On modeling gene regulatory networks using markov random fields

Narayana Santhanam, Janis Dingel, Olgiça Milenkovic

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

Abstract

Modeling the joint expression patterns of genes is a challenging task due to the large number of genes simultaneously studied, relative to the amount of microarray data available. To model the joint expression profiles of genes using a small number of observations, we use Ising models to approximate the joint expression profiles. This approach naturally lends itself to the study of gene interactions and has a close connection to clustering techniques, which we use to reconstruct E. coli gene interaction pathways from microarray data. In addition, we note that extending available partial network topology information can be done using very few microarray samples-logarithmic in the number of genes.

Original languageEnglish (US)
Title of host publicationProceedings - 2009 IEEE Information Theory Workshop on Networking and Information Theory, ITW 2009
Pages156-160
Number of pages5
DOIs
StatePublished - 2009
Event2009 IEEE Information Theory Workshop on Networking and Information Theory, ITW 2009 - Volos, Greece
Duration: Jun 10 2009Jun 12 2009

Publication series

NameProceedings - 2009 IEEE Information Theory Workshop on Networking and Information Theory, ITW 2009

Other

Other2009 IEEE Information Theory Workshop on Networking and Information Theory, ITW 2009
Country/TerritoryGreece
CityVolos
Period6/10/096/12/09

ASJC Scopus subject areas

  • Computer Networks and Communications
  • Information Systems
  • Communication

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