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General

Heritability in the genomics era — concepts and misconceptions. Peter M. Visscher, William G. Hill & Naomi R. Wray doi:10.1038/nrg2322 http://www.nature.com/nrg/journal/v9/n4/pdf/nrg2322.pdf
Clarke GM, Anderson CA, Pettersson FH, Cardon LR, Morris AP, Zondervan KT. Basic statistical analysis in genetic case-control studies. Nat Protoc. 2011 Feb;6(2):121-33 https://www.ncbi.nlm.nih.gov/pubmed/21293453
Genetic Mapping in Human Disease David Altshuler,1,2,3,4,5* Mark J. Daly,1,2,5* Eric S. Lander1,6,7,8* https://www.ncbi.nlm.nih.gov/pubmed/18988837

Association:

Risch and Merikangas Science 1996 The future of genetic studies of complex disease http://www.ncbi.nlm.nih.gov/pubmed/8801636
Sham et al. AJHG 2000 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1378020/pdf/10762547.pdf
Medland SE, Neale, M.C.. (2009). An Integrated Phenomic Approach to Multivariate Allelic Association. European Journal of Human Genetics.Aug. 26. [http://www.vipbg.vcu.edu/vipbg/Articles/EJHG-2009-0826_IntPhenAppMultiAA.pdf]

Anderson et al. Nature Protocols 2010 http://www.ncbi.nlm.nih.gov/pubmed/21085122
Neale and Purcell AJMG-B 2008 http://www.ncbi.nlm.nih.gov/pubmed/18500721
Purcell et al. 2007 AJHG http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950838/?rendertype=abstract
[also plink website: http://pngu.mgh.harvard.edu/~purcell/plink/]
Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. https://www.ncbi.nlm.nih.gov/pubmed/17554300
Genome-wide association studies for complex traits: consensus, uncertainty and challenges. https://www.ncbi.nlm.nih.gov/pubmed?term=PMID%3A%2018398418
overview of what is GWAS Manolio TA. Genomewide association studies and assessment of the risk of disease. N Engl J Med. 2010 Jul 8;363(2):166-76. http://www.nejm.org/doi/pdf/10.1056/NEJMra0905980
Psychiatric GWAS Consortium Coordinating Committee, Cichon S, Craddock N, Daly M, Faraone SV, Gejman PV, Kelsoe J, Lehner T, Levinson DF, Moran A, Sklar P, Sullivan PF. Genomewide association studies: history, rationale, and prospects for psychiatric disorders. Am J Psychiatry. 2009 May;166(5):540-56. Epub 2009 Apr 1. http://ajp.psychiatryonline.org/cgi/reprint/166/5/540

DePristo et al. 2011 Nat. Genet. http://www.ncbi.nlm.nih.gov/pubmed/21478889
1KG 2011 Nature Genetics http://www.ncbi.nlm.nih.gov/pubmed/23128226
Lander ES. Initial impact of the sequencing of the human genome. Nature. 2011 Feb 10;470(7333):187-97. http://www.nature.com/nature/journal/v470/n7333/pdf/nature09792.pdf