Figure 3.

Analysis of cis-regulatory topics. (A) Jaccard metric for overlap of cis-regulatory topics and cell type-specific marker peaks. (B) Top-enriched de novo discovered motifs in cis-regulatory topics. (C) Normalized enrichment of cis-regulatory topics in genomic segments, as estimated using cisTopic. (D) Intersection of the Mon IFI30 specific up/downregulated marker peaks with topic 8. We found that topic 8 strongly overlapped with upregulated but not downregulated marker peaks. We also assigned scATAC-seq peaks and topic 8 loci to the closest genes and found a high overlap with marker genes of the Mon IFI30 cell state. (E) Enrichment of the Reactome pathways based on the assignment of topic cis-regulatory regions to genes. Colorbars show the −log(p.adjusted).