Inference of gene relations from microarray data by abduction

Authors:
Irene Papatheodorou;Antonis Kakas;Marek Sergot
Affiliations:
Department of Computing, Imperial College, London, UK;Department of Computing, Imperial College, London, UK;Department of Computing, Imperial College, London, UK
Venue:
LPNMR'05 Proceedings of the 8th international conference on Logic Programming and Nonmonotonic Reasoning
Year:
2005

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Abstract

We describe an application of Abductive Logic Programming (ALP) to the analysis of an important class of DNA microarray experiments. We develop an ALP theory that provides a simple and general model of how gene interactions can cause changes in observable expression levels of genes. Input to the procedure are the observed microarray results; output are hypotheses about possible gene interactions that explain the observed effects. We apply and evaluate our approach on microarray experiments on M. tuberculosis and S. cerevisiae.