Extended Data Fig. 2: Characterization of ChAIR data.
(a) Percentage of ChAIR-RNA reads that were mapped to exon, intron, and intergenic regions and metagene profiles (reads per kilobase per million mapped reads, RPKM) in K562 (top) and Patski cells (bottom) in reference with bulk RNA-seq data. (b) Signal enrichment of ChAIR-ATAC data, 10x ATAC, ChIATAC, bulk ATAC-seq, and sci-Hi-C data in K562 (top) and Patski (bottom) cells, at ATAC peak (left) and TSS sites (right). (c) Categories of ChromHMM defined chromatin states for open chromatin loci identified by bulk ATAC-seq data (n = 176,891) (left) and ChAIR-ATAC data (n = 201,540) (right) in K562. (d) Categories of ChromHMM defined chromatin states for chromatin loops in ChIATAC (n = 37,579) (left) and ChAIR-PET data (n = 232,988) (right). (e) Chromatin contact distance distribution of chromatin loops with different interaction frequencies in ChIATAC and ChAIR-PET data in K562 and Patski cells.
