http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&feed=atom&action=history 2013-05-20T08:54:46Z Revision history for this page on the wiki MediaWiki 1.13.2 http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665625&oldid=prev 2013-01-07T01:07:15Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 01:07, 7 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 12:</td> <td colspan="2" class="diff-lineno">Line 12:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* ChIP seq analysis: bird's eye view of H3K27me3 enrichment</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* ChIP seq analysis: bird's eye view of H3K27me3 enrichment</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del style="color: red; font-weight: bold; text-decoration: none;">* ChIP-seq enrichment: PcTF vs. PcTF mock for select genes</del></div></td><td colspan="2">&nbsp;</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>----</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>----</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665618&oldid=prev 2013-01-06T19:38:55Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 19:38, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 16:</td> <td colspan="2" class="diff-lineno">Line 16:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>----</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>----</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>'''H3K27me3 enrichment'''&lt;br&gt;</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>'''H3K27me3 enrichment'''&lt;br&gt;</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>* Completed H3K27me3 (lane <del class="diffchange diffchange-inline">3</del>) &quot;BAM --&gt; assembly&quot; workflow</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>* Completed H3K27me3 (lane <ins class="diffchange diffchange-inline">6</ins>) &quot;BAM --&gt; assembly&quot; workflow</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Open in SeqMan pro to explore known silenced vs. active genes</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>* Open in SeqMan pro to explore known silenced vs. active genes</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665602&oldid=prev 2013-01-06T02:29:44Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 02:29, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 57:</td> <td colspan="2" class="diff-lineno">Line 57:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| PGK1 ||&nbsp; chr X (24) || active || ~240</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| PGK1 ||&nbsp; chr X (24) || active || ~240</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || <ins class="diffchange diffchange-inline">~90</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || <ins class="diffchange diffchange-inline">~18</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| MYT1 || chr20 || silent (H3K27me3+) || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| MYT1 || chr20 || silent (H3K27me3+) || <ins class="diffchange diffchange-inline">'''~270'''</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| OLIG1 || chr21 || silent (H3K27me3+) || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| OLIG1 || chr21 || silent (H3K27me3+) || <ins class="diffchange diffchange-inline">0</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| OLIG2 || chr21 || silent (H3K27me3+) || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| OLIG2 || chr21 || silent (H3K27me3+) || <ins class="diffchange diffchange-inline">~130</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665601&oldid=prev 2013-01-06T02:21:25Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 02:21, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 51:</td> <td colspan="2" class="diff-lineno">Line 51:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || 0</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || 0</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| G6PD || chr X || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| G6PD || chr X || active || <ins class="diffchange diffchange-inline">~130</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| HPRT1 || chr X (24) || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| HPRT1 || chr X (24) || active || <ins class="diffchange diffchange-inline">~150</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| PGK1 ||&nbsp; chr X (24) || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| PGK1 ||&nbsp; chr X (24) || active || <ins class="diffchange diffchange-inline">~240</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665599&oldid=prev 2013-01-06T02:12:33Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 02:12, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 49:</td> <td colspan="2" class="diff-lineno">Line 49:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| GAPDH || chr 12 || active || ~90</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| GAPDH || chr 12 || active || ~90</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || <ins class="diffchange diffchange-inline">0</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| G6PD || chr <del class="diffchange diffchange-inline">15 </del>|| active || ---</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| G6PD || chr <ins class="diffchange diffchange-inline">X </ins>|| active || ---</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| HPRT1 || chr X (24) || active || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| HPRT1 || chr X (24) || active || ---</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665598&oldid=prev 2013-01-06T02:10:04Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 02:10, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 45:</td> <td colspan="2" class="diff-lineno">Line 45:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| GUSB || chr 7 || active || ~160</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| GUSB || chr 7 || active || ~160</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| PPIA || chr 7 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| PPIA || chr 7 || active || <ins class="diffchange diffchange-inline">~90</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| GAPDH || chr 12 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| GAPDH || chr 12 || active || <ins class="diffchange diffchange-inline">~90</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| B2M || chr 15 || active || ---</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665597&oldid=prev 2013-01-06T01:53:40Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 01:53, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 41:</td> <td colspan="2" class="diff-lineno">Line 41:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| TBP || chr 6 || active || ~160</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| TBP || chr 6 || active || ~160</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| ACTB || chr 7 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| ACTB || chr 7 || active || <ins class="diffchange diffchange-inline">~180</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| GUSB || chr 7 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| GUSB || chr 7 || active || <ins class="diffchange diffchange-inline">~160</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| PPIA || chr 7 || active || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| PPIA || chr 7 || active || ---</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665596&oldid=prev 2013-01-06T01:50:27Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 01:50, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 37:</td> <td colspan="2" class="diff-lineno">Line 37:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Gene || Chromosome || Expected state || Observed max. DOC*</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Gene || Chromosome || Expected state || Observed max. DOC*</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| ALAS1 || chr 3 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| ALAS1 || chr 3 || active || <ins class="diffchange diffchange-inline">~160</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div>| TBP || chr 6 || active || <del class="diffchange diffchange-inline">---</del></div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div>| TBP || chr 6 || active || <ins class="diffchange diffchange-inline">~160</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| ACTB || chr 7 || active || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| ACTB || chr 7 || active || ---</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665595&oldid=prev 2013-01-06T01:25:59Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 01:25, 6 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 31:</td> <td colspan="2" class="diff-lineno">Line 31:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'>-</td><td style="background: #ffa; color:black; font-size: smaller;"><div><del class="diffchange diffchange-inline">From the Haynes &amp; Silver JBC 2011 paper, ChIP-seq experiment</del>&lt;br&gt;&lt;br&gt;</div></td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins class="diffchange diffchange-inline">Based on Carly's control gene list [http://openwetware.org/wiki/Haynes_Lab:Notebook/Synthetic_Biology_and_Bioinformatics_for_Predictable_Control_of_Therapeutic_Genes/2012/05/28]; CDKN2A and MMP12 added by me</ins>&lt;br&gt;&lt;br&gt;</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>{| {{table}}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>{| {{table}}</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Gene || Chromosome || Expected state || Observed max. DOC*</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| Gene || Chromosome || Expected state || Observed max. DOC*</div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| ALAS1 || chr 3 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| TBP || chr 6 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| ACTB || chr 7 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| GUSB || chr 7 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| PPIA || chr 7 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| GAPDH || chr 12 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| B2M || chr 15 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| G6PD || chr 15 || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| HPRT1 || chr X (24) || active || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| PGK1 ||&nbsp; chr X (24) || active || ---</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || ---</div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| MYT1 || chr20 || silent (H3K27me3+) || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| OLIG1 || chr21 || silent (H3K27me3+) || ---</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">| OLIG2 || chr21 || silent (H3K27me3+) || ---</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes http://openwetware.org/index.php?title=User:Karmella_Haynes/Notebook/PcTF_Genomics/2013/01/05&diff=665582&oldid=prev 2013-01-05T23:07:05Z

<p><span class="autocomment">01/05/13</span></p> <table style="background-color: white; color:black;"> <col class='diff-marker' /> <col class='diff-content' /> <col class='diff-marker' /> <col class='diff-content' /> <tr valign='top'> <td colspan='2' style="background-color: white; color:black;">←Older revision</td> <td colspan='2' style="background-color: white; color:black;">Revision as of 23:07, 5 January 2013</td> </tr> <tr><td colspan="2" class="diff-lineno">Line 38:</td> <td colspan="2" class="diff-lineno">Line 38:</td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|-</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| CDKN2A || chr9 || silent (H3K27me3+) || ---</div></td></tr> <tr><td colspan="2">&nbsp;</td><td class='diff-marker'>+</td><td style="background: #cfc; color:black; font-size: smaller;"><div><ins style="color: red; font-weight: bold; text-decoration: none;">|-</ins></div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || ---</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>| MMP12 || chr11 || silent (H3K27me3+) || ---</div></td></tr> <tr><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td><td class='diff-marker'> </td><td style="background: #eee; color:black; font-size: smaller;"><div>|}</div></td></tr> <!-- diff generator: internal 2013-05-20 08:54:46 --> </table>

Karmella Haynes