Figure 1

Schematic representation of the steps in our analyses. (a) Example flow chart of the different steps for calculating gene set coexpression enrichment P _e values between each of the 6624 genes in the multi-species network and 902 GO sets. For each gene m _i we use the hypergeometric distribution to calculate a coexpression enrichment P _e -value (P _e (m _i , g _j )) for whether GO set g _j was significantly overrepresented in the top 250 genes with smallest P _c -values to m _i . (b) The four steps in our analyses. 1. A coexpression network is generated with P _c values (multi-species network) or correlation coefficients (single-species network) scoring coexpression between gene pairs. 2. Coexpression enrichment P _e values are calculated between each gene and each GO category, such as between GO category 1 and genes A, B, and C and between GO category 2 and genes A, B, and C. 3. A score reflecting GBA is calculated for each GO category (e.g., GO category 1). 4. The interrelationship between pairs of GO categories is quantified, such as that between GO category 1 and GO category 2, which are sibling categories in a Gene Ontology graph, sharing GO category 3 as a common parent.