T-bet binding at polymorphic sites.

A. Heat map showing T-bet occupancy around SNPs located within T-bet binding sites (T-bet hit-SNPs). Each row is centred on a single SNP, with T-bet binding shown across the genomic region stretching 2 kb up and downstream. Sequence reads (per million total reads) at each position are represented by colour, according to the scale on the left. Negative IgG ChIP-seq data are shown on the right at the same loci. B. T-bet binding at two example T-bet hit-SNPs. The number of sequencing reads from T-bet, IgG control and H3K27ac ChIP-enriched DNA are plotted per million input-subtracted total reads and aligned with the human genome. DNaseI hypersensitivity data (2 replicates) are from ENCODE. C. Left: Average number of ChIP-seq reads for H3K27ac and control total H3 in human Th1 cells plotted against the genomic distance from T-bet hit-SNPs or the complete set of GWAS SNPs plus those in high LD. Right: Average number of sequencing reads measuring DNaseI hypersensitivity plotted against genomic distance.