Nodes (RCR-capable) Edges (Causal) TRAG Network 666 (306) 1215 (828) Tissue Repair subnetworks     Cell Migration and Adhesion in Wound Healing 201 (70) 317 (191) Differentiation of Progenitor Cell in Wound Healing 38 (13) 44 (13) Fibrosis and EMT 157 (97) 293 (203) Immune Regulation of Tissue Repair 127 (83) 254 (201) Angiogenesis subnetworks     Growth Factor-Mediated Angiogenesis 99 (63) 135 (78) HIF1A Regulation and Signaling 45 (18) 48 (32) Immune Regulation of Angiogenesis 50 (31) 54 (34) Sprouting and Tubulogenesis 82 (36) 93 (60) VEGF-Mediated Angiogenesis 45 (21) 61 (43)

Table 2: TRAG Network statistics. For the full TRAG Network and for each TRAG subnetwork, the total number of nodes is given for the human network versions, along with the number of RCRcapable nodes in parentheses (a node known to causally regulate at least four downstream gene expressions in the knowledgebase, making it capable of being predicted as a HYP by RCR). Additionally, the total number of edges is shown, with the number of causal edges in parentheses. Note that the sum of the totals for the individual subnetworks is greater than the total number of unique nodes/edges in the full TRAG Network due to overlap of nodes/edges amongst the subnetworks.