Metscape gene-compounds metabolic network views of top IPA canonical pathway and biological function/disease. Integrated Metscape genes-compounds metabolic network view for (A) the “tRNA Charging” canonical pathway and (B) the “Gastrointestinal Cancer” canonical function/disease found by Ingenuity Pathway Analysis (Additional file 10: Table S6). Close-up views (top left and bottom left) are excerpts of the corresponding global Metscape genes-compounds network views (lower right). Hexagonal nodes (transparent) and circle nodes (blue) represent metabolic compounds and genes, respectively. Hexagonal nodes with red border paintings indicate metabolites present in our list (plasma metabolites listed in Table 3 and Additional file 9: Table S5). Notice the high node degree of these networks (number of connections a node has to other nodes) and the two most prominent hub configurations formed by Pyrophosphate (top left) in relation to numerous RNA polymerase genes (A) and by Nicotinamide (bottom left) in relation to numerous PARP genes (B).