Extended Data Fig. 4: Comparisons between scNanoHi-C and scSPRITE.
a. Distribution of cardinality at concatemer/cluster levels (left) and monomer/read levels (right) in scNanoHi-C (top) and scSPRITE (bottom), respectively. b. Distribution of cardinality at the cluster (left) and read (right) levels in single cells of scNanoHi-C (top) and scSPRITE (bottom). Cells were ordered by the number of contacts and clusters for scNanoHi-C and scSPRITE, respectively. Clusters or reads were grouped by their cardinality. c. The decay of normalized contacts probability as a function of genomic distance separation for single cells in scNanoHi-C and scSPRITE. Contacts from each cell were grouped by their cardinality, the lines and shadows represent the mean and 25% to 75% quantiles of normalized contacts probability among all cells, respectively. The black line represents the result of bulk in situ Hi-C. d. The ratio of trans-chromosomal contacts (trans-ratio) in single cells of scNanoHi-C and scSPRITE (left). The trans-ratios of scSPRITE were further calculated by each cardinality group (right). The n = 1,000, 288 and 288 biologically independent cells for scSPRITE, medium- and low-depth scNanoHi-C, respectively. The central lines of boxplots are the median of data. The lower and upper hinges correspond to the 25th and 75th percentiles. The end of the lower and upper whiskers are 1.5 * IQR (inter-quartile range). e. Aggregate peak analysis (APA) for mESC of bulk in situ HiC (top), scSPRITE (middle) and scNanoHi-C (bottom) within 100 kb on either side of loop anchors identified from bulk Hi-C. Contacts of scSPRITE and scNanoHi-C were merged according their cardinality. The number on the upper left corner represents the enrichment score of contacts in the central pixel.
