Fig. 3

Weighted gene co-expression network analysis (WGCNA). a Module conservation. Modules above red line (Zsummary >10) were highly preserved, above blue line (Zsummary >2) were moderately preserved. b Co-expression connections in the black module. The connections are simplified to highlight 6 hub genes (Dnmt1, Tacc3, Ptma, Mcm6, H2afx and Rrm1) with annotation in KEGG pathways. For visualization purpose, only strong connections with topological overlap above a threshold of 0.2 are shown. c Module egigengene trajectories (the first principal component, PC1). Red lines are tumor, blue lines are control. Generally, genes in black module increased expression in tumors, and genes in other modules decreased expression