Mapping the semi-nested community structure of 3D chromosome contact networks
Fig 6
Chromatin type and cross-scale nestedness between community pairs in chromosome 10.
(a, left) Each chromatin cross pair (AB, AC, AD, etc.) has three community types. For example, these may enrich A (“Promoters”), B (“Enhancers”), or A and B. The large dashed circles represent the Venn diagram of all A or B community types (small filled circles). The set illustrates that one community can be in one of three categories: enriched with A (upper), B (lower), or both (intersection). (a, right) Schematic illustrating the color codes used in the nestedness histograms associated: complete overlap (dark blue), the difference (dark red), and the intersection (light blue). In pale blue, we indicate the chromosome-wide average of chromosome 10. (b) Nestedness distributions (Nij) for 10 combinations of chromatin types A–D. The diagonal panels show the nestedness histograms for community pairs belonging to the same chromatin type (AA, BB, etc.). The off-diagonal panels show the other six paired combinations (AB, AC, AD, etc.); see panel (a) for detailed descriptions. The faint pale blue background in all histograms portrays the complete nestedness histogram from chromosome 10 (like Fig 4).