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LDlink

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 by Mitchell J. Machiela

Description

LDlink is a web-based collection of bioinformatic modules that query single nucleotide polymorphisms (SNPs) and small insertions and deletions (indels) in population groups of interest to generate haplotype tables and interactive plots. Modules are designed with an emphasis on ease of use, query flexibility, and interactive visualization of results. Phase 3 haplotype data from the 1000 Genomes Project are referenced for calculating pairwise metrics of LD, searching for proxies in high LD, and enumerating all observed haplotypes. LDlink is tailored for investigators interested in mapping common and uncommon disease susceptibility loci by focusing on output linking correlated alleles and highlighting putative functional variants.

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