Supplementary Tables. Table S3 Gene symbol and score of the high scoring genes using three different methods: SMITE full model, SMITE reduced model, and FEM. Table S4 Modules discovered using FEM and genes composing the modules with their DNA methylation, expression, and overall statistics. Table S5 Modules discovered using the reduced model of SMITE (SMITE-R) with spin-glass. Table S6 Modules discovered using the full model of SMITE (SMITE-F) with spin-glass. Table S7 Pathways associated with the genes composing the modules discovered by FEM. Table S8 Pathways associated with the genes composing the modules discovered by the reduced model of SMITE (SMITE-R) using spin-glass. Table S9 Pathways associated with the genes composing the modules discovered by the full model of SMITE (SMITE-F) using spin-glass. Table S10 Quantifying the number of times pathways were found to be associated the modules discovered by either FEM, the reduced model of SMITE (SMITE-R) using spin-glass, or the full model of SMITE(SMITE-F) using spin-glass. Table S11 Genes composing the “summary network” found by either the reduced (SMITE-R) or full (SMITE-F) SMITE models using the Heinz algorithm. Table S12 Pathways associated with the genes composing the “summary network” discovered by the reduced model of SMITE(SMITE-R) using the Heinz algorithm. Table S13 Pathways associated with the genes composing the “summary network” discovered by the full model of SMITE (SMITE-F) using the Heinz algorithm. Table S14 Genes composing the “modules” found using no weights instead of weighting by distance. Table S15 Pathways associated with the genes in the modules identified without using distance weighting. (XLSX 269 kb
