Supplementary Figure 9: Cell-type-specificity and coverage of the cis elements.

a–c Graphs illustrate cell-type specificity of genomic elements as measured by Shannon entropy based on normalized read counts for each cell-type and percentage of nuclei in which a genomic element was called accessible as indicated by presence of at least 1 read overlapping with the element a peak. Analysis was performed for the adult forebrain (P56) against a TSS-proximal genomic elements (TSS - 2kb), b distal elements and c the subset of genomic elements that separated two cell clusters. d Violin plots illustrate higher cell-type specificity for distal elements compared to proximal elements indicated by significantly lower Shannon entropy value (p < 2.2e-16). In addition, all genomic elements that separate two clusters as well as subsets identified from k-means clustering of genomic elements depending on chromatin accessibility in adult forebrain are displayed (related to Fig. 2e). (all proximal peaks n = 14,262 (minimum/median/maximum; 0/1.96/2.08), all distal peaks n = 140,102 (0/1.38/2.08), all differentially accessible peaks n = 4,980 (0.07/1.4/2.06), K1 n = 529 (0.08/1.49/2.06), K2 n = 586 (0.14/1.13/2.04), K3 n = 737 (0.07/1.18/2.05), K4 n = 270 (0.33/1.55/2.01), K5 n = 601 (0.74/1.43/2.05), K6 n = 513 (0.28/1.48/2.05), K7 n = 538 (1.19/1.64/2.02), K8 n = 490 (0.13/1.28/2.05), K9 n = 282 (0.73/1.65/2.02), K10 n = 434 (0.32/1.42/2.04). TSS: transcriptional start site.