Fig. 4: Multiway contact reads span multiple compartments, TADs, and loops.
a Schematic diagram showing how three types of contact distances were calculated: 1. the longest genomic distance covered by fragments in a read; 2. genomic distances between pairs of adjacent fragments in a read; and 3. genomic distances between pairs of nonadjacent fragments in a read. b Cumulative frequency of different types of paired fragments against genomic distance for HiPore-C and Hi-C data. c, Decaying curves of different types of paired fragments in HiPore-C and Hi-C data. d Frequencies of different types of paired fragments normalized against those of Hi-C data over continuous genomic distance. e Violin plots showing the size distribution of chromatin loops, TADs, and compartments. Total of 9448 loops, 9274 TADs and 2909 compartments were identified14. The average size of each structural unit was shown. The center dot, median; boxes, first and third quartiles; whiskers, 5th and 95th percentiles. f An exemplary region showing multiway contact reads spanning three loop anchors (bin size is 25 kb). The top panel shows the loop interaction arcs. Reads covering different numbers of loop anchors are shown separately in each panel. Read numbers are shown in each panel. g An exemplary region showing multiway contact reads spanning multiple TADs (bin size is 10 kb). Colored fragments correspond to the TADs in which they are located. Fragments outside the analyzed region (Chr2: 98.58-99.37 Mb) are marked in black. Reads spanning different numbers of TADs, and the corresponding number of reads are shown separately in each panel. h An exemplary region showing multiway contact reads spanning multiple compartments (bin size is 10 kb). Colored fragments and reads correspond to the type of compartment in which they are located. Fragments outside the analyzed region (Chr14: 53.83-60.53 Mb) are marked in black. Reads spanning the compartments, and the corresponding numbers of reads are separately grouped and shown in each panel.
