Discovering gene networks with a neural-genetic hybrid.
Recent advances in biology (namely, DNA arrays) allow an unprecedented view of the biochemical mechanisms contained within a cell. However, this technology raises new challenges for computer scientists and biologists alike, as the data created by these arrays is often highly complex. One of the challenges is the elucidation of the regulatory connections and interactions between genes, proteins and other gene products. In this paper, a novel method is described for determining gene interactions in temporal gene expression data using genetic algorithms combined with a neural network component. Experiments conducted on real-world temporal gene expression data sets confirm that the approach is capable of finding gene networks that fit the data. A further repeated approach shows that those genes significantly involved in interaction with other genes can be highlighted and hypothetical gene networks and circuits proposed for further laboratory testing.
Keedwell
Edward
E
School of Engineering, Computer Science and Mathematics, Harrison Building, North Park Road, University of Exeter, Exeter, UK. E.C.Keedwell@ex.ac.uk
Narayanan
Ajit
A
D000465:Algorithms; D003198:Computer Simulation; D015870:Gene Expression / Q000502:physiology*; D020869:Gene Expression Profiling / Q000379:methods*; D008957:Models, Genetic; D016571:Neural Networks, Computer; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D010363:Pattern Recognition, Automated; D025941:Protein Interaction Mapping / Q000379:methods; D015398:Signal Transduction / Q000502:physiology*