Functional elements were inspected in GC eQTL region using ChIP-seq (H3K27ac and H3K4me3) and ATAC-seq data. The GC CNV genotype of the ATAC-seq sample was Mul/Mul (inferred based on CNV tagging SNP genotypes and read-depth increase in WGS data). The GC CNV genotype of the ChIP-seq sample was unknown ( S9 Table ).(A) The GC eQTL region was zoomed in. In this region, GC is the only annotated gene. The GC CNV is marked with the translucent blue, and CM resistance candidate SNPs reported by other studies [ 13 , 14 ] are marked with translucent yellow. Other significant eQTL lead SNPs in this region are marked with translucent pink. We overlaid ChIP-seq data to identify putative enhancers and promoters (ChIP-seq tracks; red). Furthermore, liver ATAC-seq data revealed highly accessible chromatin regions, supporting the regulatory elements discovered by ChIP-seq data sets (ATAC-seq tracks; blue). (B) We further zoomed in to the ATAC peak within the GC CNV, and discovered that the ATAC peak overlaps with MER 115. The predicted hepatic transcription factor binding sites are marked with translucent grey. (C) Transcription factor binding motifs are shown together with the ATAC signal located inside the GC CNV.