Fig. 2: Compartment A weakening by SARS-CoV-2.
a, P(s) curve showing the relationship between contact frequency (P) and distance (s) of mock, SARS-CoV-2, HI-WA1 (heat-inactivated SARS-CoV-2), HCoV-OC43 and poly (I:C) Hi-C datasets. b, log2 fold changes (FC) of P(s) curves showing the differences in Hi-C contacts between SARS-CoV-2/Mock, HI-WA1/Mock, HCoV-OC43/Mock or poly(I:C)/Mock. c, A scatterplot showing the compartmental E1 scores of genome-wide 100 kb bins in mock or SARS-CoV-2-infected cells. Six categories of bins based on E1 changes were coloured-coded. d, A snapshot of PCA E1 tracks at an example region (chr9: 108–118 Mb). Rep1/Rep2 are replicates. Orange or blue indicates A (E1 score >0) or B compartment (E1 score <0), respectively. Arrows and arrowheads exemplify regions with compartmental changes (with colours matching a). e, A diagram showing the categories of bins with changes in A/B compartmental scores, which are referred to as ‘A-ing’ (E1 scores increase) or ‘B-ing’ (E1 scores decrease) after virus infection. f, Heatmaps showing enrichment of histone marks or RNA Pol2 (RPB1) on the six categories of genomic bins defined in e, which signifies their epigenomic features over the genome background. Scale indicates log2-transformed fold enrichment.
