https://www.jstacs.de/index.php?action=history&feed=atom&title=DBcorrDB 2026-04-04T14:26:40Z Revision history for this page on the wiki MediaWiki 1.38.2 https://www.jstacs.de/index.php?title=DBcorrDB&diff=716&oldid=prev 2015-07-02T12:17:48Z

<p></p> <table style="background-color: #fff; color: #202122;" data-mw="interface"> <col class="diff-marker" /> <col class="diff-content" /> <col class="diff-marker" /> <col class="diff-content" /> <tr class="diff-title" lang="en"> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">← Older revision</td> <td colspan="2" style="background-color: #fff; color: #202122; text-align: center;">Revision as of 12:17, 2 July 2015</td> </tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1">Line 1:</td> <td colspan="2" class="diff-lineno">Line 1:</td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>[http://galaxy.informatik.uni-halle.de DBcorrDB] provides a data base of 1541 motifs discovered from 757 ENCODE data sets for 166 transcription factors, <del style="font-weight: bold; text-decoration: none;">and </del>RNA-polymerase II and III.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>[http://galaxy.informatik.uni-halle.de DBcorrDB] provides a data base of 1541 motifs discovered from 757 ENCODE data sets for 166 transcription factors, <ins style="font-weight: bold; text-decoration: none;">as well as </ins>RNA-polymerase II and III.</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker" data-marker="−"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>You can search the data base using <del style="font-weight: bold; text-decoration: none;">i) </del>position frequency matrices (PFMs) or position weight matrices (PWMs) in Jaspar format (example), <del style="font-weight: bold; text-decoration: none;">ii) </del>a data set of aligned sequences in FastA format, which are used to infer a PWM, or <del style="font-weight: bold; text-decoration: none;">iii) </del>score profiles over de Bruijn sequences in a pseudo-FastA format.</div></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>You can search the data base using  </div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"># </ins>position frequency matrices (PFMs) or position weight matrices (PWMs) in Jaspar format (<ins style="font-weight: bold; text-decoration: none;">[http://www.jstacs.de/downloads/pax5.txt </ins>example<ins style="font-weight: bold; text-decoration: none;">]</ins>),  </div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"># </ins>a data set of aligned sequences in FastA format, which are used to infer a PWM, or</div></td></tr> <tr><td colspan="2" class="diff-side-deleted"></td><td class="diff-marker" data-marker="+"></td><td style="color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"># </ins>score profiles over de Bruijn sequences in a pseudo-FastA format.</div></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><br/></td></tr> <tr><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Here, we additionally provide all motifs and all motif clusters for download.</div></td><td class="diff-marker"></td><td style="background-color: #f8f9fa; color: #202122; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Here, we additionally provide all motifs and all motif clusters for download.</div></td></tr> </table>

Grau https://www.jstacs.de/index.php?title=DBcorrDB&diff=713&oldid=prev 2015-06-28T20:35:49Z

<p>Created page with &quot;by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen [http://galaxy.informatik.uni-halle.de DBcorrDB] provides a data base of 1541 motifs discovered from 757 ENCODE data se...&quot;</p> <p><b>New page</b></p><div>by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen<br /> <br /> [http://galaxy.informatik.uni-halle.de DBcorrDB] provides a data base of 1541 motifs discovered from 757 ENCODE data sets for 166 transcription factors, and RNA-polymerase II and III.<br /> <br /> You can search the data base using i) position frequency matrices (PFMs) or position weight matrices (PWMs) in Jaspar format (example), ii) a data set of aligned sequences in FastA format, which are used to infer a PWM, or iii) score profiles over de Bruijn sequences in a pseudo-FastA format.<br /> <br /> Here, we additionally provide all motifs and all motif clusters for download.<br /> <br /> == Downloads ==<br /> <br /> * [http://www.jstacs.de/downloads/motifs_jaspar.txt Motifs in Jaspar format]<br /> * [http://www.jstacs.de/downloads/motif_clusters.txt Motif clusters]</div>

Grau