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authorzsloan2015-03-27 20:28:51 +0000
committerzsloan2015-03-27 20:28:51 +0000
commitd0911a04958a04042da02a334ccc528dae79cc17 (patch)
tree3c48e2e937c1dbeaf00a5697c87ed251afa5c8f1 /web/tutorial/ppt/html/webqtl_demo2.ppt_files/slide0059.htm
parenta840ad18e1fe3db98a359a159e9b9b72367a2839 (diff)
downloadgenenetwork2-d0911a04958a04042da02a334ccc528dae79cc17.tar.gz
Removed everything from 'web' directory except genofiles and renamed the directory to 'genotype_files'
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mso-text-indent-alt:0;mso-line-spacing:"-358 0 -1";mso-margin-left-alt:233;
mso-text-indent-alt:0'><span style='font-family:Verdana;font-size:64%'>Evaluating
</span><span style='font-family:Verdana;font-size:64%'><i>Ctbp2</i></span><span
style='font-family:Verdana;font-size:64%'> using other resources</span><span
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none'><i><br>
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   <td align=left colspan=1><font face=Verdana size=3>Ctbp2 should also be
   considered a high priority biological candidate gene responsible for
   modulating App expression levels. The<span style="mso-spacerun: yes">&nbsp;
   </span>C-terminal binding protein 2 is a transcriptional co-repressor also
   known as Ribeye.</font><font face=Times-Roman size=3> The gene produces two
   transcripts encoding distinct proteins. The short form is a transcriptional
   repressor that binds a Pro-X-Asp-Leu-Ser peptide motif common to adenoviral
   oncoprotein E1a and a related motif in BKLF. This short form also interacts<span
   style="mso-spacerun: yes">&nbsp; </span>with several transcription factors
   including EVI1, ZFPM1, and<span style="mso-spacerun: yes">&nbsp;&nbsp;
   </span>ZFHX1A (aka TCF8, deltaEF1). The longer isoform is a major component
   of specialized synapses in photoreceptors. Both proteins contain a NAD+
   binding domain similar to NAD+-dependent 2-hydroxyacid dehydrogenases.</font><br>
   </td>
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   <td align=left colspan=1><br>
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   <td colspan=1></td>
   <td align=left colspan=1><font face=Verdana size=3>Notes:</font><br>
   </td>
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   <td colspan=1></td>
   <td align=left colspan=1><font face=Verdana size=3>1. To find out more about
   CTBP2 protein and the Ctbp2 gene, link to iHOP at
   http://www.pdg.cnb.uam.es/UniPub/iHOP/ and type in CTBP2</font><br>
   </td>
  </tr>
  <tr>
   <td colspan=1></td>
   <td align=left colspan=1><font face=Verdana size=3>Try Arrowsmith at
   http://arrowsmith.psych.uic.edu/cgi-test/arrowsmith_uic/pubsmith.cgi</font><br>
   </td>
  </tr>
  <tr>
   <td colspan=1></td>
   <td align=left colspan=1><font face=Verdana size=3>2. Both APP and CTBP2 are
   involved in oxidoreducatase activity or Notch signalling. To estabilish this
   common gene ontology visit NCBI<span style="mso-spacerun: yes">&nbsp;
   </span>http://www.ncbi.nih.gov/entrez/query.fcgi?db=gene<span
   style="mso-spacerun: yes">&nbsp; </span>and enter each gene symbol.</font><br>
   </td>
  </tr>
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   <td align=left colspan=1><font face=Verdana size=3>3. You can get intersting
   hints regarding Ctbp2 expression partners by examining the genetic
   correlations between Ctbp2 probe set 1422887_a_at and all other transcripts
   on the M430 Affymetrix array. Use the Striatum data set because we already
   know from previous work (the previous slide) that this gene is a cis
   QTL.<span style="mso-spacerun: yes">&nbsp; </span>You should be able to show
   that Ctbp2 and Notch3 have antagonistic expression patterns in striatum. The
   negative genetic correlation with E2f4 is even stronger. The transcript also
   has a high positive genetic correlation with Rdh14. Of particualr interest
   with respect to APP protein processing, Ctbp2 covaries positiviely with
   Bace2 (the transcript of the beta site APP-cleaving enzyme 2).</font><br>
   </td>
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