ZIFIBI: Prediction of DNA binding sites for zinc finger proteins.

Abstract:

:The cis-regulatory region of target genes is key elements in the transcriptional regulation of gene expression. Many of these cis-regulatory regions have not been identified by either biological experiments or computational methods. Recently, a few additional C(2)H(2) zinc finger transcription factor binding sites have been discovered. The majority of the zinc finger binding sites, however, are still unknown. In this study, we used publically available data to evaluate possible interaction patterns between nucleotides and the amino acids of zinc finger domains. We calculated the most probable state path of three nucleotides sequences using a Hidden Markov Model (HMM). We used these computations to predict C(2)H(2) zinc finger transcription factor binding sites in cis-regulatory regions of their target genes (http://bioinfo.hanyang.ac.kr/ZIFIBI/frameset.php).

authors

Cho SY,Chung M,Park M,Park S,Lee YS

doi

10.1016/j.bbrc.2008.02.106

subject

Has Abstract

pub_date

2008-05-09 00:00:00

pages

845-8

issue

3

eissn

0006-291X

issn

1090-2104

pii

S0006-291X(08)00382-3

journal_volume

369

pub_type

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