Wikidata as a knowledge graph for the life sciences

Elife. 2020 Mar 17:9:e52614. doi: 10.7554/eLife.52614.


Wikidata is a community-maintained knowledge base that has been assembled from repositories in the fields of genomics, proteomics, genetic variants, pathways, chemical compounds, and diseases, and that adheres to the FAIR principles of findability, accessibility, interoperability and reusability. Here we describe the breadth and depth of the biomedical knowledge contained within Wikidata, and discuss the open-source tools we have built to add information to Wikidata and to synchronize it with source databases. We also demonstrate several use cases for Wikidata, including the crowdsourced curation of biomedical ontologies, phenotype-based diagnosis of disease, and drug repurposing.

Keywords: computational biology; data mining; drug repurposing; knowledge graphs; none; science forum; systems biology; wikidata.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biological Science Disciplines*
  • Computational Biology*
  • Databases, Factual*
  • Genomics*
  • Humans
  • Pattern Recognition, Automated
  • Proteomics*