Fig. 4.

AD SNPs with eQTL effects are often located at protein-binding sites. a, b Cumulative bar graph of the chromatin state across 127 tissues or cell types (upper panel) and ChIP-seq tracks (bottom panel) around rs1476679 (a) and rs7364180 (b). Three representative chromatin state groups of the cumulative bar graph are depicted according to the color legend. The chromatin state names are shown in parentheses (see details in Methods). Details of all 25 chromatin state names are described in Additional file 1: TableS3. Grey bars in ChIP-seq tracks represent peak clusters of transcription factor (TF) occupancy. The color intensity of the bars is proportional to the level of TF occupancy. Green bars represent motif sites for the corresponding TFs. These ChIP-seq tracks were generated from the UCSC genome browser (https://genome.ucsc.edu/). c A schematic representation of a chromatin loop based on CTCF binding