NP-KG: Knowledge Graph for Natural Product-Drug Interactions

NP-KG is a biomedical knowledge graph (KG) to identify and generate mechanistic hypotheses for pharmacokinetic natural product-drug interactions (NPDIs). NP-KG uses the PheKnowLator ecosystem to create an ontology-grounded KG. It then uses two relation extraction systems to extract triples from natural product-related biomedical literature to create a literature-based graph, and integrates the nodes and edges in the ontology-grounded KG. See GitHub repository for more details and instructions: https://github.com/sanyabt/np-kg.

File Descriptions for version 3:

I. NP-KG Merged TSV format

• NP-KG_v3.0.0.tsv - Merged KG with ontology-grounded KG and literature-based graph as TSV file
• nodeLabels_v3.0.0.tsv
• nodeTypes_v3.0.0.tsv

II. NP-KG Merged gpickle format

• NP-KG_v3.0.0.gpickle - Merged KG with ontology-grounded KG and literature-based graph as NetworkX multidigraph object.
• nodeLabels_v3.0.0.pickle - Node labels for all nodes in the KG in dictionary format.