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This article is part of the supplement: Selected Proceedings of the 6th International Symposium on Bioinformatics Research and Applications (ISBRA'10)

Open Access Proceedings

Haplotype inference in general pedigrees with two sites

Duong D Doan and Patricia A Evans*

Author affiliations

Faculty of Computer Science University of New Brunswick, Fredericton, New Brunswick, Canada

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Citation and License

BMC Proceedings 2011, 5(Suppl 2):S6  doi:10.1186/1753-6561-5-S2-S6

Published: 28 April 2011

Abstract

Background

Genetic disease studies investigate relationships between changes in chromosomes and genetic diseases. Single haplotypes provide useful information for these studies but extracting single haplotypes directly by biochemical methods is expensive. A computational method to infer haplotypes from genotype data is therefore important. We investigate the problem of computing the minimum number of recombination events for general pedigrees with two sites for all members.

Results

We show that this NP-hard problem can be parametrically reduced to the Bipartization by Edge Removal problem and therefore can be solved by an O(2k ยท n2) exact algorithm, where n is the number of members and k is the number of recombination events.

Conclusions

Our work can therefore be useful for genetic disease studies to track down how changes in haplotypes such as recombinations relate to genetic disease.