title: Using Fisher's method with PLINK 'LD clumped' output to compare SNP effects across Genome-wide Association Study (GWAS) datasets.
abstract: As the number of publically available GWAS datasets continues to grow, bioinformatic tools which enable routine manipulation of data are becoming increasingly useful. Meta-analysis using multiple GWAS datasets has become essential to elucidate novel SNP associations which may not be readily discovered in each GWAS individually due to insufficient power. Replication of GWAS findings is critical and is the 'arbiter' of genuine SNP associations. We have developed an 'LD aware' bioinformatics application which allows efficient comparison of SNP effects across multiple GWAS datasets using Fisher's combined probability test from PLINK (v1.06) 'LD clumped' output.
  
  
  BACKGROUND
  the application is freely available from the authors.
authors.affiliation: Human Genetics, School of Molecular Medical Sciences, Queens Medical Centre, University of Nottingham Nottingham NG7 2UH, UK.
authors.forename: Hui
authors.initials: H
authors.lastname: Shi
authors.forename: Christopher
authors.initials: C
authors.lastname: Medway
authors.forename: Kristelle
authors.initials: K
authors.lastname: Brown
authors.forename: Noor
authors.initials: N
authors.lastname: Kalsheker
authors.forename: Kevin
authors.initials: K
authors.lastname: Morgan