HIDEN: Hierarchical decomposition of regulatory networks.

ABSTRACT:

Background

Transcription factors regulate numerous cellular processes by controlling the rate of production of each gene. The regulatory relations are modeled using transcriptional regulatory networks. Recent studies have shown that such networks have an underlying hierarchical organization. We consider the problem of discovering the underlying hierarchy in transcriptional regulatory networks.

Results

We first transform this problem to a mixed integer programming problem. We then use existing tools to solve the resulting problem. For larger networks this strategy does not work due to rapid increase in running time and space usage. We use divide and conquer strategy for such networks. We use our method to analyze the transcriptional regulatory networks of E. coli, H. sapiens

SUBMITTER: Gulsoy G 

PROVIDER: S-EPMC3556311 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature