TNF and cancer: To reduce the input space, we tried various subselections, including using only genes reported in the COSMIC Cancer Gene Census (Forbes et al, 2015), genes present in the proteomic dataset, signature genes in key cellular pathways as reported in SPEED (Parikh et al, 2010) (H2O2, IL-1, JAK-STAT, MAPK, MAPK+PI3K, PI3K, TGFb, TLR, TNFa, VEGF, and Wnt), using mean+variance filtering, and using randomly selected genes as a control.