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. 2021 Jan 4;12:41. doi: 10.1038/s41467-020-20292-z

Fig. 1. ORBITA-processed Hi-C data from single Drosophila nuclei.

Fig. 1

a Single-nucleus Hi-C protocol scheme (see “Methods” for details). b Workflow of ORBITA function for detection of unique Hi-C contacts. ORBITA processes only chimeric reads with good mapping quality containing ligation junction marked by the cleavage site for restriction enzyme used for the snHi-C map construction. c Scheme of an artefactual DNA chimera formation by Phi29-DNA-polymerase. d Number of unique contacts per restriction fragment (RF) captured by ORBITA (orange) and hiclib (blue) for autosomes and the X chromosome. BG3 is a diploid male cell line; accordingly, in a single nucleus, each RF from autosomes and the X chromosome could establish no more than four and two unique contacts, respectively. Cell 1, autosomes: n = 148,415 and 159,060 for ORBITA and hiclib, respectively; ChrX: n = 22,016 and 26,674 for ORBITA and hiclib, respectively. Cell 2: autosomes: n = 113,988 and 119,066 for ORBITA and hiclib, respectively; ChrX: n = 16,384 and 19,429 for ORBITA and hiclib, respectively. e Visualization of a single-nucleus Hi-C map at 1-Mb, 100-kb, and 10-kb resolution for the cell with 107,823 captured unique contacts. f Dependence of the contact probability Pc(s) on the genomic distance s for single nuclei (shades of blue reflect the number of unique contacts captured in individual nuclei), merged snHi-C data (orange), and bulk in situ BG3 Hi-C data (red). Black lines show slopes for Pc(s) = s−1.5 and Pc(s) = s−1.