Fig. 6

ChIP-qPCR for modified histone marks H3K4me1 and H3K27ac in 9q31.2. a Enhancer peaks defined by H3K27ac binding in ENCODE NHEK data were targeted in HaCaT cells (blue columns) and My-La cells (red columns). b Enhancer peaks were targeted in unstimulated (blue) and stimulated (red) HaCaT cells. The graphs show the mean ChIP enrichment of triplicate ChIP libraries ± SD, and samples with no antibody are consistently included for comparison, although they are often too low to be visible. To identify differential ChIP enrichment, 2-way ANOVA tests were performed in GraphPad prism using Sidak’s multiple comparisons test. Asterisks denote adjusted P < 0.05. c Allele-specific ChIP-qPCR for H3K27ac and H3K4me1 at rs6477612 in NHEK cells. Chromatin from two separate pools of NHEK cells, each comprising cells from three individual donors, was immunoprecipitated with H3K27ac (27 ac), H3K4me1 (me1) or non-specific IgG antibody (IgG), and qPCR was conducted using a TaqMan genotyping assay for rs6477612 detecting C (risk) or T (protective) alleles. Percentage ChIP enrichment was calculated by comparing the signal for each allele in the immunoprecipitated DNA with the signal for each allele in the input DNA for each of the two samples