title: Inference of gene networks from temporal gene expression profiles.
abstract: Genes interact with each other in complex networks that enable the processing of information and the metabolism of nutrients inside the cell. A novel inference algorithm based on linear ordinary differential equations is proposed. The algorithm can infer the local network of gene-gene interactions surrounding a gene of interest from time-series gene expression profiles. The performance of the algorithm has been tested on in silico simulated gene expression data and on a nine gene subnetwork part of the DNA-damage response pathway (SOS pathway) in the bacteria Escherichia coli. This approach can infer regulatory interactions even when only a small number of measurements is available.
authors: Telethon Institute of Genetics and Medicine, Via P. Castellino 111, Naples 80131, Italy. bansal@tigem.it
authors: M
authors: M
authors: Bansal
authors: D
authors: D
authors: di Bernardo
mesh_terms: D003198:Computer Simulation; D004926:Escherichia coli / Q000502:physiology*; D029968:Escherichia coli Proteins / Q000378:metabolism*; D020869:Gene Expression Profiling / Q000379:methods*; D008954:Models, Biological; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D013014:SOS Response, Genetics / Q000502:physiology*; D015398:Signal Transduction / Q000502:physiology*; D013997:Time Factors
chemical_list: D029968:Escherichia coli Proteins