Left panel: heatmap of emission parameters of the ChromHMM model. Right panel: raincloud plot showing the log-transformed barcode expression in each ChromHMM-defined state. The reporter expression was extracted from both iPSC to iNeuron differentiation experiments (n = 4 for both iPSC and iNeuron groups) and the iPSC and iNeuron dCas9-VPR activation experiment (n = 2 for iPSC and n = 4 for iNeuron). The independently observed barcode number for each chromatin state: generic enhancer = 252, weak enhancer = 3,622, active enhancer = 1,336, flank TSS upstream = 2,268, strong transcription = 1,296, flank TSS downstream = 1,126, repressed-polycomb = 326, bivalent = 702, quiescent = 28,822, and ZNF genes and repeats = 248. The reporter expression in active chromatin states is significantly different from that in repressed states (Mann-Whitney, p < 0.0001).
