biomedical_id_resolver.js

js library for resolving biological ids to their equivalent ids in batch

Install

$ npm install biomedical-id-resolver

Usage

const resolver = require('biomedical-id-resolver');

const ids = ['entrez:1017', 'entrez:1018', 'hgnc:1177'];

(async () => {
	console.log(await resolver.resolve(ids, semantic_type='Gene'));
	//=> {'entrez:1017': {...}, 'entrez:1018': {...}, 'hgnc:1177': {...}}
})();

Available Semantic Types & prefixes

• Gene

  • entrez
  • ensembl
  • umls
  • name
  • symbol
  • hgnc
  • omim

• SequenceVariant

  • dbsnp
  • hgvs

• ChemicalSubstance

  • chembl
  • drugbank
  • name
  • pubchem
  • umls
  • mesh

• DiseaseOrPhenotypicFeature

  • mondo
  • doid
  • hp
  • umls
  • mesh
  • name

• Pathway

  • name
  • reactome
  • wikipathways
  • kegg
  • pharmgkb
  • biocarta

• MolecularActivity

  • name
  • go

• CellularComponent

  • go
  • name
  • umls

• BiologicalProcess

  • go
  • name
  • umls

• AnatomicalEntity

  • name
  • umls

• phenotype

  • name
  • umls