as Caucasian. Of the 397 samples we attempted to genotype, 13 failed the Illumina genotyping assay (overall call rate < 75%), resulting in a set of 384 genotyped samples carried forward for the expression analysis. In total, 652,648 SNPs were called, with only two SNPs rejected because the call rate was <75%. We then sequentially removed 94,915 SNPs with MAF <4% and 491 SNPs that deviated from the Hardy-Weinberg equilibrium (p < 10−4). The resulting set of 557,240 SNPs was used to carry out tests for association to the liver gene expression traits in the HLC.
