Genome Wide Association Studies

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(New page: Some people in our group work on genome wide association studies. A good introduction to the statistical methods used is the tutorial by David Balding <cite>BaldingTutorial</cite> <bibli...)
 
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Some people in our group work on genome wide association studies.
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Some people in our group work on genome wide association studies (GWAS).
  
A good introduction to the statistical methods used is the tutorial by David Balding <cite>BaldingTutorial</cite>
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== Recommended reading ==
 +
 
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For an introduction to GWAS, with an emphasis on human studies, you could start with a nice tutorial article <cite>BaldingTutorial</cite>, and a review of more recent issues <cite>McCarthyReview</cite>.  There is also a nice review about approaches for rodent studies <cite>FlintReview</cite>.
 +
 
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== Statistical Methodology ==
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== Software ==
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Many statistical methods are implemented in
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[http://pngu.mgh.harvard.edu/~purcell/plink PLINK].
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More sophisticated model based genotype imputation and association testing can be performed using
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[http://www.stats.ox.ac.uk/%7Emarchini/software/gwas/gwas.html IMPUTE and SNPTEST],
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or using
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[http://www.sph.umich.edu/csg/abecasis/mach MACH] and
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[http://mga.bionet.nsc.ru/%7Eyurii/ABEL/] ProbABEL.
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Our own software for association testing using uncertain genotypes is
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[http://toby.freeshell.org/software/quicktest.shtml QUICKTEST].
  
 
<biblio>
 
<biblio>
 
# BaldingTutorial pmid=16983374
 
# BaldingTutorial pmid=16983374
 +
# McCarthyReview pmid=18398418
 
</biblio>
 
</biblio>

Revision as of 15:46, 5 February 2009

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

Recommended 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

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 using MACH and [1] ProbABEL.

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

Error fetching PMID 16983374:
Error fetching PMID 18398418:
  1. Error fetching PMID 16983374: [BaldingTutorial]
  2. Error fetching PMID 18398418: [McCarthyReview]
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