Issue No. 03 - July-September (2005 vol. 2)
DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/TCBB.2005.40
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.
Index Terms- Gene expression analysis, neural networks, genetic algorithms, reverse-engineering, gene interactions.
A. Narayanan and E. Keedwell, "Discovering Gene Networks with a Neural-Genetic Hybrid," in IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 2, no. , pp. 231-242, 2005.