Universität Bielefeld Electronic Collections animiertes Foto Universität Bielefeld

Access to the Document



Functional classification of transcription factor binding sites: information content as a metric

Reddy, D. Ashok ; Prasad, B. V. L. S. ; Mitra, Chanchal K.

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)


Download file

Abstract:
The information content (relative entropy) of transcription factor binding sites (TFBS) is used to classify the transcription factors (TFs). The TF classes are clustered based on the TFBS clustering using information content. Any TF belonging to the TF class cluster has a chance of binding to any TFBS of the clustered group. Thus, out of the 41 TFBS (in humans), perhaps only 5-10 TFs may be actually needed and in case of mouse instead of 13 TFs, we may have actually 5 or so TFs. The JASPAR database of TFBS are used in this study. The experimental data on TFs of specific gene expression from TRRD database is also coinciding with our computational results. This gives us a new way to look at the protein classification - not based on their structure or function but by the nature of their TFBS.


Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Reddy, D. Ashok ; Prasad, B. V. L. S. ; Mitra, Chanchal K.  (2006)  Functional classification of transcription factor binding sites: information content as a metric. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 3(1), 2006

Online-Journal: http://journal.imbio.de/index.php?paper_id=20
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2007/201

Also published by Shaker:
Ralf Hofestädt, Thoralf Töpel (eds.). Integrative Bioinformatics -
Yearbook 2006. Shaker, 2007.


 Questions or comments: publikationsdienste.ub@uni-bielefeld.de
 Latest update: 15 Feb 2011
 Legal Notice
OPUS-Logo     OAI compliant      BU Logo
OAI-Logo