HAPLO-ASP: Haplotype inference using answer set programming
Erdem, Esra and Erdem, Ozan and Türe, Ferhan (2009) HAPLO-ASP: Haplotype inference using answer set programming. In: 10th International Conference on Logic Programming and Nonmonotonic Reasoning (LPNMR 2009), Potsdam, Germany
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Official URL: http://dx.doi.org/10.1007/978-3-642-04238-6_60
Identifying maternal and paternal inheritance is essential to be able to find the set of genes responsible for a particular disease. However, due to technological limitations, we have access to genotype data (genetic makeup of an individual), and determining haplotypes (genetic makeup of the parents) experimentally is a costly and time consuming procedure. With these biological motivations, we study haplotype inference—determining the haplotypes that form a given set of genotypes—using Answer Set Programming; we call our approach Haplo-ASP. This note summarizes the range of problems that can be handled by Haplo-ASP, and its applicability and effectiveness on real data in comparison with the other existing approaches.
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