Using data from ten of the largest studies, we tested the association between the tails of height, BMI and WHR and haplotypes across each established and novel locus separately for males and females within each study, using GENEBPM.49 The haplotypes were estimated from GWAS SNP data by means of an expectation-maximization algorithm and then clustered according to their allelic similarity. Within a logistic regression-modelling framework, haplotypes within the same cluster were assigned the same allelic effect, reducing the required number of parameters. Markov-chain Monte Carlo techniques were employed to sample over the space of haplotype clusters and regression model parameters. Evidence in favour of a haplotype association with the trait was assessed by summing log10 Bayes factors across studies.
