We downloaded chromatin states from the Roadmap Epigenomics Project. The 15 chromatin states were generated from 5 chromatin marks in DLPFC of a cognitively non-impaired MAP subject with minimal pathology as part of the Roadmap Epigenomics Consortium27. A ChromHMM model applicable to brain epigenome was learned by virtually concatenating consolidated data corresponding to the core set of 5 chromatin marks assayed (H3K4me3, H3K4me1, H3K36me3, H3K27me3, H3K9me3). BED files downloaded from Washington University in St. Louis Roadmap Epigenome Browser. To test for enrichment for sQTLs among the 15 chromatin states, we used GREGOR66 to evaluate global enrichment of trait-associated variants in splicing factor binding sites.
