Genome Wide Association Studies

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Some people in our group work on genome wide association studies (GWAS).

Contents

Introductory reading

For an introduction to GWAS, with an emphasis on human studies, you could start with a nice tutorial article [1], and a review of more recent issues [2]. There is also a nice review about approaches for rodent studies [3].

Statistical Methodology

An important and widely used approach to dealing with cryptic population structure [4], and key references on genotype imputation [5][6].

A powerful approach to deal with strain structure or relatedness between individuals [7].

Software

Many statistical methods are implemented in PLINK.

More sophisticated model based genotype imputation and association testing can be performed using IMPUTE and SNPTEST, or MACH and ProbABEL, or BimBam.

Our own software for association testing using uncertain genotypes is QUICKTEST.

References

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  1. Error fetching PMID 16983374: [BaldingTutorial]
  2. Error fetching PMID 18398418: [McCarthyReview]
  3. Error fetching PMID 15803197: [FlintReview]
  4. Error fetching PMID 16862161: [PricePC]
  5. Error fetching PMID 17676998: [ServinImputation]
  6. Error fetching PMID 17572673: [MarchiniImputation]
  7. Error fetching PMID 18385116: [KangEmma]
All Medline abstracts: PubMed HubMed