Fig. 4
From: ChromNet: Learning the human chromatin network from all ENCODE ChIP-seq data
a Left: RAD21, MXI1, and SMC3 co-localize with one another, suggesting that they may all interact with each other. Right: ChromNet reveals that the co-localization of RAD21 and MXI1 was largely mediated by the presence of SMC3. b GroupGM overcomes edge instability between tight clusters of H3K27me3 (blue) and H3K4me3 (red) data sets in H7-hESC measured at different differentiation time points. Edge darkness indicates the strength of the connection; dashed lines indicate negative interactions. We have removed within-group edges for clarity. Left: Correlation. Middle: Inverse correlation. Right: GroupGM. c The part of the ChromNet network that interacts with EZH2 in H1-hESC embryonic stem cells. This is a screen capture from our web interface with a search for “EZH2 H1-hESC.” Shaded regions represent the GroupGM groups learned by hierarchical clustering; darker regions represent tighter clusters. We set the edge threshold to capture the six strongest edges connected to EZH2