Extended Data Fig. 6: Identifying loops with scNanoHi-C. | Nature Methods

Extended Data Fig. 6: Identifying loops with scNanoHi-C.

From: scNanoHi-C: a single-cell long-read concatemer sequencing method to reveal high-order chromatin structures within individual cells

Extended Data Fig. 6: Identifying loops with scNanoHi-C.The alternative text for this image may have been generated using AI.

a. Information about the datasets used for detecting loops with SnapHiC and the number of detected loops in each dataset. b. Track view of WashU epigenome browser showing two representative clusters of loops around MIR155HG and RUNX3. From top to bottom are refGene and repeatMasker annotations, ChIP-seq signals of CTCF, H3K4me3, H3K27ac, and RAD21, loops identified from scNanoHi-C, cohesin HChIP (called with FitHiChIP), cohesin HiChIP (called with MAPS), H3K27ac HiChIP (called with FitHiChIP), H3K27ac HiChIP (called with MAPS) and in situ Hi-C (called with HiCCUPS). Super-enhancers were highlighted with orange shadows. c. Track view of WashU epigenome browser showing two representative clusters of loops around Sox2 and Nanog. From top to bottom are refGene and repeatMasker annotations, ChIP-seq signals of H3K4me1, H3K4me3, and H3K27ac, loops identified from scNanoHi-C, cohesin HChIP (called with FitHiChIP) and in situ Hi-C (called with HiCCUPS).

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