HAPGEN2: simulation of multiple disease SNPs | Zendy

Zhan Su | Zendy; Jonathan Marchini | Zendy; Peter Donnelly | Zendy

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HAPGEN2: simulation of multiple disease SNPs

Author(s) -

Zhan Su,

Jonathan Marchini,

Peter Donnelly

Publication year - 2011

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/btr341

Subject(s) - resampling , computer science , genome wide association study , linkage disequilibrium , chromosome , software , permutation (music) , data mining , single nucleotide polymorphism , genetic association , computational biology , algorithm , biology , genetics , genotype , acoustics , gene , programming language , physics

Performing experiments with simulated data is an inexpensive approach to evaluating competing experimental designs and analysis methods in genome-wide association studies. Simulation based on resampling known haplotypes is fast and efficient and can produce samples with patterns of linkage disequilibrium (LD), which mimic those in real data. However, the inability of current methods to simulate multiple nearby disease SNPs on the same chromosome can limit their application.

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