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. 2015 Jul 6;10(7):e0132039. doi: 10.1371/journal.pone.0132039

Fig 2. Detected gene networks (A) Gene networks based on coexpression conservation.

Fig 2

We generated networks with 3,776 genes. The largest gene network contained 2,717 genes. Genes (nodes) were colored when they were a member of the top 20 largest modules with SCS = 4. Gray nodes were parts of some smaller modules, and black nodes were not parts of any modules. We prepared this picture of the network with Cytoscape ([31]). (B) The largest gene modules with SCS = 3 and the large modules with SCS = 5 are colored. This module has the representative term “immune system process”, but not all of the sub-modules with SCS = 5 have immune-related GO terms, as discussed in the text. (C) The gene network without a turning point. Since some gene networks had high coexpression conservation, no flat region was found. We used 100 instead of a turning point, because turning points cannot be defined for these genes. This network was generated from these highly conserved genes.