The scalable precision medicine open knowledge engine (SPOKE): a massive knowledge graph of biomedical information.

ABSTRACT:

Motivation

Knowledge graphs (KGs) are being adopted in industry, commerce and academia. Biomedical KG presents a challenge due to the complexity, size and heterogeneity of the underlying information.

Results

In this work, we present the Scalable Precision Medicine Open Knowledge Engine (SPOKE), a biomedical KG connecting millions of concepts via semantically meaningful relationships. SPOKE contains 27 million nodes of 21 different types and 53 million edges of 55 types downloaded from 41 databases. The graph is built on the framework of 11 ontologies that maintain its structure, enable mappings and facilitate navigation. SPOKE is built weekly by python scripts which download each resource, check for integrity and completeness, and then create a 'parent table' of nodes and ed

SUBMITTER: Morris JH 

PROVIDER: S-EPMC9940622 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature