Fig. 2: Dynamics of chromatin accessibility during fibrogenesis.

a The stack bar plot showing the differentially accessible peaks (DAPs) for cells cultured on different matrices for two or four days. b Genomic feature annotation of differentially accessible ATAC-seq peaks. c Analysis of unique or shared clusters of open chromatin regions. Heatmap shows ATAC-seq signals for unique and shared peak groups and adjacent gene RNA-seq patterns for echo groups (left panel). The marker genes and top GO terms for each cluster are listed on the right (right panel). d Normalized ATAC-seq signal profiles of primed chromatin loci in COL8A1, ACTG2, ITGB2 from cells on the soft or stiff matrix, shown together with a normalized RNA-seq profile by the sequencing depth. The transcription start site of each gene is marked by yellow box. e Cartoon model showing that changes in primed chromatin accessibility foreshadow changes in gene expression.