HaploBlockFinder: haplotype block analyses | Zendy

Kun Zhang | Zendy; Jin Li | Zendy

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HaploBlockFinder: haplotype block analyses

Author(s) -

Kun Zhang,

Jin Li

Publication year - 2003

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btg142

Subject(s) - haplotype , block (permutation group theory) , linkage disequilibrium , computer science , linkage (software) , genetics , disequilibrium , biology , combinatorics , mathematics , genotype , gene , medicine , ophthalmology

Recent studies have unveiled discrete block-like structures of linkage disequilibrium (LD) in the human genome. We have developed a set of computer programs to analyze the block-like LD structures (haplotype blocks) based on haplotype data. Three definitions of haplotype block are supported, including minimal LD range, no historic recombination, and chromosome coverage. Tagged SNPs that uniquely distinguish common haplotypes are identified. A greedy algorithm was used to improve the efficiency. Two separate utilities were also provided to assist visual inspection of haplotype block structure and pattern of linkage disequilibrium.

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