Fig. 5

An Overview of the PKT Human Disease Mechanism Knowledge Graph. This figure provides a high-level overview of the primary node and edge types in the PKT Human Disease Mechanism knowledge graph. (a) illustrates the relationships between the core set of Open Biological and Biomedical Ontology (OBO) Foundry ontologies when including their imported ontologies (as of August 2022). (b) illustrates the edges or triples that are added to the core set of merged ontologies in (a). Shared colors between (a) and (b) represent a single resource. For example, chemicals, cofactors, and catalysts share the same color (maroon) and are part of ChEBI. This is the same for the RO, which is represented in (b) as the black lines between nodes. The green and yellow rectangles indicate data sources that are not from an OBO Foundry ontology and the specific ontology used to integrate them with the core set of ontologies in (a). For example, variant, transcript, and gene data are connected to the core ontology set via the SO. Acronyms: CL (Cell ontology); CLO (Cell Line Ontology); ChEBI (Chemical Entities of Biological Interest); GO (Gene Ontology); HPO (Human Phenotype Ontology); Mondo (Mondo Disease Ontology); PRO (Protein Ontology); PW (Pathway Ontology); SO (Sequence Ontology); VO (Vaccine Ontology); Uberon (Uber-Anatomy Ontology).