Detection of inferred biological network of HCC. (A, B) Gene Ontology (GO) analysis reveals top 5 categories in molecular function and biological process. Protein binding is the largest proportion in molecular function (A), whereas cellular physiological process ranks number one in the biological process (B). (C, D, E) Detection of protein-protein interaction (PPI) network from various gene sets. Only up-regulated genes (referred to as queries) in each gene set are subjected to search for their interaction partners. Many queries can form interaction network among query themselves, despite the fact that many queries do not have PPI data. (D) Of 139 GIS queries, 45 of them can form 55 PPI to constitute the interaction networks and 28 (red circle) of them serve as hubs (referred to as interacting with more than one query, including homo-dimer). (E) Of 149 Lee_NIH queries with available PPI data, 52 of them (34.9%) can interact with each other and form 62 PPIs.