Inference of hierarchical regulatory network of TCF7L2 binding sites in MCF7 cell line

Yao Wang, Rui Wang, Victor X. Jin

Research output: Contribution to journalArticle

2 Scopus citations

Abstract

The TCF7L2 transcription factor (TF) is a member of Wnt signalling pathway, and may influence transcription of several genes by binding to distinct regulatory regions. Genome-wide studies have identified thousands of TCF7L2 binding sites and have revealed some associated TF partners. However, there is still a large uncharted region in the hierarchical regulatory network for TCF7L2 and the partner TFs in MCF7 cells. We analysed ChIPseq data by searching for motifs in the enriched peak region based on TFspecific position weight matrix (PWM). We found association of FOXO1 and CAD with up-regulated genes, AP2α, PBF and AP1 with down-regulated genes. TCF7L2 and GATA3 were found to be associated with both up and down-regulated genes. Our study uncovers new TCF7L2 associated regulatory networks by mining ChIP-seq data in MCF7 cell, which may contribute to further study of the mechanisms related to Wnt pathway in breast cancer or other diseases.

Original languageEnglish (US)
Pages (from-to)25-53
Number of pages29
JournalInternational Journal of Computational Biology and Drug Design
Volume9
Issue number1-2
DOIs
StatePublished - 2016

Keywords

  • Hierarchical regulatory networks
  • Mcf7
  • Motif
  • Tcf7l2
  • Tf
  • Transcription factor

ASJC Scopus subject areas

  • Computer Science Applications
  • Drug Discovery

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