Fig. 4

A nodetic use case. The usage of “Nodetic Mutation Explorer” is demonstrated using the Gly12 mutation of KRAS that may affect the ligand-binding (a) and clinical responses (b–e). a “Nodetic Mutation Explorer” has four components. From top to bottom, they are (i) a 3D structure viewer for PDBs, (ii) protein 2D viewer with mutations that is filterable by cancer types and functional site types, (iii) functional site visualization that is synchronized with (ii), and (iv) a table of cases for a specific mutation. Upon clicking a mutation, the corresponding residue is automatically centered in the PDB viewer, and all the cases are listed in the table. Once a mutation and functional site is identified, users will find the survival and drug responses information on the information page of the functional site. In this case, patient survival of pancreatic cancer (b) and bladder urothelial cancer (c) are significantly associated with Gly12 mutations that potentially alter the ligand-binding of KRAS. Additionally, drug responses are available for this site, and examples are shown in d and e