Haplo2Ped: a tool using haplotypes as markers for linkage analysis.

ABSTRACT:

Background

Generally, SNPs are abundant in the genome; however, they display low power in linkage analysis because of their limited heterozygosity. Haplotype markers, on the other hand, which are composed of many SNPs, greatly increase heterozygosity and have superiority in linkage statistics.

Results

Here we developed Haplo2Ped to automatically transform SNP data into haplotype markers and then to compute the logarithm (base 10) of odds (LOD) scores of regional haplotypes that are homozygous within the disease co-segregation haploid group. The results are reported as a hypertext file and a 3D figure to help users to obtain the candidate linkage regions. The hypertext file contains parameters of the disease linked regions, candidate genes, and their links to public databases

SUBMITTER: Cheng F 

PROVIDER: S-EPMC3179971 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature