=0 src="slide0009_image022.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>Now we get a much better feel for the variation in the error among the cases. Those without error bars are of course the ÒnoisiestÓ of all. This data set is not complete yet (the aim is to acquire at least one male-female sample for each BXD strain).</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm deleted file mode 100755 index cde4a136..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0028.htm +++ /dev/null @@ -1,104 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0028.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 = 0.14 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Discovering shared expression patterns</span></div> </layer></div> </layer><script> - mytop = 0.1 * g_height; myleft = 0.03 * g_width; myheight = 0.37 * g_height; mywidth = 0.94 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.03 * g_width; -yy = 0.1 * g_height; -ht = 0.37 * g_height; -wd = 0.94 * g_width; -document.write( -'<img border=0 src="slide0010_image023.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</script></div> </layer><script> - mytop = 0.38 * g_height; myleft = 0.61 * g_width; myheight = 0.14 * g_height; mywidth = 0.13 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.61 * g_width; -yy = 0.38 * g_height; -ht = 0.14 * g_height; -wd = 0.13 * g_width; -document.write( -'<img border=0 src="slide0010_image024.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>Finally, we can now start an analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>We ask a simple question:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Do differences in this particular App transcript steady-state abundance level correlate with those of any other transcripts in the same INIA Brain mRNA M430 data set?</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>You can CHOOSE many other DATABASES at this point if you want, but for now letÕs stick with the default.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. There are different ways to sort the correlations. The most obvious is by p-value (most significant values at the top of the list), but it is also interesting to sort the top 100 or top 500 by their gene symbol (gene ID) or by their chromosomal location (position).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. If you donÕt want your analysis to be sensitive to outliers, then you may want to choose to use the Spearman Rank Order method of calculating correlations.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0029.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0029.htm deleted file mode 100755 index c296b9e9..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0029.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0029.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 = 0.14 * 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 = 0.9 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'>Transcript neighborhoods</span></div> </layer></div> </layer><script> - mytop = 0.07 * g_height; myleft = 0.02 * g_width; myheight = 0.91 * g_height; mywidth = 0.85 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.07 * g_height; -ht = 0.91 * g_height; -wd = 0.85 * g_width; -document.write( -'<img border=0 src="slide0011_image025.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>The Traits Correlation output window (Correlation Results) compares App expression data with all other traits in this INIA Brain data set. The most significant 100 or 500 transcripts are sorted by their p-values. The top correlation is that of the probe set to itself (often a value of 1.0, but in this case we modified the App values manually by windsorizing the data). The next best correlation is to another App probe set. The fourth correlation is interesting and suggests that there may be a link between App and a particular type of ataxia (Atcay).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>Use the checkboxes to the far left to select traits that you want to study together. Once you have selected interesting traits, click on the ADD SELECTION button. This puts all of the selected traits into a SELECTIONS WINDOW for other types of analysis.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. The p-value is not corrected for multiple tests. A conservative approach for array data would be to assume 10,000 nominally independent tests. Subtract 4 from the exponent and if the value is still smaller than 0.05 you may have a real correlation.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. The LITERATURE CORRELATION is a data type generated by Drs. Ramin Homayouni and Michael Berry. Click on the header column by the asterisk for more information on this highly useful data type.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>4. We are using Pearson product moment correlations rather that the Spearman rank order correlation. But you can select either in the previous step.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0030.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0030.htm deleted file mode 100755 index b84e4aad..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0030.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0030.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 = 0.14 * 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 = 0.9 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> and </span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>Atcay</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript scatterplot </span></div> </layer></div> </layer><script> - mytop = 0.08 * g_height; myleft = 0.05 * g_width; myheight = 0.91 * g_height; mywidth = 0.66 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.05 * g_width; -yy = 0.08 * g_height; -ht = 0.91 * g_height; -wd = 0.66 * g_width; -document.write( -'<img border=0 src="slide0012_image026.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>By clicking on the CORRELATION of the Atcay transcript to the App transcript, you can generate a Correlation plot between these two transcripts. In this App and Atcay scatterplot, each point is a strain mean value. For example, BXD33 and BXD8 have low App and Atcay expressions. The two parental strains and the F1 are also included in this plot.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!-- -//--> -</script><script language=JavaScript><!-- -function playList() { - -} -//--> -</script> </body> </html> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0031.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0031.htm deleted file mode 100755 index 9a54b689..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0031.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0031.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 = 0.14 * 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 = 0.96 * 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: 348;mso-text-indent-alt:56;mso-line-spacing:"-220 0 -216";mso-margin-left-alt: 348;mso-text-indent-alt:56'><span style='mso-special-format:nobullet; display:none;color:#FBFDB8;font-family:"Monotype Sorts";font-size:99%'>l</span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'><i>App</i></span><span style='font-size:106%;color:#E9EB5D;mso-color-index:3'> transcript and eight of its neighbors</span></div> </layer></div> </layer><script> - mytop = 0.09 * g_height; myleft = 0.02 * g_width; myheight = 0.9 * g_height; mywidth = 0.83 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div><script language=JavaScript><!-- -xx = 0.02 * g_width; -yy = 0.09 * g_height; -ht = 0.9 * g_height; -wd = 0.83 * g_width; -document.write( -'<img border=0 src="slide0013_image027.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>A group of traits from many different databases can be selected and brought together for joint analysis. In this case all of the content of the BXD SELECTIONS is from a single BRAIN database, the top 20 neighbors of the App transcript from the Correlation Results table. Eight of these neighbors plus App is shown in the slide.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Helvetica size=3>All of items in the BXD SELECTIONS were selected using the SELECT ALL button</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>2. The buttons at the top (and bottom) of this page can do some cool stuff. We will work with NETWORK GRAPH first.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Helvetica size=3>3. Think of the SELECTIONS as your shopping cart. You go to different aisles in the supermarket to acquire different types of items of interest. These could include transcripts, classical phenotypes (longevity, brain weight, prepulse inhibition, iron levels in midbrain). 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> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm deleted file mode 100755 index 85ee47fe..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0032.htm +++ /dev/null @@ -1,118 +0,0 @@ -<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_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: App transcript coexpression neighborhood"> <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("slide0032.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 = 0.82 * 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><!-- -xx = 0.01 * g_width; -yy = 0.37 * g_height; -ht = 0.62 * g_height; -wd = 0.97 * g_width; -document.write( -'<img border=0 src="slide0014_image029.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</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><!-- -xx = 0.01 * g_width; -yy = 0.11 * g_height; -ht = 0.25 * g_height; -wd = 0.79 * g_width; -document.write( -'<img border=0 src="slide0014_image031.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</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_part1.ppt_files/slide0033.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0033.htm deleted file mode 100755 index 042ca4ad..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0033.htm +++ /dev/null @@ -1,104 +0,0 @@ -<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_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0033.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 = 0.14 * 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'>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><!-- -xx = 0.04 * g_width; -yy = 0.28 * g_height; -ht = 0.7 * g_height; -wd = 0.78 * g_width; -document.write( -'<img border=0 src="slide0015_image034.png" x=' + xx + ' y=' +yy + ' height=' + ht + ' width=' + wd + '>' ); -//--> -</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_part1.ppt_files/slide0034.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0034.htm deleted file mode 100755 index 3cf1ac70..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0034.htm +++ /dev/null @@ -1,93 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0034.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_part1.ppt_files/slide0035.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0035.htm deleted file mode 100755 index ca5ac8bb..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0035.htm +++ /dev/null @@ -1,151 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content=Aug-15-05> <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("slide0035.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 = 0.01 * 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> </layer></div> </layer><script> - mytop = 0.1 * g_height; myleft = 0.08 * g_width; myheight = 0.47 * g_height; mywidth = 1 * g_width; - document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' ); -</script> <div> <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> <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> <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> <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 = 0.9 * 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; color:black;mso-color-index:1;font-size:80%;mso-text-raise:0%;mso-margin-left-alt: 144;mso-margin-left-alt:144'><script> - mytop = 0 * g_height; myleft = 0.02 * g_width; myheight = 0.05 * g_height; mywidth = 0.98 * g_width; - 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:-2.56%;font-family:Arial'>6.</span></span><span style='font-family:"Gill Sans";font-size:200%;color:#E9EB5D;mso-color-index: 3'><span style="mso-spacerun: yes"> </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> \ No newline at end of file diff --git a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0036.htm b/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0036.htm deleted file mode 100755 index ccec2e7d..00000000 --- a/web/tutorial/ppt/html/webqtl_demo2_part1.ppt_files/slide0036.htm +++ /dev/null @@ -1,112 +0,0 @@ -<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2_part1.ppt.ppt"> <script> -if ( ! top.PPTPRESENTATION ) { - window.location.replace( "endshow.htm" ); -} -</script> <meta name=Description content="Aug-15-05: Contact for comments and improvements:"> <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("slide0036.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 = 0.02 * 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. 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