To determine how networks generated from the different treatment groups (saline vs ethanol networks) and analyses (saline/ethanol networks vs S-score networks) related to each other, we performed pairwise comparisons of all network members (Figure S4; Table S4). Many of the saline networks significantly overlapped with networks in the ethanol data, indicating the inter-gene correlations that constitute these networks are largely stable across treatments and likely represent robust biological relationships. Similarly, S-score networks generally had a substantial and predominant relationship with a single or small number of saline or ethanol networks, as might reflect the contribution of basal expression levels and the mathematical derivation of S-scores from saline and ethanol expression data.
