Skip to content

Home

Jump to bottom
Jason Reilly edited this page Dec 5, 2022 · 7 revisions

Welcome to the NodeNormalization wiki!

Node normalization takes a CURIE, and returns:

  • The preferred CURIE for this entity
  • All other known equivalent identifiers for the entity
  • Semantic types for the entity as defined by the Biolink Model

The data currently served by Node Normalization is created by the prototype project Babel, which attempts to find identifier equivalences, and makes sure that CURIE prefixes are BioLink Model compliant. The NodeNormalization service, however, is independent of Babel and as improved identifier equivalence tools are developed, their results can be easily incorporated.

To determine whether Node Normalization is likely to be useful, check /get_semantic_types, which lists the BioLink semantic types for which normalization has been attempted, and /get_curie_prefixes, which lists the number of times each prefix is used for a semantic type.

For examples of service usage, see the example notebook.

The Node normalization website leverages the R3 (Redis-REST with referencing) Redis data design and configuration.

Users can find the publicly available website at service.

Clone this wiki locally