Fig. 1
From: Reconstructing high-resolution chromosome three-dimensional structures by Hi-C complex networks
a An illustration of Hi-C contacts between two beads i and j with smaller αHiCNet parameter (longer wish distance). Notice that there is always an edge connecting nodes i and j as we only model the bead pairs that have non-zero number of Hi-C contacts. Therefore, beads i and j are immediate neighbors of each other. b An illustration of Hi-C contacts between two beads i and j with larger αHiCNet parameters (smaller wish distance). Using node j as an example, previously there was no edge connecting nodes 5 and i, both of which are the immediate neighbors of j. However, in b nodes 5 and i are connected; nodes 4 and i are connected; and nodes 6 and i are connected. This results in a higher clustering coefficient for node j, similarly if observing from the perspective of node i (nodes j and 1 are connected; and nodes j and 3 are connected, increasing the clustering coefficient of node i). Therefore, both nodes i and j will have a higher tendency to be closer in case b compared with case a