Fig. 1: Development of scMicro-C.
a, Schematic of the scMicro-C procedure. b, Chromatin length distribution to compare the ligation efficiency between SDS treatment and the original Micro-C protocol. Data generated by the capillary electrogram. c, Violin plot to compare the contact number between SDS treatment and original protocol (SDS, n = 22; original, n = 33). The box middle line represents the median value, the box limits the 25% and 75% quantiles, and the whiskers show the minimum and maximum. d, The chromatin length distribution depicts the degree of digestion resulting from MNase titration. e,f, Comparison among scMicro-C with different MNase titration and Dip-C, showing the percentage of reads containing contacts (e); the horizontal line and the box represent the median and quartiles, respectively (bottom). The whiskers indicate minima and maxima (e) and a downsample plot depicting the relationship between the number of reads and the number of unique contacts (f). The line indicates the median value, and the shadow indicates the 95% confidence interval. (f). 200U, n = 96; 600U, n = 96; 800U, n = 96; 1,000U, n = 96 and Dip-C, n = 17. g, Pile-up results of chromatin loops (bulk Micro-C detected loop set, n = 45,174) for four MNase titration groups. h, Normalized nucleosome occupancy around CTCF binding sites (left) and active TSS (right) of five scMicro-C datasets. i, Two-dimensional histograms to show the correlation of A/B compartment values at 100-kb resolution (left) and insulation scores at 10-kb resolution (right) between ensemble scMicro-C and bulk Micro-C. j, Contact maps of ensemble scMicro-C (top left) and bulk Micro-C (bottom right) at 500 kb, 50 kb, 5 kb and 1 kb from left to right to show the compartments, TADs and chromatin loops, respectively. TADs, topologically associating domains.
