pHCR: a Parallel Haplotype Configuration Reduction algorithm for haplotype interaction analysis
نویسندگان
چکیده
منابع مشابه
A New S-test for Haplotype Analysis: Concordance and Discordance
A new test of inheritance, S, is proposed, which uses information from affected as well as unaffected siblings in the fam­ ily. The siblings are analyzed in terms of similarities of haplotypes. The distribution of the proposed S­test is derived under the null hypothesis of random inheritance. Mean and variance are obtained for the distribution. The test is then applied to data sets publ...
متن کاملLinear Reduction for Haplotype Inference
Haplotype inference problem asks for a set of haplotypes explaining a given set of genotypes. Popular software tools for haplotype inference (e.g., PHASE, HAPLOTYPER) as well as new algorithms recently proposed for perfect phylogeny inference (DPPH) are often not well scalable. When the number of sites (SNP’s) comes to thousands these tools often cannot deliver answer in reasonable time even if...
متن کاملMinimum Recombiant Haplotype Configuration on Tree Pedigrees
We study the problem of reconstructing haplotype configurations from genotypes on pedigree data under the Mendelian law of inheritance and the minimum recombination principle, which is very important for the construction of haplotype maps and genetic linkage/association analysis. Li and Jiang [9,10] recently proved that the Minimum Recombinant Haplotype Configuration (MRHC) problem is NP-hard, ...
متن کاملA Bayesian hierarchical model for detecting haplotype-haplotype and haplotype-environment interactions in genetic association studies.
OBJECTIVE Genetic association studies based on haplotypes are powerful in the discovery and characterization of the genetic basis of complex human diseases. However, statistical methods for detecting haplotype-haplotype and haplotype-environment interactions have not yet been fully developed owing to the difficulties encountered: large numbers of potential haplotypes and unknown haplotype pairs...
متن کاملWHAP: haplotype-based association analysis
UNLABELLED We describe a software tool to perform haplotype-based association analysis, for quantitative and qualitative traits, in population and family samples, using single nucleotide polymorphism or multiallelic marker data. A range of tests is offered: omnibus and haplotype-specific tests; prospective and retrospective likelihoods; covariates and moderators; sliding window analyses; permut...
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ژورنال
عنوان ژورنال: Journal of Human Genetics
سال: 2009
ISSN: 1434-5161,1435-232X
DOI: 10.1038/jhg.2009.85