ArticleBiochemical genetics2011
Simulating linkage disequilibrium structures in a human population for SNP association studies.
Article in Biochemical genetics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- SimBA: simulation algorithm to fit extant-population distributions.BMC bioinformatics · 2015Article
- Inferring coancestry in population samples in the presence of linkage disequilibrium.Genetics · 2012Article
- Comparative analysis of methods for identifying recurrent copy number alterations in cancer.PloS one · 2012Article
- Comparative analysis of methods for detecting interacting loci.BMC genomics · 2011Article
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Authors and funding
3 authors.
Funding
Abstract
Existing simulation methods usually simulate linkage disequilibrium (LD) structures starting with an initial population that is randomly generated according to specified allele frequencies. These at random based methods might be unstable because the LD level of the initial population is generally extremely low. This study presents a new algorithm, SIMLD, to simulate genome populations with real LD structures. SIMLD begins from an initial population with possibly the highest LD level, and then the LD decays to fit the desired level through processes of mating and recombination over generations. SIMLD can produce case-control samples according to various disease models. Using empirical SNP marker information from three populations of HapMap data, we implement the proposed algorithm and demonstrate a set of experimental results.
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