Journal
BIOINFORMATICS
Volume 22, Issue 7, Pages 815-822Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btl003
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Funding
- Telethon [TGM06Z06, TGM06S01] Funding Source: Medline
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Motivation: Time series expression experiments are an increasingly popular method for studying a wide range of biological systems. Here we developed an algorithm that can infer the local network of gene-gene interactions surrounding a gene of interest. This is achieved by a perturbation of the gene of interest and subsequently measuring the gene expression profiles at multiple time points. We applied this algorithm to computer simulated data and to experimental data on a nine gene network in Escherichia coli. Results: In this paper we show that it is possible to recover the gene regulatory network from a time series data of gene expression following a perturbation to the cell. We show this both on simulated data and on a nine gene subnetwork part of the DNA-damage response pathway (SOS pathway) in the bacteria E. coli.
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