Across all 25 identified modules, there are 9 and 8 unique GS and BC entities, respectively.
We identified modules of highly coexpressed genes, some of which are restricted to a single lineage but most of which are expressed at variable levels across multiple lineages.
We identified modules of co-expressed genes in Cytoscape 2.5.1 [29] using the organic clustering algorithm.
The results indicate that all the identified modules have significant high expression coherence, compared with the controls (see Figure 6).
The rows of the confusion matrix correspond to the prescribed modules, and the columns correspond to the identified modules.
Three identified modules and their neighboring gene nodes in the yeast eQTL network are displayed in Figure 3.
In between these two extremes, we identified modules [19] that were observed to correlate well with early or autonomous folding units (AFUs) or "foldons".
All these identified modules showed a significant high co-regulation, suggesting a high possibility for them serving as real biological modules.
The statistical analysis of both our identified modules and predicted pathogenic genes demonstrate that our prediction results are statistically significant and our predictions cannot be found by chance.
Figure S10 shows the hierarchical clustering over the topological overlap matrix (TOM) and the identified modules for the MCI BxA adipose.
In our case, network module analysis identifies new candidate driver genes within previously identified p53/RB and PI3K signaling modules, and within newly identified modules in glioblastoma.
