A novel statistical approach to identify co-regulatory gene modules

Xi Chen, Jianhua Xuan, Xu Shi, Ayesha N. Shajahan-Haq, Leena Hilakivi-Clarke, Robert Clarke

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

ChlP-chip experiments are performed to determine binding sites for transcription factors (TFs). Conventional TF-gene regulation is generated based on p-value cutoff of the binding sites as well as their distance to nearest genes. Taking into account that binding sites of one ChlP-chip experiment should follow the same specific location distribution, we proposed a statistical model using both location and significance information to weigh target genes. With multiple ChlP-chip experiments and gene expression data, we identified co-regulatory and differentially expressed gene modules with a joint clustering and Metropolis sampling approach. We demonstrated the efficiency of our method on a ChlP-chip data set with 38 breast cancer related TFs.

Original languageEnglish (US)
Title of host publicationProceedings - 2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE BIBM 2013
Pages16-18
Number of pages3
DOIs
StatePublished - 2013
Externally publishedYes
Event2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE BIBM 2013 - Shanghai, China
Duration: Dec 18 2013Dec 21 2013

Publication series

NameProceedings - 2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE BIBM 2013

Conference

Conference2013 IEEE International Conference on Bioinformatics and Biomedicine, IEEE BIBM 2013
CountryChina
CityShanghai
Period12/18/1312/21/13

Keywords

  • ChlP-chip
  • Co-regulatory modules
  • Gene expression
  • Metropolis sampling

Fingerprint Dive into the research topics of 'A novel statistical approach to identify co-regulatory gene modules'. Together they form a unique fingerprint.

Cite this