Extended Data Fig. 8: Hi-C 3.0 performs similar to Micro-C. | Nature Methods

Extended Data Fig. 8: Hi-C 3.0 performs similar to Micro-C.

From: Systematic evaluation of chromosome conformation capture assays

Extended Data Fig. 8

a. Fragment size distributions from Fragment Analyzer for specified protocols. b. Cumulative distributions of fragmented DNA in HFF cells stratified for cross-linking agents (top row) or restriction enzymes (bottom row). Dashed lines in each of the panels represent expected fragment size distribution from in silico digestion of hg38 for enzymes indicated. Gray lines represent all data from all other enzymes (columns). c. Comparison of CTCF, SMC1, H3K4me3 and H3K27ac enrichments at loop anchors centered at open chromatin regions. Open chromatin regions (ATAC Seq) located within the anchor coordinates were used to center the average enrichments. Anchors were separated into sets detected by FA+DSG-DdeI+DpnII, FA+DSG-MNase or both. d. Percentage of cCREs and promoter-enhancer elements located at loop anchors specific to FA+DSG-DdeI+DpnII, FA+DSG-MNase or shared between them.

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