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Fig. 6 | Genome Biology

Fig. 6

From: High density methylation QTL analysis in human blood via next-generation sequencing of the methylated genomic DNA fraction

Fig. 6

Enrichment/depletion of local meQTLs in different chromatin states. Chromatin state classification used an 18 state model from the Roadmap Epigenomics Consortium [18] (http://egg2.wustl.edu/roadmap/web_portal/chr_state_learning.html#exp_18state) for peripheral blood cells. Testing was conducted via permutation and details (p values, test statistics, etc.) are provided in Table S6 in Additional file 1. a, b Enrichment for local meQTLs with and without CpG-SNPs, respectively. Effect direction is color-coded, with significant (q value < 0.01) enrichment (OR > 1) shown in red and depletion (OR < 1) shown in blue. Roadmap chromatin states are broadly categorized as active and inactive [18]. Active chromatin states are as follows: active transcription start site (TssA), flanking transcription start site (TssFlnk), upstream flanking transcription start site (TssFlnkU), downstream flanking transcription start site (TssFlnkD), strong transcription (Tx), weak transcription (TxWk), genic enhancer (EnhG1 and EnhG2), active enhancer (EnhA1 and EnhA2), weak enhancer (EnhWk), zinc finger genes and repeats (ZNF_Rpts). Inactive chromatin classes are as follows: heterochromatin (Het), bivalent/poised transcription start site (TssBiv), bivalent enhancer (EnhBiv), repressed polycomb (RepPC), weak repressed polycomb (RepPCWk), and quiescent (Quies)

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