Integrative inference of gene-regulatory networks in Escherichia coli using information theoretic concepts and sequence analysis.

ABSTRACT:

Background

Although Escherichia coli is one of the best studied model organisms, a comprehensive understanding of its gene regulation is not yet achieved. There exist many approaches to reconstruct regulatory interaction networks from gene expression experiments. Mutual information based approaches are most useful for large-scale network inference.

Results

We used a three-step approach in which we combined gene regulatory network inference based on directed information (DTI) and sequence analysis. DTI values were calculated on a set of gene expression profiles from 19 time course experiments extracted from the Many Microbes Microarray Database. Focusing on influences between pairs of genes in which one partner encodes a transcription factor (TF) we derived a network which co

SUBMITTER: Kaleta C 

PROVIDER: S-EPMC2936295 | biostudies-literature | 2010 Aug

REPOSITORIES: biostudies-literature