title: Using PLINK for Genome-Wide Association Studies (GWAS) and data analysis.
abstract: Within this chapter we introduce the basic PLINK functions for reading in data, applying quality control, and running association analyses. Three worked examples are provided to illustrate: data management and assessment of population substructure, association analysis of a quantitative trait, and qualitative or case-control association analyses.
authors.affiliation: Queensland Institute of Medical Research, Brisbane, QLD, Australia.
authors.forename: Miguel E
authors.initials: ME
authors.lastname: Rentería
authors.forename: Adrian
authors.initials: A
authors.lastname: Cortes
authors.forename: Sarah E
authors.initials: SE
authors.lastname: Medland
mesh_terms: D000818:Animals; D016022:Case-Control Studies; D055106:Genome-Wide Association Study / Q000706:statistics & numerical data*; D005838:Genotype; D060148:HapMap Project; D006801:Humans; D056186:Metagenomics; D015233:Models, Statistical; D010641:Phenotype; D011786:Quality Control; D019655:Quantitative Trait, Heritable; D012107:Research Design; D012984:Software