DBcorrDB: Difference between revisions

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by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen
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 sets for 166 transcription factors, and RNA-polymerase II and III.
[http://galaxy.informatik.uni-halle.de DBcorrDB] provides a data base of 1541 motifs discovered from 757 ENCODE data sets for 166 transcription factors, as well as RNA-polymerase II and III.


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.
You can search the data base using  
# position frequency matrices (PFMs) or position weight matrices (PWMs) in Jaspar format ([http://www.jstacs.de/downloads/pax5.txt example]),  
# a data set of aligned sequences in FastA format, which are used to infer a PWM, or
# score profiles over de Bruijn sequences in a pseudo-FastA format.


Here, we additionally provide all motifs and all motif clusters for download.
Here, we additionally provide all motifs and all motif clusters for download.

Latest revision as of 12:17, 2 July 2015

by Jan Grau, Ivo Grosse, Stefan Posch, and Jens Keilwagen

DBcorrDB provides a data base of 1541 motifs discovered from 757 ENCODE data sets for 166 transcription factors, as well as RNA-polymerase II and III.

You can search the data base using

  1. position frequency matrices (PFMs) or position weight matrices (PWMs) in Jaspar format (example),
  2. a data set of aligned sequences in FastA format, which are used to infer a PWM, or
  3. score profiles over de Bruijn sequences in a pseudo-FastA format.

Here, we additionally provide all motifs and all motif clusters for download.

Downloads