SNP cherry picker: maximizing the chance of finding an association with a disease SNP | Zendy

Mark Harris | Zendy; Jeremy M. R. Martin | Zendy; John F. Peden | Zendy; Chris Rawlings | Zendy

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SNP cherry picker: maximizing the chance of finding an association with a disease SNP

Author(s) -

Mark Harris,

Jeremy M. R. Martin,

John F. Peden,

Chris Rawlings

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/btg258

Subject(s) - snp , genetic association , association (psychology) , genome wide association study , genetics , biology , tag snp , single nucleotide polymorphism , snp array , computational biology , genotype , gene , psychology , psychotherapist

The high cost of genotyping single nucleotide polymorphisms (SNPs) generally prohibits the systematic mapping of entire genetic linkage regions in order to find the polymorphisms associated with increased risk of disease. In practice, SNPs are selected at approximately equal spacing across the linkage region to try to locate a SNP lying in the haplotype block of the disease SNP. The size of the haplotype block may not be known, however, and SNPs taken from public domain sources may not in fact be polymorphic. Our program will choose a subset of the SNPs in a linkage region so as to maximize the expected proportion of the sequence that lies within a given distance of a real SNP.

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