On Parsimony Haplotyping
نویسندگان
چکیده
منابع مشابه
Phylogeny- and Parsimony-Based Haplotype Inference with Constraints
Haplotyping, also known as haplotype phase prediction, is the problem of predicting likely haplotypes based on genotype data. One fast computational haplotyping method is based on an evolutionary model where a perfect phylogenetic tree is sought that explains the observed data. In their CPM’09 paper, Fellows et al. studied an extension of this approach that incorporates prior knowledge in the f...
متن کاملPhylogeny- and Parsimony-Based Haplotype Inference with Constraints1
Haplotyping, also known as haplotype phase prediction, is the problem of predicting likely haplotypes based on genotype data. One fast computational haplotyping method is based on an evolutionary model where a perfect phylogenetic tree is sought that explains the observed data. An extension of this approach tries to incorporate prior knowledge in the form of a set of candidate haplotypes from w...
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Our research was motivated by the pure parsimony haplotyping problem: Given a set G of genotypes, the haplotyping problem consists in finding a set H of haplotypes that explains G. In the pure parsimony haplotyping problem (PPH) we are interested in finding a set H of smallest possible cardinality. The pure parsimony haplotyping problem can be described as a graph colouring problem as follows: ...
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Haplotyping estimation from aligned Single Nucleotide Polymorphism (SNP) fragments has attracted more and more attention in the recent years due to its importance in analysis of many fine-scale genetic data. Its application fields range from mapping of complex disease genes to inferring population histories, passing through designing drugs, functional genomics and pharmacogenetics. The literatu...
متن کاملComputational Complexity of Perfect-Phylogeny-Related Haplotyping Problems
Haplotyping, also known as haplotype phase prediction, is the problem of predicting likely haplotypes based on genotype data. This problem, which has strong practical applications, can be approached using both statistical as well as combinatorial methods. While the most direct combinatorial approach, maximum parsimony, leads to NP-complete problems, the perfect phylogeny model proposed by Gusfi...
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تاریخ انتشار 2008