Understanding Transcription Factor Regulation by Integrating Gene Expression and DNase I Hypersensitive Sites.

ABSTRACT: Transcription factors are proteins that bind to DNA sequences to regulate gene transcription. The transcription factor binding sites are short DNA sequences (5-20 bp long) specifically bound by one or more transcription factors. The identification of transcription factor binding sites and prediction of their function continue to be challenging problems in computational biology. In this study, by integrating the DNase I hypersensitive sites with known position weight matrices in the TRANSFAC database, the transcription factor binding sites in gene regulatory region are identified. Based on the global gene expression patterns in cervical cancer HeLaS3 cell and HelaS3-ifnα4h cell (interferon treatment on HeLaS3 cell for 4 hours), we present a model-based computational approach to predict a se

SUBMITTER: Wang G 

PROVIDER: S-EPMC4573618 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature