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authorroot2012-05-08 18:39:56 -0500
committerroot2012-05-08 18:39:56 -0500
commitea46f42ee640928b92947bfb204c41a482d80937 (patch)
tree9b27a4eb852d12539b543c3efee9d2a47ef470f3 /web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0021.htm
parent056b5253fc3857b0444382aa39944f6344dc1ceb (diff)
downloadgenenetwork2-ea46f42ee640928b92947bfb204c41a482d80937.tar.gz
Add all the source codes into the github.
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+<html> <head> <meta name=ProgId content=PowerPoint.Slide> <meta name=Generator content="Microsoft Macintosh PowerPoint 11"> <title>PowerPoint Presentation - Complex trait analysis, develop-ment, and genomics</title> <link title="Presentation File" type="application/powerpoint" rel=alternate href="webqtl_demo2.ppt.ppt"> <script>
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+</script> <meta name=Description content="Aug-15-05: Physical map for distal chromosome 7"> <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>
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+ document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
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+ mytop = 0.01 * g_height; myleft = 0 * g_width; myheight = 0.06 * g_height; mywidth = 0.98 * g_width;
+ document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
+</script> <div style='text-align:left;font-family:"Gill Sans";font-weight:normal; font-style:normal;text-decoration:none;text-shadow:none;text-effect:none; mso-fareast-hint:no;layout-flow:horizontal;color:#E9EB5D;font-size:293%; mso-text-raise:0%;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233; mso-text-indent-alt:0;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233; mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Physical map for distal chromosome 7</span><span style='font-family:Verdana;font-size: 73%;mso-special-format:lastCR;display:none'><i><br> </i></span></div> </layer></div> </layer><script>
+ mytop = 0.07 * g_height; myleft = 0.05 * g_width; myheight = 0.06 * g_height; mywidth = 0.94 * g_width;
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+ mytop = 0 * g_height; myleft = 0.01 * g_width; myheight = 0.04 * g_height; mywidth = 0.92 * g_width;
+ document.write( '<layer top=' + mytop + ' left=' + myleft + ' height=' + myheight + ' width=' + mywidth + ' >' );
+</script> <div style='text-align:left;font-family:Verdana;font-weight:normal;font-style: normal;text-decoration:none;text-shadow:none;text-effect:none;mso-fareast-hint: no;layout-flow:horizontal;color:black;mso-color-index:1;font-size:80%; mso-text-raise:0%'><span style='font-size:167%;color:#E9EB5D'>Distal Chr 7 from ~120 and 132 Mb may modulate</span><span style='font-size:167%;color:#E9EB5D'><i> App</i></span><span style='font-size:200%;color:#E9EB5D;mso-special-format: lastCR;display:none'><i><br> </i></span></div> </layer></div> </layer><script>
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+ <layer> <div id=NotesObj style='display:none'> <table style='color:white' border=0 width="100%"> <tr> <td width=5 nowrap></td> <td width="100%"></td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>Physical map of variation in App expression in brain on distal Chr 7 (a blow up of the whole-genome map on the previous slide).</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Arial size=3>1.</font><font face=Verdana size=3> You can now see that the X-axis is on a physical scale of megabases (Mb). The QTL peak is roughly between 120 and 132 Mb.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>2. The small irregular colored blocks and marks toward the top of the map mark the locations of genes superimposed on the physical map. Neighboring genes are offset slightly in the vertical axis for display purpose. Note one region of very high gene density from about 120 to 123 Mb.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>3. The orange hash marks along the X-axis represent the number of single nucleotide polymorphisms that distinguish the two parental strains (C57BL/6J and DBA/2J) from each other. We call this the SNP seismograph track (see Glossary for more details). Regions with low numbers of SNPs have closely matched sequences and are less likely to contain QTLs.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>4. As before, the thin red line shows the additive effect size. By convention the positive values signify the D alleles are associated with higher expression of App in this region of Chr 7 than the B alleles. The maximum effect size is about +0.20 log2 expression units per D allele. The differences been the BB and DD genotypes (BB and DD because each strain has two alleles; one per chromosome) is therefore about 2^0.4 = 1.32 or a 32% increment in DD relative to BB at this locus.</font><br> </td> </tr> <tr> <td colspan=1></td> <td align=left colspan=1><font face=Verdana size=3>5. If you scroll just under the Physical Map you will see text that reads ÒDISPLAY from XXX Mb TO YYY MbÉ..Ó<span style="mso-spacerun: yes">&nbsp; </span>These physical maps are zoomable, a feature we will exploit to evaluate candidate genes in this QTL interval.</font><br> </td> </tr> </table> </div> </layer> <script language=JavaScript><!--
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generated by cgit v1.2.3 (git 2.44.0) at 2024-11-26 17:08:41 +0000