Extended Data Fig. 6: Cell-type level differences in chromatin conformation of subcutaneous adipose tissue (SAT).

a-b, Uniform manifold approximation and projection (UMAP) visualization of low dimensional embeddings of cells using compartments (a) and insulation scores (d) as features, colored by the snm3C-seq annotation. Adjusted rand index (ARI) evaluates the clustering concordance against the snm3C-seq annotation. c, Heatmap visualization of the normalized interaction contact map on chromosome 6 and its corresponding compartment scores across the SAT cell-types. d, Box plots visualizing the distributions of the number of consecutive 100-kb bins within segments that exhibit consistent A or B compartment annotations, stratified by the SAT cell-types. Lone compartments (that is, singular bins, the annotation of which differs from the ones of both neighbors) are excluded. The center of the box represents the median; the bounds of the box indicate the 25% and 75% percentiles, while the whiskers show the minimum and maximum values within 1.5 times the interquartile range. *Indicates unadjusted –log10P=25, one-tailed Wilcoxon rank-sum test between the two groups marked by the horizontal line: consistent compartment segments in adipocytes, ASPCs, and perivascular cells (n = 2,890) versus those in myeloid and endothelial cells (n = 2,891). e, Horizontal stacked bar plot (left) showing the marginal proportions of differential 100-kb bins stratified by their annotated A and B compartments in the 5 most abundant SAT cell-types and upset plot (right) showing all compartment combinations across differential 100-kb bins in decreasing order with their corresponding percentages. The vertical dotted line separates the following three major categories: ‘Homogeneous’, ‘Cell-type Enriched’, and ‘Heterogeneous’, which correspond to unique A or B compartments in 0, 1, or more than 1 cell-type, respectively. f, Sankey diagram breaking down the numbers of differential 100-kb bins annotated as A (red) and B (blue) compartments belonging to ASPCs (left), adipocytes (middle), and myeloid cells (right). g, Similar to (f), except on perivascular cells (left), adipocytes (middle), and endothelial cells (right). ASPC, adipose stem and progenitor cell.