Overlap of conserved cochlear non- epithelial open chromatin regions and other cell types from ROADMAP.

We predicted genomic regions that may be involved in gene regulation in the human cochlea based on homology to regions of open chromatin that we identified in non-epithelial cells from mouse cochlea. To evaluate whether these human genomic regions correspond to true gene regulatory regions, we tested for overlap with chromatin states in 111 human tissues and cell types from the ROADMAP Epigenome Mapping Consortium. Enrichment is indicated within each chromatin state from a 25-state ChromHMM model, as column headings: 1_TssA = Active TSS; 2_PromU = Promoter Upstream TSS; 3_PromD1 = Promoter Downstream TSS 1; 4_PromD2 = Promoter Downstream TSS 2; 5_Tx5 = Transcribed -5’ preferential; 6_Tx = Strong transcription; 7_Tx3 = Transcribed– 3’ preferential; 8_TxWk = Weak transcription; 9_TxReg = Transcribed and regulatory (Prom/Enh); 10_TxEnh5 = Transcribed 5’ preferential and Enh; 11_TxEnh3 = Transcribed 3’ preferential and Enh; 12_TxEnhW = Transcribed and Weak Enhancer; 13_EnhA1 = Active Enhancer 1; 14_EnhA2 = Active Enhancer 2; 15_EnhAF = Active Enhancer Flank; 16_EnhW1 = Weak Enhancer 1; 17_EnhW2 = Weak Enhancer 2; 18_EnhAc = Primary H3K27ac possible Enhancer; 19_DNase = Primary DNase; 20_ZNF_Rpts = ZNF genes & repeats; 21_Het = Heterochromatin; 22_PromP = Poised Promoter; 23_PromBiv = Bivalent Promoter; 24_ReprPc = Repressed Polycomb; 25_Quies = Quiescent/Low.
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