infores_catalog.yaml

---
information_resources:
  - id: infores:agrkb
    status: released
    name: Alliance of Genome Resources (AGR Knowledgebase)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Alliance-of-Genome-Resources
    synonym:
      - ALLIANCE
    knowledge level: curated
    agent type: not_provided
  - id: infores:aact
    status: released
    name: Aggregate Analysis of ClinicalTrial.gov (AACT) database
    xref:
      - https://aact.ctti-clinicaltrials.org/
    synonym:
      - AACT
    knowledge level: curated
    agent type: not_provided
    description: https://ctti-clinicaltrials.org/our-work/quality/state-of-clinical-trials/
      Researchers can use CTTI’s Aggregate Analysis of ClinicalTrial.gov (AACT) database
      to easily access and analyze data from the ClinicalTrials.gov registry to evaluate
      studies and characterize the current state of clinical trials.
  - id: infores:answer-coalesce
    status: deprecated
    name: Answer coalesce
    xref:
      - https://github.com/ranking-agent/AnswerCoalesce
    knowledge level: curated
    agent type: not_provided
    description: >-
      Answer coalesce: This service accepts a TRAPI 1.1 object containing
      answers and returns answers that have been coalesced by property, graph or ontology
      analysis.
  - id: infores:aragorn
    status: released
    name: ARAGORN
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ARAGORN-and-ROBOKOP
    knowledge level: predicted
    agent type: not_provided
    description: >-
      ARAGORN: Performs a query operation which compiles data from numerous
      ARAGORN ranking agent services.
  - id: infores:aragorn-ranker
    status: deprecated
    name: ARAGORN Ranker
    xref:
      - https://github.com/ranking-agent/aragorn-ranker
    synonym:
      - ARAGORN
    knowledge level: curated
    agent type: not_provided
    description: >-
      ARAGORN Ranker: The ranker used by the ARAGORN ARA, which takes a
      TRAPI 1.0 message containing answers, and calculates numerical scores for each
      answer.
  - id: infores:arax
    status: released
    name: ARAX Translator Reasoner
    xref:
      - https://arax.ncats.io/
    synonym:
      - ARAX
    knowledge level: predicted
    agent type: not_provided
    description: TRAPI 1.1 endpoint for the NCATS Biomedical Translator Reasoner called
      ARAX
  - id: infores:atc-codes-umls
    status: released
    name: Anatomical Therapeutic Chemical (ATC) Codes (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ATC/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:atgo
    status: released
    name: Autophagy Ontology
    xref:
      - https://pubmed.ncbi.nlm.nih.gov/28132844/
    synonym:
      - ATGO
    knowledge level: curated
    agent type: not_provided
  - id: infores:athena
    status: released
    name: Athena
    xref:
      - https://athena.ohdsi.org/search-terms/start
    knowledge level: curated
    agent type: not_provided
  - id: infores:automat-genome-alliance
    status: released
    name: Automat Alliance of Genome Resources
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
  - id: infores:automat-renci-sri-reference-kg
    status: released
    name: Automat RENCI SRI Reference KG
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the [Monarch API (https://api.monarchinitiative.org/)](https://api.monarchinitiative.org/).
  - id: infores:automat-chem-norm
    status: deprecated
    name: Automat Chemical normalization (trapi v-1.1.0)
    description: >-
      A graph  linking together similar compounds.  Two compounds are linked
      by an edge in the graph if they are equivalent when charge, salts, and stereochemistry
      are ignored.
    knowledge level: curated
    agent type: not_provided
  - id: infores:automat-chembio
    status: deprecated
    name: Automat Chembio
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: >-
      A graph based on [chem2bio2rdf (http://cheminfov.informatics.indiana.edu:8080/c2b2r/)](http://cheminfov.informatics.indiana.edu:8080/c2b2r/).
  - id: infores:automat-cord19
    status: deprecated
    name: Automat Cord19
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      A literature co-occurence graph based on parsing the CORD-19 paper set.
  - id: infores:automat-cord19-scibite
    status: deprecated
    name: Automat Cord19 Scibite (trapi v-1.1.0)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      A literature co-occurence graph based on the [scibite parsing (https://github.com/SciBiteLabs/CORD19)](https://github.com/SciBiteLabs/CORD19)
      of the CORD-19 paper set.
  - id: infores:automat-cord19-scigraph
    status: deprecated
    name: Automat Cord19 Scigraph (trapi v-1.1.0)
    description: >-
      A literature co-occurence graph based on scigraph parsing of the CORD-19
      paper set. All triples contain covid-19 as either subject or object.
    knowledge level: text_mined
    agent type: not_provided
  - id: infores:automat-covid-phenotypes
    status: deprecated
    name: Automat Covid Phenotypes (trapi v-1.1.0)
    knowledge level: curated
    agent type: not_provided
    description: A hand-curated graph of phenotypes of covid-19.
  - id: infores:automat-covidkop
    status: deprecated
    name: Automat Covidkop KG (trapi v-1.1.0)
    knowledge level: curated
    agent type: not_provided
    description: >-
      Knowledge graph constructed from Robokop KG by incorporating Cord-19
      dataset and other covid related knowledge sources.
  - id: infores:automat-cam-kp
    status: released
    name: Automat CAM-KP
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Exposures-Provider-CAM-AOP
    knowledge level: curated
    agent type: not_provided
    description: TRAPI interface to database of Causal Activity Models
  - id: infores:automat-ctd
    status: released
    name: Automat CTD
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the [Comparative Toxicogenomics Database (ctdbase.org)](ctdbase.org).
  - id: infores:automat-drug-central
    status: released
    name: Automat DrugCentral
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on DrugCentral
  - id: infores:automat-foodb
    status: released
    name: Automat Foodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph of the food/chemical relationships in [foodb.ca](foodb.ca).
  - id: infores:automat-gtex
    status: released
    name: Automat GTEx
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: >-
      A graph containing eqtl and sqtl information from [GTEx Portal (https://gtexportal.org/home/)](https://gtexportal.org/home/).
      Also includes genes that the variants lie within or near.
  - id: infores:automat-gtopdb
    status: released
    name: Automat GtoPdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the [IUPHAR Guide to Pharmacology (https://www.guidetopharmacology.org/)](https://www.guidetopharmacology.org/)
  - id: infores:automat-gwas-catalog
    status: released
    name: Automat GWAS Catalog
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the GWAS Catalog
  - id: infores:automat-hetio
    status: deprecated
    name: Automat Hetio
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on [hetionet (het.io)](het.io).
  - id: infores:automat-hetionet
    status: released
    name: Automat Hetionet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on [hetionet (het.io)](het.io).
  - id: infores:automat-hgnc
    status: released
    name: Automat HGNC
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: Gene families from [HGNC (genenames.org)](genenames.org).
  - id: infores:automat-hmdb
    status: released
    name: Automat HMDB
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the [Human Metabolome DataBase (hmdb.org)](hmdb.org).
  - id: infores:automat-human-goa
    status: released
    name: Automat Human GOA
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: Human Gene Ontology Annotations from the GO consortium.
  - id: infores:automat-icees-kg
    status: released
    name: Automat ICEES KG
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Exposures-Provider-ICEES
    knowledge level: correlation
    agent type: not_provided
  - id: infores:automat-intact
    status: released
    name: Automat IntAct
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: Molecular (Gene-Gene) interactions from EBI IntAct (https://www.ebi.ac.uk/intact/)](https://www.ebi.ac.uk/intact/).
  - id: infores:automat-kegg
    status: deprecated
    name: Automat KEGG
    knowledge level: curated
    agent type: not_provided
    description: A graph based on the [Kyoto Encyclopedia of Genes and Genomes (https://www.genome.jp/kegg/)](https://www.genome.jp/kegg/).
  - id: infores:automat-mychem-info
    status: deprecated
    name: Automat MyChem (trapi v-1.1.0)
    knowledge level: curated
    agent type: not_provided
    description: >-
      A graph integrating DrugBank, DrugCentral, and Aeolus data as provided
      by [mychem.info](mychem.info).
  - id: infores:automat-ontology-hierarchy
    status: deprecated
    name: Automat Ontological Hierarchy (trapi v-1.1.0)
    knowledge level: curated
    agent type: not_provided
    description: A graph for ontological hierarchy extracted from Uberongraph.
  - id: infores:automat-panther
    status: released
    name: Automat PANTHER
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph of gene families and pathways from [Panther (pantherdb.org)](pantherdb.org)
  - id: infores:automat-pharos
    status: released
    name: Automat Pharos
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: A graph based on [Pharos (pharos.nih.gov)](pharos.nih.gov).
  - id: infores:automat-robokop-kg
    status: released
    name: Automat ROBOKOP KG
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: Biomedical Knowledge graph build by constructing relationships from
      federated data sets.
  - id: infores:automat-text-mining-provider
    status: deprecated
    name: Automat Textmining KP
    knowledge level: curated
    agent type: not_provided
    description: A literature co-occurrence graph created by the Translator Text Mining KP.
  - id: infores:automat-string-db
    status: released
    name: Automat STRING
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Search Tool for the Retrieval of INteracting Genes/proteins (STRING)
      database provides information on known and predicted protein-protein interactions
      (both direct and indirect) derived from genomic context predictions, high-throughput
      laboratory experiments, conserved co-expression, automated text mining, and aggregated
      knowledge from primary data sources.
  - id: infores:automat-sri-reference-kg
    status: released
    name: Automat SRI Reference Knowledge Graph
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Reference-Knowledge-Graph
    knowledge level: curated
    agent type: not_provided
    description: >-
      The SRI reference KG aims to aggregate knowledge sources across translator
      using KGX.  The initial graph contains data files provided by the Monarch Initiative
      and several ontologies.
  - id: infores:automat-ubergraph
    status: released
    name: Automat Ubergraph
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: >-
      A graph representation of Ubergraph, an integration of ontologies
      including GO, CHEBI, Uberon, and HPO.
  - id: infores:automat-ubergraph-nonredundant
    status: deprecated
    name: Automat Ubergraph Nonredundant
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge level: curated
    agent type: not_provided
    description: >-
      A graph representation of Ubergraph, an integration of ontologies
      including GO, CHEBI, Uberon, and HPO. The redundant version of Ubergraph contains
      the complete inference closure for all subclass and existential relations, including
      transitive, reflexive subclass relations.
  - id: infores:automat-viral-protome
    status: released
    name: Automat Viral Proteome
    knowledge level: curated
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph consisting of viral proteins from UniProt, connected by similarity
      edges from UniRef.
  - id: infores:bfo
    status: released
    name: Basic Formal Ontology
    xref:
      - http://www.obofoundry.org/ontology/bfo.html
    synonym:
      - BFO
    knowledge level: curated
    agent type: not_provided
  - id: infores:bgee
    status: released
    name: Bgee
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Bgee
    synonym:
      - BGEE
    knowledge level: curated
    agent type: not_provided
  - id: infores:bigclam
    status: deprecated
    name: Big Cell Line Association Miner
    xref:
      - https://github.com/PriceLab/translator-bigquery-api
    synonym:
      - BigClam
    knowledge level: correlation
    agent type: not_provided
  - id: infores:bigg-models
    status: released
    name: BiGG Models
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BiGG-Models
    synonym:
      - BIGG
    knowledge level: curated
    agent type: not_provided
    description: a knowledgebase of genome-scale metabolic network reconstructions
  - id: infores:biggim
    status: deprecated
    name: Big Gene Interaction Miner
    xref:
      - https://github.com/PriceLab/translator-bigquery-api/
    synonym:
      - BigGIM
    knowledge level: correlation
    agent type: not_provided
  - id: infores:bindingdb
    status: released
    name: BindingDB
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/bindingdb
    synonym:
      - The Binding Database
    knowledge level: curated
    agent type: not_provided
    description: >-
      BindingDB is a public, web-accessible database of measured binding
      affinities, focusing chiefly on the interactions of protein considered to be drug-targets
      with small, drug-like molecules. As of July 31, 2021, BindingDB contains 41,300
      Entries, each with a DOI, containing 2,303,972 binding data for 8,561 protein
      targets and 995,797 small molecules.
  - id: infores:bio2rdf
    status: released
    name: Bio2RDF
    xref:
      - https://bio2rdf.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:biocatalogue
    status: deprecated
    name: BioCatalogue
  - id: infores:biogrid
    status: released
    name: 'The Biological General Repository for Interaction Datasets '
    xref:
      - https://thebiogrid.org/
    synonym:
      - BioGrid
    knowledge level: curated
    agent type: not_provided
  - id: infores:biolink-api
    status: released
    name: BioLink API
    xref:
      - https://api.monarchinitiative.org/api/
    knowledge level: curated
    agent type: not_provided
    description: API integration layer for linked biological objects.
  - id: infores:biolink-model-lookup
    status: released
    name: Biolink Model Lookup
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Biolink-Lookup-Service
    knowledge level: curated
    agent type: not_provided
    description: Biolink Model Lookup service.
  - id: infores:biolink-ontology
    status: released
    name: Biolink ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioLink-OWL
    knowledge level: curated
    agent type: not_provided
  - id: infores:bioportal
    status: released
    name: National Center for Biomedical Ontology BioPortal
    xref:
      - http://bioportal.bioontology.org/
    synonym:
      - bioportal
    knowledge level: curated
    agent type: not_provided
  - id: infores:biothings-biggim-1
    status: deprecated
    name: Big GIM 1 API
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the Big GIM 1 KP query web services.
  - id: infores:biothings-dgidb
    status: released
    name: BioThings DGIdb API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-DGIdb-API
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the BioThings DGIdb query web services.
  - id: infores:biothings-diseases
    status: released
    name: BioThings DISEASES API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-DISEASES-API
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the DISEASES query web services.
  - id: infores:biothings-ebi-gene2phenotype
    status: released
    name: BioThings EBIgene2phenotype API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-EBI-Gene2Phenotype
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the EBIgene2phenotype query web services.
  - id: infores:biothings-explorer
    status: released
    name: BioThings Explorer
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-Explorer-(BTE)
    synonym:
      - BTE
    knowledge level: curated
    agent type: not_provided
  - id: infores:service-provider-trapi
    status: released
    name: Service Provider TRAPI endpoints
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Service-Provider-TRAPI
    synonym:
      - service provider
    knowledge level: curated
    agent type: not_provided
  - id: infores:biothings-go-bp
    status: released
    name: BioThings Gene Ontology Biological Process API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-GO-BP
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the Gene Ontology Biological Process query web services.
  - id: infores:biothings-go-cc
    status: released
    name: BioThings Gene Ontology Cellular Component API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-GO-CC
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the Gene Ontology Cellular Component query web services.
  - id: infores:biothings-go-mf
    status: released
    name: BioThings Gene Ontology Molecular Activity API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-GO-MF
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the Gene Ontology Molecular Activity query web services.
  - id: infores:biothings-hpo
    status: released
    name: BioThings Human Phenotype Ontology API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-HPO
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the HPO query web services.
  - id: infores:biothings-idisk
    status: released
    name: BioThings iDISK API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-IDISK
    knowledge level: curated
    agent type: not_provided
  - id: infores:biothings-mgi-g2p
    status: released
    name: BioThings MGIgene2phenotype API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-MGI-G2P
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the MGIgene2phenotype query web services.
  - id: infores:biothings-multiomics-biggim-drugresponse
    status: released
    name: Multiomics BigGIM-DrugResponse KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Big-GIM-II:-Drug-Response-KP
      - https://github.com/NCATS-Tangerine/BigGIM_APIWrapper
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the Drug Response KP query web services.
  - id: infores:biothings-multiomics-ehr-risk
    status: modified
    name: Multiomics EHR Risk KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/EHR-Risk-KP
    knowledge level: correlation
    agent type: not_provided
    description: >-
      Documentation of the Multiomics Electronic-Health-Record (EHR) Risk
      KP query web services.
  - id: infores:providence-st-joseph-ehr
    status: released
    name: Providence St. Joseph EHR Data
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/EHR-Data
    knowledge level: curated
    agent type: not_provided
    description: >-
      A partnership with Providence/Swedish Health Services and Institute
      for Systems Biology allows analysis of 26 million EHRs from patients in seven
      states in the US, including Alaska, California, Montana, Oregon, Washington, Texas,
      and New Mexico. Please email data-access@isbscience.org for more information.
  - id: infores:biothings-multiomics-wellness
    status: released
    name: Multiomics Wellness KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Wellness-KP
    knowledge level: correlation
    agent type: not_provided
    description: Documentation of the Multiomics Wellness KP query web services.
  - id: infores:biothings-multiomics-clinicaltrials
    status: released
    name: Multiomics ClinicalTrials KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Clinical-Trials-KP
    knowledge level: curated
    agent type: not_provided
  - id: infores:biothings-pfcor
    status: modified
    name: BioThings pfocr API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-PFCOR
    knowledge level: predicted
    agent type: not_provided
    description: Documentation of the pfocr query web services.
  - id: infores:pfocr
    status: released
    name: PFCOR
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/pfocr
    knowledge level: predicted
    agent type: not_provided
  - id: infores:biothings-semmeddb
    status: released
    name: BioThings SEMMEDDB API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB
    knowledge level: text_mined
    agent type: not_provided
    description: Documentation of the BioThings SEMMEDDB query web services.
  - id: infores:biothings-semmeddb-anatomy
    status: deprecated
    name: SEMMED Anatomy API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Anatomy
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
  - id: infores:biothings-semmeddb-biological-process
    status: deprecated
    name: SEMMED Biological Process API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Biological-Process
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
  - id: infores:biothings-semmeddb-chemical
    status: deprecated
    name: SEMMED Chemical API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Chemical
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
  - id: infores:biothings-semmeddb-disease
    status: deprecated
    name: SEMMED Disease API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Disease
    knowledge level: text_mined
    agent type: not_provided
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [semmed disease](http://pending.biothings.io/semmed)
  - id: infores:biothings-semmeddb-gene
    status: deprecated
    name: SEMMED Gene API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Gene
    knowledge level: text_mined
    agent type: not_provided
    description: Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
  - id: infores:biothings-semmeddb-phenotype
    status: deprecated
    name: SEMMED Phenotype API
    xref:
      - https://github.com/biothings
    knowledge level: text_mined
    agent type: not_provided
    description: Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
  - id: infores:biothings-tcga-mut-freq
    status: deprecated
    name: Multiomics TCGA Mutation Frequency KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Exposures-Provider-CAM-AOP
    knowledge level: correlation
    agent type: not_provided
    description: Documentation of the TCGA Mutation Frequency KP query web services.
  - id: infores:biothings-uberon-ontology
    status: released
    name: BioThings UBERON Ontology API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-UBERON-Ontology
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the UBERON query web services.
  - id: infores:biothings-rhea
    status: released
    name: BioThings Rhea API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-RHEA-API
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the BioThings Rhea query web services.
  - id: infores:rhea
    status: released
    name: Rhea
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/rhea
    knowledge level: curated
    agent type: not_provided
    description: https://www.rhea-db.org/
  - id: infores:biothings-bioplanet-pathway-disease
    status: released
    name: BioThings BioPlanet Pathway-Disease API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-bioplanet-pathway-disease
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the BioThings [BioPlanet](https://tripod.nih.gov/bioplanet/#)
      pathway-disease association query web services.
  - id: infores:biothings-bioplanet-pathway-gene
    status: released
    name: BioThings BioPlanet Pathway-Gene API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-bioplanet-pathway-gene
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the BioThings [BioPlanet](https://tripod.nih.gov/bioplanet/#)
      pathway-gene association query web services.
  - id: infores:bioplanet
    status: released
    name: BioPlanet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/bioplanet
    knowledge level: curated
    agent type: not_provided
    description: https://tripod.nih.gov/bioplanet/#
  - id: infores:biothings-bindingdb
    status: released
    name: BioThings BindingDB API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-Binding-DB
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the BioThings [BindingDB](https://www.bindingdb.org/rwd/bind/index.jsp)
      query web services.
  - id: infores:bspo
    status: released
    name: Biological Spatial Ontology
    xref:
      - https://obofoundry.org/ontology/bspo.html
    synonym:
      - BSPO
    knowledge level: curated
    agent type: not_provided
  - id: infores:wbbt
    status: released
    name: C. elegans Gross Anatomy Ontology
    xref:
      - https://obofoundry.org/ontology/wbbt.html
    synonym:
      - WBBT
    knowledge level: curated
    agent type: not_provided
    description: A structured controlled vocabulary of the anatomy of Caenorhabditis elegans.
  - id: infores:wbphenotype
    status: released
    name: C. elegans phenotype
    xref:
      - https://obofoundry.org/ontology/wbphenotype.html
    synonym:
      - WBPhenotype
    knowledge level: curated
    agent type: not_provided
    description: A structured controlled vocabulary of Caenorhabditis elegans phenotypes
  - id: infores:cam-kp
    status: deprecated
    name: CAM-KP API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Exposures-Provider-CAM-AOP
    synonym:
      - Causal Activity Model KP
    knowledge level: curated
    agent type: not_provided
    description: TRAPI interface to database of Causal Activity Models
  - id: infores:campfhir
    status: deprecated
    name: Clinical Asset Mapping Program for FHIR
    xref:
      - https://researchsoftwareinstitute.github.io/data-translator/apps/camp-fhir
    synonym:
      - CAMP FHIR
    knowledge level: curated
    agent type: not_provided
  - id: infores:chebi
    status: released
    name: Chemical Entity of Biological Interest
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ChEBI
    synonym:
      - ChEBI
    knowledge level: curated
    agent type: not_provided
    description: a freely available dictionary of molecular entities focused on ‘small’ chemical compounds
  - id: infores:chem2bio2rdf
    status: released
    name: Chem2bio2RDF
    xref:
      - http://cheminfov.informatics.indiana.edu:8080/c2b2r/
    knowledge level: curated
    agent type: not_provided
  - id: infores:chembank
    status: released
    name: ChemBank
    knowledge level: curated
    agent type: not_provided
    description: Initiative for Chemical Genetics contract from the National Cancer Institute
  - id: infores:chembio
    status: deprecated
    name: ChemBio
    knowledge level: curated
    agent type: not_provided
  - id: infores:chembl
    status: released
    name: ChEMBL
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ChEMBL
    synonym:
      - Chembl
    knowledge level: curated
    agent type: not_provided
    description: a manually curated database of bioactive molecules with drug-like properties.
  - id: infores:chemotext
    status: deprecated
    name: Chemotext
    xref:
      - http://chemotext.mml.unc.edu/
    knowledge level: curated
    agent type: not_provided
  - id: infores:civic
    status: released
    name: Clinital Interpretation of Variants in Cancer
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/civic
    synonym:
      - CIViC
    knowledge level: curated
    agent type: not_provided
  - id: infores:cl
    status: released
    name: Cell Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/CL
    synonym:
      - CL
    knowledge level: curated
    agent type: not_provided
  - id: infores:clingen
    status: released
    name: Clinical Genome Resource (ClinGen)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/clingen
    knowledge level: curated
    agent type: not_provided
    description: >-
      ClinGen is a NIH-funded resource dedicated to building a central resource
      that defines the clinical relevance of genes and variants for use in precision
      medicine and research
  - id: infores:clinical-profiles
    status: deprecated
    name: Clinical Profiles
    knowledge level: curated
    agent type: not_provided
  - id: infores:clinicaltrials
    status: released
    name: ClinicalTrials.gov
    xref:
      - https://clinicaltrials.gov
    knowledge level: curated
    agent type: not_provided
  - id: infores:clinvar
    status: released
    name: ClinVar
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/clinvar
    knowledge level: curated
    agent type: not_provided
    description: >-
      ClinVar is a freely accessible, public archive of reports of the
      relationships among human variations and phenotypes, with supporting evidence.
  - id: infores:cmap
    status: released
    name: Connectivity Map
    xref:
      - https://clue.io/cmap
    synonym:
      - CMAP
    knowledge level: curated
    agent type: not_provided
    description: >-
      genome-scale library of cellular signatures that catalogs transcriptional
      responses to chemical, genetic, and disease perturbation"'
  - id: infores:columbia-cdw-ehr-data
    status: released
    name: Columbia Clinical Data Warehouse for Health Patient EHR Data
    xref:
      - https://www.irvinginstitute.columbia.edu/services/clinical-data-warehouse-cdw-navigator-support
    synonym:
      - The Columbia Clinical Data Warehouse (CDW) contains clinical information for over
        4.5 million individuals treated at Columbia University Irving Medical Center (CUIMC)
        since the 1980s.
    knowledge level: curated
    agent type: not_provided
  - id: infores:cohd
    status: released
    name: Columbia Open Health Data (COHD)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    knowledge level: correlation
    agent type: not_provided
    description: >-
      The Columbia Open Health Data (COHD) API provides access to counts
      and frequencies (i.e., EHR prevalence) of conditions, procedures, drug exposures,
      and patient demographics, and the co-occurrence frequencies between them. Count
      and frequency data were derived from the [Columbia University Medical Center''s](http://www.cumc.columbia.edu/)
      [OHDSI](https://www.ohdsi.org/) database including inpatient and outpatient data.
      Counts are the number of patients associated with the concept, e.g., diagnosed
      with a condition, exposed to a drug, or who had a procedure. Frequencies are the
      number of unique patients associated with the concept divided by the total number
      of patients in the dataset, i.e., prevalence in the electronic health records.
      To protect patient privacy, all concepts and pairs of concepts where the count
      <= 10 were excluded, and counts were randomized by the Poisson distribution.           Four
      datasets are available:  1) 5-year non-hierarchical dataset: Includes clinical
      data from 2013-2017   2) lifetime non-hierarchical dataset: Includes clinical
      data from all dates   3) 5-year hierarchical dataset: Counts for each concept
      include patients from descendant concepts. Includes clinical data from 2013-2017.
      4) BETA! Temporal co-occurrence data  In the 5-year hierarchical data set, the
      counts for each concept include the patients from all descendant concepts. For
      example, the count for ibuprofen (ID 1177480) includes patients with Ibuprofen
      600 MG Oral Tablet (ID 19019073 patients), Ibuprofen 400 MG Oral Tablet (ID 19019072),
      Ibuprofen 20 MG/ML Oral Suspension (ID 19019050), etc.   While the lifetime dataset
      captures a larger patient population and range of concepts, the 5-year dataset
      has better underlying data consistency.   Clinical concepts (e.g., conditions,
      procedures, drugs) are coded by their standard concept ID in the [OMOP Common
      Data Model](https://github.com/OHDSI/CommonDataModel/wiki). API methods are provided
      to map to/from other vocabularies supported in OMOP and other ontologies using
      the EMBL-EBI Ontology Xref Service (OxO).    The following resources are available
      through this API:    1. Metadata: Metadata on the COHD database, including dataset
      descriptions, number of concepts, etc.    2. OMOP: Access to the common vocabulary
      for name and concept identifier mapping   3. Clinical Frequencies: Access to the
      counts and frequencies of conditions, procedures, and drug exposures, and the
      associations between them. Frequency was determined as the number of patients
      with the code(s) / total number of patients.    4. Concept Associations: Inferred
      associations between concepts using chi-square analysis, ratio between observed
      to expected frequency, and relative frequency.    A [Python notebook](https://github.com/WengLab-InformaticsResearch/cohd_api/blob/master/notebooks/COHD_API_Example.ipynb)
      demonstrates simple examples of how to use the COHD API.   COHD was developed
      at the [Columbia University Department of Biomedical Informatics](https://www.dbmi.columbia.edu/)
      as a collaboration between the [Weng Lab](http://people.dbmi.columbia.edu/~chw7007/),
      [Tatonetti Lab](http://tatonettilab.org/), and the [NCATS Biomedical Data Translator](https://ncats.nih.gov/translator)
      program (Red Team). This work was supported in part by grants: NCATS OT3TR002027,
      NLM R01LM009886-08A1, and NIGMS R01GM107145.  The following external resources
      may be useful:   [OHDSI](https://www.ohdsi.org/)   [OMOP Common Data Model](https://github.com/OHDSI/CommonDataModel/wiki)   [Athena](http://athena.ohdsi.org)
      (OMOP vocabularies, search, concept relationships, concept hierarchy)   [Atlas](http://www.ohdsi.org/web/atlas/)
      (OMOP vocabularies, search, concept relationships, concept hierarchy, concept
      sets)
  - id: infores:cohd-covid
    status: released
    name: Columbia Open Health Data (COHD) for COVID-19 Research
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    knowledge level: correlation
    agent type: not_provided
    description: >-
      The Columbia Open Health Data (COHD) for COVID-19 Research API provides
      access to counts and frequencies (i.e., EHR visit prevalence) of conditions, procedures,
      drug exposures, and the co-occurrence frequencies between them for a cohort of
      hospitalized COVID-19 patients and two comparator cohorts of hospitalized influenza
      patients and hospitalized patients. Count and frequency data were derived from
      the [Columbia University Medical Center''s](http://www.cumc.columbia.edu/) [OHDSI](https://www.ohdsi.org/)
      database including inpatient. Counts are the number of inpatient visits associated
      with the concept, e.g., diagnosed with a condition, exposed to a drug, or a procedure
      was performed. Frequencies are the number of unique visits associated with the
      concept divided by the total number of visits in the dataset, i.e., prevalence
      in the electronic health records. To protect patient privacy, all concepts and
      pairs of concepts where the count <= 10 were excluded, and counts were randomized
      by the Poisson distribution.           Datasets from three primary cohorts are
      available:  1) COVID-19: Hospitalized patients aged 18 or older with a COVID-19
      related condition diagnosis and/or a confirmed positive COVID-19 test during their
      hospitalization period or within the prior 21 days. Date range: March 1, 2020
      to September 1, 2020. This cohort is also further stratified by sex (male and
      female) and age (adult: 18-64, senior: 65+). 2) General inpatient: All hospitalized
      patients aged 18 or older. Date range: January 1, 2014 to December 31, 2019. 3)
      Influenza: Hospitalized patients aged 18 or older who had at least one occurrence
      of influenza conditions or pre-coordinated positive measurements or positive influenza
      testing in the prior 21 days or during their hospitalization period. Date range:
      January 1, 2014 to December 31, 2019.  Both hierarchical and non-hierarchical
      datasets are available for each cohort. In the hierarchical datasets, the counts
      for each concept include the visits from all descendant concepts. For example,
      the count for ibuprofen (ID 1177480) includes visits with Ibuprofen 600 MG Oral
      Tablet (ID 19019073), Ibuprofen 400 MG Oral Tablet (ID 19019072), Ibuprofen 20
      MG/ML Oral Suspension (ID 19019050), etc.   Clinical concepts (e.g., conditions,
      procedures, drugs) are coded by their standard concept ID in the [OMOP Common
      Data Model](https://github.com/OHDSI/CommonDataModel/wiki). API methods are provided
      to map to/from other vocabularies supported in OMOP and other ontologies using
      the EMBL-EBI Ontology Xref Service (OxO).    The following resources are available
      through this API:    1. Metadata: Metadata on the COHD database, including dataset
      descriptions, number of concepts, etc.    2. OMOP: Access to the common vocabulary
      for name and concept identifier mapping   3. Clinical Frequencies: Access to the
      counts and frequencies of conditions, procedures, and drug exposures, and the
      associations between them. Frequency was determined as the number of visits with
      the code(s) / total number of visits.    4. Concept Associations: Inferred associations
      between concepts using chi-square analysis, ratio between observed to expected
      frequency, and relative frequency.    A [Python notebook](https://github.com/WengLab-InformaticsResearch/cohd_api/blob/master/notebooks/COHD_API_Example.ipynb)
      demonstrates simple examples of how to use the COHD API.   COHD was developed
      at the [Columbia University Department of Biomedical Informatics](https://www.dbmi.columbia.edu/)
      as a collaboration between the [Weng Lab](http://people.dbmi.columbia.edu/~chw7007/),
      [Tatonetti Lab](http://tatonettilab.org/), and the [NCATS Biomedical Data Translator](https://ncats.nih.gov/translator)
      program (TReK Team). This work was supported in part by grants: NCATS 1OT2TR003434,
      NLM R01LM012895, NCATS OT3TR002027, NLM R01LM009886-08A1, and NIGMS R01GM107145.  The
      following external resources may be useful:   [OHDSI](https://www.ohdsi.org/)   [OMOP
      Common Data Model](https://github.com/OHDSI/CommonDataModel/wiki)   [Athena](http://athena.ohdsi.org)
      (OMOP vocabularies, search, concept relationships, concept hierarchy)   [Atlas](http://www.ohdsi.org/web/atlas/)
      (OMOP vocabularies, search, concept relationships, concept hierarchy, concept
      sets)    [NCATS Biomedical Data Translator](https://sites.google.com/ncats.nih.gov/translator-io/home)
  - id: infores:cohd-covid19-api
    status: deprecated
    name: Columbia Open Health Data for COVID-19 Research API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    synonym:
      - COHD COVID-19
    knowledge level: curated
    agent type: not_provided
  - id: infores:connections-hypothesis
    status: released
    name: Connections Hypothesis Provider API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Connections-Hypothesis-Provider
    knowledge level: prediction
    agent type: not_provided
    description: A Translator Reasoner API for the Connections Hypothesis Provider
  - id: infores:cord19
    status: deprecated
    name: COVID-19 Open Research Dataset
    xref:
      - https://github.com/allenai/cord19
    synonym:
      - CORD19
    knowledge level: curated
    agent type: not_provided
  - id: infores:cord19-scibite
    status: deprecated
    name: COVID-19 Open Research Dataset Scibite
    synonym:
      - CORD19-Scibite
    knowledge level: curated
    agent type: not_provided
  - id: infores:cosmic
    status: released
    name: Catalog of Somatic Mutations in Cancer
    xref:
      - https://cancer.sanger.ac.uk/cosmic
    synonym:
      - COSMIC
    knowledge level: curated
    agent type: not_provided
  - id: infores:covid-phenotypes
    status: deprecated
    name: Covid Phenotypes
    knowledge level: curated
    agent type: not_provided
  - id: infores:cpdb
    status: released
    name: ConsensusPathDB
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/cpdb
    synonym:
      - CPDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:cpt-codes-umls
    status: deprecated
    name: Current Procedural Terminology (CPT) Codes (from UMLS)
    knowledge level: curated
    agent type: not_provided
  - id: infores:ctd
    status: released
    name: Comparative Toxicogenomics Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/CTD
    synonym:
      - CTDbase
    knowledge level: curated
    agent type: not_provided
    description: >-
      A robust, publicly available database that aims to advance understanding
      about how environmental exposures affect human health.
  - id: infores:ctrp
    status: released
    name: Cancer Therapeutics Response Portal
    xref:
      - https://portals.broadinstitute.org/ctrp.v2.1/
    synonym:
      - CTRP
    knowledge level: correlation
    agent type: not_provided
    description: >-
      links genetic, lineage, and other cellular features of cancer cell
      lines to small-molecule sensitivity with the goal of accelerating discovery of
      patient-matched cancer therapeutics.
  - id: infores:date
    status: released
    name: Drugs to target pAthways by the Tissue Expression
    xref:
      - http://tatonettilab.org/date/
    synonym:
      - DATE
    knowledge level: curated
    agent type: not_provided
  - id: infores:dbsnp
    status: released
    name: Single Nucleotide Polymorphism Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/dbsnp
    synonym:
      - dbSNP
    knowledge level: curated
    agent type: not_provided
  - id: infores:dda
    status: released
    name: Dictyostelium discoideum anatomy
    xref:
      - http://www.obofoundry.org/ontology/ddanat.html
    synonym:
      - DDA
    knowledge level: curated
    agent type: not_provided
  - id: infores:delta-qt-db
    status: deprecated
    name: delta QT Database
    xref:
      - http://deltaqt.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:depmap
    status: released
    name: Cancer Dependency Map
    xref:
      - https://depmap.org/portal/
    synonym:
      - DepMap
    knowledge level: correlation
    agent type: not_provided
    description: >-
      Cancer Dependency Map to systematically identify genetic and pharmacologic
      dependencies and the biomarkers that predict them.
  - id: infores:dgidb
    status: released
    name: Drug Gene Interaction Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/dgidb
    synonym:
      - DGIdb
    knowledge level: curated
    agent type: not_provided
    description: >-
      information on drug-gene interactions and druggable genes from publications,
      databases, and other web-based sources. Drug, gene, and interaction data are normalized
      and merged into conceptual groups.
  - id: infores:dili-network-study-data
    status: released
    name: Drug-Induced Liver Injury Network (DILIN) Participant Data
    knowledge level: correlated
    agent type: not_provided
  - id: infores:faers
    status: released
    name: FDA Adverse Event Reporting System
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FAERS
    knowledge level: observation
    agent type: not_provided
    description: >-
      The FDA Adverse Event Reporting System (FAERS) is a database that contains information 
      on adverse event and medication error reports submitted to FDA.
  - id: infores:fbbt
    status: released
    name: Drosophila gross anatomy
    xref:
      - https://obofoundry.org/ontology/fbbt.html
    synonym:
      - FBbt
    knowledge level: curated
    agent type: not_provided
    description: An ontology representing the gross anatomy of Drosophila melanogaster.
  - id: infores:disease-ontology
    status: released
    name: Disease Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/disease-ontology
    synonym:
      - DO
    knowledge level: curated
    agent type: not_provided
  - id: infores:diseases
    status: released
    name: Disease-gene associations mined from literature
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Diseases
    knowledge level: curated
    agent type: not_provided
  - id: infores:disgenet
    status: released
    name: DisGeNET
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/DisGeNET
    knowledge level: curated
    agent type: not_provided
  - id: infores:distild
    status: deprecated
    name: Diseases & Traits in LD database
    synonym:
      - DistiLD database
    knowledge level: curated
    agent type: not_provided
  - id: infores:doaf
    status: released
    name: Disease Ontology Annotation Framework (DOAF)
    xref:
      - https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0049686
    synonym:
      - DOAF
    knowledge level: curated
    agent type: not_provided
  - id: infores:docm
    status: released
    name: Database of Curated Mutations
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/docm
    knowledge level: curated
    agent type: not_provided
  - id: infores:drug-repurposing-hub
    status: released
    name: Drug Repurposing Hub
    xref:
      - https://clue.io/repurposing
    knowledge level: curated
    agent type: not_provided
    description: >-
      Curated and annotated collection of FDA-approved drugs, clinical
      trial drugs, and pre-clinical tool compounds with a companion information resource
  - id: infores:drugbank
    status: released
    name: DrugBank
    xref:
      - http://www.drugbank.ca/
    synonym:
      - Drugbank
    knowledge level: curated
    agent type: not_provided
    description: >-
      A comprehensive, free-to-access, online database containing information
      on drugs and drug targets. As both a bioinformatics and a cheminformatics resource,
      we combine detailed drug (i.e. chemical, pharmacological and pharmaceutical) data
      with comprehensive drug target (i.e. sequence, structure, and pathway) information
  - id: infores:drugcentral
    status: released
    name: DrugCentral
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/DrugCentral
    synonym:
      - Drugcentral
    knowledge level: curated
    agent type: not_provided
    description: >-
      Online drug information resource created and maintained by Division
      of Translational Informatics at University of New Mexico in collaboration with
      the IDG.
  - id: infores:ebi
    status: released
    name: European Bioinformatics Institute
    xref:
      - https://www.ebi.ac.uk/
    synonym:
      - EBI
    knowledge level: curated
    agent type: not_provided
  - id: infores:ebi-gene2phenotype
    status: modified
    name: European Bioinformatics Institute Gene to Phenotype Resource
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ebi-gene2phenotype
    knowledge level: curated
    agent type: not_provided
  - id: infores:ebi-proteins
    status: released
    name: EBI Proteins API
    xref:
      - https://www.ebi.ac.uk/proteins/api/doc/
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Proteins REST API provides access to key biological data from
      UniProt and data from Large Scale Studies (LSS) mapped to UniProt. The services
      provide sequence feature annotations from UniProtKB, variation data from UniProtKB
      and mapped from LSS (1000 Genomes, ExAC, ClinVar, TCGA, COSMIC, TOPMed and gnomAD),
      proteomics data mapped from MS-proteomics repositories (PeptideAtlas, MaxQB, EPD
      and ProteomicsDB), antigen sequences mapped from Human Protein Atlas (HPA), proteomes
      and taxonomy search and retrieval, reference genome coordinate mappings and data
      from UniParc. Go to https://www.ebi.ac.uk/proteins/api/doc/ to learn more."'
  - id: infores:ebi-quick-go
    status: released
    name: QuickGO API
    xref:
      - https://www.ebi.ac.uk/QuickGO/api/index.html
    synonym:
      - QuickGO
    knowledge level: curated
    agent type: not_provided
    description: >-
      The QuickGO REST API provides access to key biological data from
      QuickGO and GOA. The services provide a unified interface to query information
      about ontology terms from GO (the Gene Ontology) and ECO (the Evidence & Conclusion
      Ontology), Gene Ontology annotations from the EBI''s GOA database, and gene products
      (proteins from UniProt, RNA from RNAcentral and complexes from ComplexPortal).
  - id: infores:eco
    status: released
    name: Evidence & Conclusion Ontology
    xref:
      - https://obofoundry.org/ontology/eco.html
    synonym:
      - ECO
    knowledge level: curated
    agent type: not_provided
  - id: infores:ecto
    status: released
    name: Environmental conditions, treatments and exposures ontology
    xref:
      - https://obofoundry.org/ontology/ecto.html
    synonym:
      - ECTO
    knowledge level: curated
    agent type: not_provided
  - id: infores:eram
    status: released
    name: 'eRAM: encyclopedia of rare disease annotations for precision medicine'
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/eRAM
    synonym:
      - eRAM
    knowledge level: curated
    agent type: not_provided
    description: encyclopedia of rare disease annotations for precision medicine
  - id: infores:efo
    status: released
    name: Experimental Factor Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/EFO
    synonym:
      - EFO
    knowledge level: curated
    agent type: not_provided
  - id: infores:ehdaa2
    status: released
    name: Human Developmental Anatomy Ontology
    xref:
      - http://obofoundry.org/ontology/ehdaa2.html
    synonym:
      - EHDAA2
    knowledge level: curated
    agent type: not_provided
  - id: infores:ensembl-gene
    status: released
    name: Ensembl gene
    xref:
      - https://www.ebi.ac.uk/training/online/courses/ensembl-browsing-genomes/exploring-sources-of-biological-data/ensembl-genes/
    knowledge level: curated
    agent type: not_provided
  - id: infores:entrez
    status: released
    name: Entrez
    xref:
      - https://www.ncbi.nlm.nih.gov/Web/Search/entrezfs.html
    synonym:
      - NCBIGene
    knowledge level: curated
    agent type: not_provided
  - id: infores:erc-analysis
    status: deprecated
    name: Evolutionary Rate Covariation (ERC) Analysis
    synonym:
      - ERC Analysis
    knowledge level: correlation
    agent type: not_provided
  - id: infores:explanatory-agent
    status: deprecated
    name: Explanatory Agent API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Explanatory-Agent
    knowledge level: predicted
    agent type: not_provided
    description: A Translator Reasoner API for the Explanatory Agent
  - id: infores:fhir-pit
    status: deprecated
    name: FHIR Patient data Integration Tool
    xref:
      - https://researchsoftwareinstitute.github.io/data-translator/apps/fhir-pit
    synonym:
      - FHIR PIT
    knowledge level: curated
    agent type: not_provided
  - id: infores:fma-obo
    status: released
    name: Foundational Model of Anatomy Ontology (FMA -- both from UMLS and from OBO)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/FMA/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:fma-umls
    status: released
    name: Foundational Model of Anatomy Ontology (FMA -- both from UMLS and from OBO)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/FMA/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:fooddb
    status: released
    name: Food Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FooDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:foodon
    status: released
    name: Food Ontology
    xref:
      - http://www.obofoundry.org/ontology/foodon.html
    synonym:
      - FOODON
    knowledge level: curated
    agent type: not_provided
  - id: infores:gdc
    status: released
    name: National Cancer Institute Genomic Data Commons Data Portal
    xref:
      - https://portal.gdc.cancer.gov/projects/
    synonym:
      - GDC
    knowledge level: curated
    agent type: not_provided
  - id: infores:gdsc
    status: released
    name: Genomics of Drug Sensitivity in Cancer
    xref:
      - https://www.cancerrxgene.org/faq
    synonym:
      - GDSC
    knowledge level: curated
    agent type: not_provided
  - id: infores:genage
    status: released
    name: GenAge Database of Ageing-Related Genes
    xref:
      - http://genomics.senescence.info/genes/
    synonym:
      - GenAge; The Aging Gene Database
    knowledge level: curated
    agent type: not_provided
  - id: infores:gencc
    status: released
    name: The Gene Curation Coalition (GenCC)
    xref:
      - https://thegencc.org/
    knowledge level: curated
    agent type: not_provided
    description: >-
      The GenCC DB provides information pertaining to the validity of gene-disease
      relationships, with a current focus on Mendelian diseases
  - id: infores:gendr
    status: released
    name: GenDR Database of Dietary Restriction-Related Genes
    xref:
      - http://genomics.senescence.info/diet/
    synonym:
      - GenDR
    knowledge level: curated
    agent type: not_provided
  - id: infores:genebass
    status: released
    name: 'Genebass: Gene-based association summary statistics'
    xref:
      - https://genebass.org/
    knowledge level: curated
    agent type: not_provided
    description: >-
      Genebass is a resource of exome-based association statistics, made
      available to the public. The dataset encompasses 3,817 phenotypes with gene-based
      and single-variant testing across 281,852 individuals with exome sequence data
      from the UK Biobank.
  - id: infores:genepio
    status: released
    name: Genomic Epidemiology Ontology
    xref:
      - https://genepio.org/
    synonym:
      - GenEpiO
    knowledge level: curated
    agent type: not_provided
  - id: infores:geneprof
    status: released
    name: GeneProf
    xref:
      - https://bio.tools/geneprof
    knowledge level: curated
    agent type: not_provided
    description: underlying resource is throwing 404 error atm
  - id: infores:genetics-data-provider
    status: released
    name: Genetics KP
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Genetics-Knowledge-Provider
    knowledge level: curated
    agent type: not_provided
    description: >-
      TRAPI 1.1 endpoint for the NCATS Biomedical Translator Genetics Data KP
  - id: infores:ghr
    status: released
    name: Genetics Home Reference
    xref:
      - https://ghr.nlm.nih.gov/
    knowledge level: curated
    agent type: not_provided
  - id: infores:gnbr
    status: released
    name: Global Network of Biomedical Relationships
    xref:
      - https://zenodo.org/record/1035500
    synonym:
      - GNBR
    knowledge level: curated
    agent type: not_provided
  - id: infores:go
    status: released
    name: Gene Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/go
    knowledge level: curated
    agent type: not_provided
  - id: infores:go-cam
    status: released
    name: Gene Ontology Causal Activity Model Annotations
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GO%E2%80%90CAM
    synonym:
      - GO-CAM
    knowledge level: curated
    agent type: not_provided
  - id: infores:go-plus
    status: released
    name: Gene Ontology Plus
    synonym:
      - GO-Plus
    knowledge level: curated
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GO%E2%80%90Plus
  - id: infores:human-goa
    status: released
    name: Human Gene Ontology Annotations
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Human-GOA
  - id: infores:goa
    status: released
    name: Gene Ontology Annotations
    xref:
      - http://www.geneontology.org/
    synonym:
      - GOA
    knowledge level: curated
    agent type: not_provided
  - id: infores:gote
    status: deprecated
    name: GOTE (Gpcrs to dOwnstream cellular pathways byTissue Expression)
    xref:
      - http://tatonettilab.org/resources/GOTE/source_code/
    synonym:
      - GOTE
    knowledge level: curated
    agent type: not_provided
  - id: infores:gtrx
    status: released
    name: Genome-to-Treatment
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/gtrx
    knowledge level: curated
    agent type: not_provided
  - id: infores:gtex
    status: released
    name: 'Genotype-Tissue Expression '
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GTEx
    synonym:
      - GTEx
    knowledge level: curated
    agent type: not_provided
  - id: infores:gtopdb
    status: released
    name: Guide to Pharmacology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GtoPdb
    knowledge level: curated
    agent type: not_provided
    description: >-
      An expert-curated resource of ligand-activity-target relationships,
      the majority of which come from high-quality pharmacological and medicinal chemistry
      literature
  - id: infores:gwas-catalog
    status: released
    name: GWAS Catalog
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GWAS-Catalog
    synonym:
      - GWAS
    knowledge level: correlation
    agent type: not_provided
  - id: infores:hcp-codes-umls
    status: released
    name: Healthcare Common Procedure Coding System (from UMLS)
    xref:
      - https://www.cms.gov/medicare/coding/medhcpcsgeninfo
    knowledge level: curated
    agent type: not_provided
  - id: infores:hcpcs-cpt-umls
    status: released
    name: HCPCS Version of Current Procedural Terminology (HCPT) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/HCPT/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:hetionet
    status: released
    name: Hetionet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Hetionet
    knowledge level: curated
    agent type: not_provided
  - id: infores:hgnc
    status: released
    name: HUGO Gene Nomenclature Committee
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HGNC
    synonym:
      - HGNC
    knowledge level: curated
    agent type: not_provided
  - id: infores:hl7-umls
    status: released
    name: Health Level Seven (HL7) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/HL7V3.0/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:hmdb
    status: released
    name: 'Human Metabolome Database '
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HMDB
    synonym:
      - HMDB
    knowledge level: curated
    agent type: not_provided
    description: >-
      A freely available electronic database containing detailed information
      about small molecule metabolites found in the human body
  - id: infores:homologene
    status: released
    name: HomoloGene
    xref:
      - https://www.ncbi.nlm.nih.gov/homologene
    knowledge level: curated
    agent type: not_provided
  - id: infores:hopkins-synthetic-patient-data
    status: released
    name: Hopkins Synthetic Patient Data
    xref:
      - http://ictrweb.johnshopkins.edu/rest/synthetic/Patient
    knowledge level: curated
    agent type: not_provided
  - id: infores:hpa
    status: released
    name: Human Protein Atlas
    xref:
      - http://www.proteinatlas.org/
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Human Protein Atlas is a Swedish-based program initiated in 2003
      with the aim to map all the human proteins in cells, tissues and organs using
      an integration of various omics technologies, including antibody-based imaging,
      mass spectrometry-based proteomics, transcriptomics and systems biology. All the
      data in the knowledge resource is open access to allow scientists both in academia
      and industry to freely access the data for exploration of the human proteome.
  - id: infores:hpo
    status: released
    name: Human Phenotype Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HPO
    knowledge level: curated
    agent type: not_provided
  - id: infores:hpo-annotations
    status: released
    name: Human Phenotype Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HPO-Annotations
    synonym:
      - HPO Annotations
    knowledge level: curated
    agent type: not_provided
  - id: infores:icd10-umls
    status: released
    name: ICD10 (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:icd10ae-umls
    status: released
    name: ICD10AE (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10AE/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:icd10cm-umls
    status: released
    name: ICD10CM (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10CM/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:icd10pcs-umls
    status: released
    name: ICD10PCS (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10PCS/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:icd9cm-umls
    status: released
    name: ICD9CM (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD9CM/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:icees-kg
    status: released
    name: ICEES (Integrated Clinical and Environmental Exposures Service)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Exposures-Provider-ICEES
    synonym:
      - KP
    knowledge level: correlation
    agent type: not_provided
    description: Information Resource
  - id: infores:idisk
    status: released
    name: integrated Dietary Supplement Knowledge Base
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/iDISK
    synonym:
      - iDISK
    knowledge level: curated
    agent type: not_provided
    description: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7075538/
  - id: infores:improving-agent
    status: released
    name: imProving Agent
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/imProving-Agent
    knowledge level: predicted
    agent type: not_provided
    description: imProving Agent OpenAPI TRAPI Specification
  - id: infores:indigo-reasoner
    status: deprecated
    name: OpenAPI for indigo NCATS Biomedical Translator Reasoner
    xref:
      - https://github.com/NCATSTranslator/ReasonerAPI
    knowledge level: curated
    agent type: not_provided
    description: OpenAPI for indigo NCATS Biomedical Translator Reasoner
  - id: infores:ino
    status: released
    name: Interaction Network Ontology
    xref:
      - http://www.obofoundry.org/ontology/ino.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:intact
    status: released
    name: IntAct
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/IntAct
    knowledge level: curated
    agent type: not_provided
  - id: infores:interactome-ccsb
    status: released
    name: Interactome Projects at CCSB
    xref:
      - http://interactome.dfci.harvard.edu/
    knowledge level: curated
    agent type: not_provided
  - id: infores:interpro
    status: released
    name: InterPro
    xref:
      - http://www.ebi.ac.uk/interpro
    knowledge level: curated
    agent type: not_provided
  - id: infores:inxight-drugs
    status: released
    name: 'Inxight: Drugs'
    xref:
      - https://drugs.ncats.io/
    knowledge level: curated
    agent type: not_provided
    description: >-
      NCATS Inxight Drugs contains information on ingredients in medicinal
      products, including: US APPROVED DRUGS, MARKETED DRUGS and INVESTIGATIONAL DRUGS.
      Manually curated data supplied by the FDA and private companies, and provides
      marketing and regulatory status, rigorous drug ingredient definitions, biological
      activity, clinical use, and more.
  - id: infores:iproclass
    status: released
    name: iProClass
    xref:
      - http://pir.georgetown.edu/iproclass/
    knowledge level: curated
    agent type: not_provided
  - id: infores:irefindex
    status: released
    name: iRefIndex
    xref:
      - https://irefindex.vib.be/wiki/index.php/iRefIndex
    knowledge level: curated
    agent type: not_provided
  - id: infores:isb-incov
    status: released
    name: Institute for Systems Biology COVID-19 Immune Response Study
    xref:
      - https://isbscience.org/research/covid-19/
    synonym:
      - ISB Novel COronaVirus
    knowledge level: curated
    agent type: not_provided
  - id: infores:isb-wellness
    status: released
    name: Institute for Systems Biology Scientific Wellness
    xref:
      - https://isbscience.org/research/scientificwellness/
    knowledge level: curated
    agent type: not_provided
  - id: infores:kegg
    status: released
    name: Kyoto Encyclopedia of Genes and Genomes (KEGG)
    xref:
      - https://www.genome.jp/kegg/
    synonym:
      - KEGG
    knowledge level: curated
    agent type: not_provided
  - id: infores:kgea
    status: released
    name: Knowledge Graph Exchange Archive
    xref:
      - https://archive.translator.ncats.io/
    knowledge level: curated
    agent type: not_provided
  - id: infores:kinomescan
    status: released
    name: KINOMEscan
    xref:
      - https://lincs.hms.harvard.edu/kinomescan/
    knowledge level: raw_data
    agent type: experimental
  - id: infores:knowledge-collaboratory
    status: released
    name: Translator Knowledge Collaboratory API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Knowledge-Collaboratory-KP
    knowledge level: curated
    agent type: not_provided
    description: >-
      Translator Reasoner API for the Knowledge Collaboratory,hosted on the [Nanopublications
      network](https://nanopub.net/), for annotated drug  indications or any other BioLink-compliant
      claims. This Open API supports [Translator Reasoner API](https://github.com/NCATSTranslator/ReasonerAPI)
      queries and the [`KGX`](https://github.com/biolink/kgx) format   See the API GitHub
      repository: https://github.com/MaastrichtU-IDS/knowledge-collaboratory-api
      This service is supported by the [NCATS Translator project](https://ncats.nih.gov/translator/about)'
  - id: infores:life-science-resource-registry
    status: released
    name: Life Science Resource Registry
    xref:
      - https://download.bio2rdf.org/files/release/3/lsr/lsr.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:lincs
    status: released
    name: Library of Integrated Network-Based Cellular Signatures
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/LINCS
    knowledge level: curated
    agent type: not_provided
    synonym:
      - LINCS
  - id: infores:linkedspl
    status: deprecated
    name: Linked Structured Product Labels
    knowledge level: curated
    agent type: not_provided
  - id: infores:litvar
    status: released
    name: LitVar API
    xref:
      - https://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/LitVar/
    knowledge level: curated
    agent type: not_provided
    description: >-
      LitVar allows the search and retrieval of variant relevant information
      from the biomedical literature and shows key biological relations between a variant
      and its close related entities (e.g. genes, diseases, and drugs). The LitVar results
      are automatically extracted (with regular updates) from over 27 million PubMed
      articles as well as applicable full-text articles in PubMed Central.
  - id: infores:loinc
    status: released
    name: Logical Observation Identifiers Names and Codes
    xref:
      - https://loinc.org/
    synonym:
      - LOINC
    knowledge level: curated
    agent type: not_provided
  - id: infores:loinc-umls
    status: released
    name: LOINC (from UMLS)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/LOINC-%E2%80%90-UMLS
    knowledge level: curated
    agent type: not_provided
  - id: infores:mp
    status: released
    name: Mammalian Phenotype Ontology
    xref:
      - https://obofoundry.org/ontology/mp.html
    knowledge level: curated
    agent type: not_provided
    description: Standard terms for annotating mammalian phenotypic data.
  - id: infores:maxo
    status: released
    name: Medical Action Ontology
    xref:
      - http://www.obofoundry.org/ontology/maxo.html
    synonym:
      - MAXO
    knowledge level: curated
    agent type: not_provided
    description: see also https://github.com/monarch-initiative/MAxO
  - id: infores:meddra-umls
    status: released
    name: MedDRA (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/MDR/index.html#:~:text=MedDRA%20is%20an%20international%20medical,effects%20and%20malfunction%20of%20devices.
    synonym:
      - MEDRA
    knowledge level: curated
    agent type: not_provided
  - id: infores:medgen
    status: released
    name: MedGen
    xref:
      - https://www.ncbi.nlm.nih.gov/medgen/
    synonym:
      - MedGen
    knowledge level: curated
    agent type: not_provided
  - id: infores:medlineplus
    status: released
    name: MedlinePlus (from UMLS)
    xref:
      - https://medlineplus.gov/
    knowledge level: curated
    agent type: not_provided
  - id: infores:medrt-umls
    status: released
    name: Medication Reference Terminology (MED-RT) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/MED-RT/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:mesh
    status: released
    name: Medical Subject Headings Thesaurus
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/MeSH
    synonym:
      - MeSH
    knowledge level: curated
    agent type: not_provided
  - id: infores:metacyc
    status: released
    name: MetaCyc Metabolic Pathway Database
    xref:
      - https://metacyc.org/
    synonym:
      - MetaCyc
    knowledge level: curated
    agent type: not_provided
  - id: infores:emapa
    status: released
    name: Mouse Developmental Anatomy Ontology
    xref:
      - https://obofoundry.org/ontology/emapa.html
    synonym:
      - EMAPA
    knowledge level: curated
    agent type: not_provided
    description: >-
      An ontology for mouse anatomy covering embryonic development and postnatal
      stages.
  - id: infores:mgi
    status: released
    name: Mouse Genome Informatics
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/mgi
    synonym:
      - MGI
    knowledge level: curated
    agent type: not_provided
  - id: infores:mpath
    status: released
    name: Mouse pathology ontology
    xref:
      - https://obofoundry.org/ontology/mpath.html
    synonym:
      - MPATH
    knowledge level: curated
    agent type: not_provided
    description: >-
      A structured controlled vocabulary of mutant and transgenic mouse pathology
      phenotypes
  - id: infores:mi
    status: released
    name: Molecular Interactions Controlled Vocabulary
    xref:
      - http://www.obofoundry.org/ontology/mi.html
    synonym:
      - MI
    knowledge level: curated
    agent type: not_provided
  - id: infores:mirbase
    status: released
    name: The microRNA Database
    xref:
      - http://www.mirbase.org/
    synonym:
      - miRBase
    knowledge level: curated
    agent type: not_provided
  - id: infores:mirgate
    status: released
    name: MiRGate
    xref:
      - https://pubmed.ncbi.nlm.nih.gov/25858286/
    knowledge level: curated
    agent type: not_provided
  - id: infores:molepro
    status: released
    name: Molecular Data Provider for NCATS Biomedical Translator Reasoners
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Molecular-Data-Provider
    knowledge level: curated
    agent type: not_provided
    description: Molecular Data Provider for NCATS Biomedical Translator Reasoners
  - id: infores:monarch-data
    status: deprecated
    name: SciGraph-Monarch-Data
    xref:
      - scigraph-data.monarchinitiative.org/scigraph/docs/
    knowledge level: curated
    agent type: not_provided
  - id: infores:monarch-ontology
    status: deprecated
    name: SciGraph-Monarch-Ontology
    xref:
      - scigraph-ontology.monarchinitiative.org/scigraph/docs/
    knowledge level: not_provided
    agent type: not_provided
  - id: infores:monarchinitiative
    status: released
    name: Monarch Initiative
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Reference-Knowledge-Graph
    knowledge level: curated
    agent type: not_provided
  - id: infores:mondo
    status: released
    name: MONDO Disease Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/mondo
    synonym:
      - MONDO
    knowledge level: curated
    agent type: not_provided
  - id: infores:mop
    status: released
    name: Molecular Process Ontology
    xref:
      - http://www.obofoundry.org/ontology/mop.html
    synonym:
      - MOP
    knowledge level: curated
    agent type: not_provided
  - id: infores:mousemine
    status: released
    name: Mouse Genome Informatics Mousemine
    xref:
      - http://www.mousemine.org/mousemine/api.do
    synonym:
      - Mousemine
    knowledge level: curated
    agent type: not_provided
  - id: infores:msigdb
    status: released
    name: Molecular Signatures Database
    xref:
      - https://www.gsea-msigdb.org/gsea/msigdb
    synonym:
      - MSigDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:mychem-info
    status: released
    name: MyChem.info API
    xref:
      - http://mychem.info
    synonym:
      - mychem
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the MyChem.info chem query web services.  Learn more
      about [MyChem.info](http://MyChem.info/)
  - id: infores:mydisease-info
    status: released
    name: MyDisease.info API
    xref:
      - http://mydisease.info/
    synonym:
      - mydisease
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the MyDisease.info disease query web services.  Learn
      more about [mydisease.info](http://mydisease.info/)
  - id: infores:mygene-info
    status: released
    name: MyGene.info API
    xref:
      - https://mygene.info/
    synonym:
      - mygene
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the MyGene.info Gene Query web services. Learn more
      about [MyGene.info](http://mygene.info/)
  - id: infores:myvariant-info
    status: released
    name: MyVariant.info API
    xref:
      - http://myvariant.info/
    synonym:
      - myvariant
    knowledge level: curated
    agent type: not_provided
    description: >-
      Documentation of the MyVariant.info Variant Query web services. Learn
      more about [MyVariant.info](http://myvariant.info/)
  - id: infores:nanopublications
    status: released
    name: Nanopublications Network
    xref:
      - http://nanopub.net/
    synonym:
      - Nanopublications
    knowledge level: curated
    agent type: not_provided
  - id: infores:nbo
    status: released
    name: Neuro Behavior Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NBO
    synonym:
      - NBO
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncats-ars
    status: released
    name: National Center for Advancing Translational Science Biomedical Data Translator
      Autonomous Relay System
    synonym:
      - NCATS Translator Autonomous Relay System Translator  Autonomous Relay System
      - NCATS Translator ARS
    knowledge level: curated
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Autonomous-Relay-System-(ARS)
  - id: infores:ncbi-gene
    status: released
    name: National Center for Biotechnology Information Gene
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ncbi-gene
    synonym:
      - NGBI Gene
      - ncbigene
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncbi-taxon
    status: released
    name: NCBI Taxonomy Ontology
    xref:
      - http://www.obofoundry.org/ontology/ncbitaxon.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncbi-taxonomy
    status: released
    name: NCBI Taxonomy
    xref:
      - http://www.ncbi.nlm.nih.gov/taxonomy
    synonym:
      - ncbitaxonomy
      - ncbitaxon
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncdeq-cafo-exposures-data
    status: deprecated
    name: North Carolina Department of Environmental Quality Concentrated Animal Feeding Operations Exposures Data
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncdeq-landfill-exposures-data
    status: deprecated
    name: North Carolina Department of Environmental Quality Landfill Exposures Data
    knowledge level: curated
    agent type: not_provided
  - id: infores:nces-schools-exposure-data
    status: released
    name: NCES public school exposures data
    xref:
      - https://nces.ed.gov/
    synonym:
      - NCES Data
    knowledge level: curated
    agent type: not_provided
  - id: infores:ncit
    status: released
    name: National Cancer Institute Thesaurus
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NCIT
    synonym:
      - NCT Thesaurus
      - NCIt
    knowledge level: curated
    agent type: not_provided
  - id: infores:ndcd
    status: released
    name: National Drug Code Directory
    xref:
      - https://www.fda.gov/drugs/drug-approvals-and-databases/national-drug-code-directory
    synonym:
      - NDCD
    knowledge level: curated
    agent type: not_provided
  - id: infores:nddf-umls
    status: deprecated
    name: National Drug Data File (NDDF) (from UMLS)
  - id: infores:ndex
    status: released
    name: NDEx
    xref:
      - http://www.ndexbio.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:ndfrt
    status: released
    name: National Drug File - Reference Terminology (NDF-RT) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/rxnorm/sourcereleasedocs/vandf.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:nexo-align
    status: released
    name: NEXO Align Ontology
    xref:
      - http://nexo.ucsd.edu/
    knowledge level: curated
    agent type: not_provided
  - id: infores:nexo-construct
    status: released
    name: NEXO Construct Ontology
    xref:
      - http://nexo.ucsd.edu/
    knowledge level: curated
    agent type: not_provided
  - id: infores:niehs-epr-study-datae
    status: deprecated
    name: NIEHS Environmental Polymorphisms Registry
    synonym:
      - NIEHS EPR
    knowledge level: curated
    agent type: not_provided
  - id: infores:nsides
    status: released
    name: nSides
    xref:
      - https://www.nsides.io/
    knowledge level: curated
    agent type: not_provided
  - id: infores:ols
    status: released
    name: Ontology Lookup Service API
    xref:
      - https://www.ebi.ac.uk/ols/docs/api
    synonym:
      - OLS
    knowledge level: curated
    agent type: not_provided
    description: >-
      The OLS REST API provides access to key biological data from OLS.
      The services provide a unified interface to query information about ontology terms
      from GO (the Gene Ontology) and ECO (the Evidence & Conclusion Ontology), Gene
      Ontology annotations from the EBI's GOA database, and gene products (proteins
      from UniProt, RNA from RNAcentral and complexes from ComplexPortal).
  - id: infores:omicsdi
    status: released
    name: OmicsDI
    xref:
      - http://www.omicsdi.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:omim
    status: released
    name: Online Mendelian Inheritance in Man (OMIM)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OMIM
    synonym:
      - OMIM
    knowledge level: curated
    agent type: not_provided
  - id: infores:omnicorp
    status: released
    name: OmniCorp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OmniCorp
    synonym:
      - OmniCorp
    knowledge level: curated
    agent type: not_provided
  - id: infores:omop-cdm
    status: released
    name: Observational Medical Outcomes Partnership Common Data Model
    xref:
      - https://www.ohdsi.org/data-standardization/the-common-data-model/
    synonym:
      - OMOP-CDM
    knowledge level: curated
    agent type: not_provided
  - id: infores:omop-ohdsi-api
    status: released
    name: Observational Medical Outcomes Partnership Observational Health Data Sciences
      and Informatics API
    xref:
      - https://chime.ucsf.edu/observational-medical-outcomes-partnership-omop
    synonym:
      - OMOP OHDSI API
    knowledge level: curated
    agent type: not_provided
  - id: infores:open-targets
    status: released
    name: Open Targets
    xref:
      - https://www.opentargets.org/
    knowledge level: curated
    agent type: not_provided
  - id: infores:openpredict
    status: released
    name: OpenPredict API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OpenPredict-KP
    knowledge level: predicted
    agent type: not_provided
    description: >-
      Get predicted targets for a given entity.  The potential drugs treating
      a given disease, or the potential diseases a given drug could treat. 
      Use the `/predict` operation to easily retrieve predictions for a given entity
      (operation annotated for the 
      [BioThings Explorer](https://x-bte-extension.readthedocs.io/en/latest/x-bte-kgs-operations.html)).
      Predictions are currently produced using the 
      [PREDICT method](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3159979/)
      from the [fair-workflows/openpredict](https://github.com/fair-workflows/openpredict)
      project.  You can also install the [OpenPredict Python package](https://pypi.org/project/openpredict/)
      to train and serve a new model yourself. More documentation available at 
      https://github.com/MaastrichtU-IDS/translator-openpredict/actions/workflows/run-tests-prod.yml. Service
      supported by the [NCATS Translator project](https://ncats.nih.gov/translator/about)
  - id: infores:ordo
    status: released
    name: Orphanet Rare Disease Ontology
    xref:
      - https://bioportal.bioontology.org/ontologies/ORDO
    synonym:
      - ORDO
    knowledge level: curated
    agent type: not_provided
  - id: infores:orphanet
    status: released
    name: Orphanet
    xref:
      - https://www.orpha.net
    knowledge level: curated
    agent type: not_provided
  - id: infores:owlsim
    status: released
    name: OWLSim Ontology Based Profile Matching
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OWLSim
    knowledge level: curated
    agent type: not_provided
  - id: infores:oxo
    status: released
    name: Ontology Xref Service
    xref:
      - https://www.ebi.ac.uk/spot/oxo/
    synonym:
      - OxO
    knowledge level: curated
    agent type: not_provided
  - id: infores:panther
    status: released
    name: Panther Classification System
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PANTHER
    synonym:
      - Panther
    knowledge level: curated
    agent type: not_provided
  - id: infores:path-pheno-db
    status: released
    name: PathoPhenoDB
    xref:
      - http://patho.phenomebrowser.net/#/
    knowledge level: curated
    agent type: not_provided
  - id: infores:pathway-commons
    status: released
    name: Pathway Commons
    xref:
      - https://www.pathwaycommons.org/
    knowledge level: curated
    agent type: not_provided
  - id: infores:pathwhiz
    status: released
    name: PathWhiz
    xref:
      - https://smpdb.ca/pathwhiz
    knowledge level: curated
    agent type: not_provided
  - id: infores:pato
    status: released
    name: Phenotype and Trait Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PATO
    synonym:
      - PATO
    knowledge level: curated
    agent type: not_provided
  - id: infores:phenio
    status: released
    name: Phenomics Integrated Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/phenio
    synonym:
      - PHENIO
    knowledge level: curated
    agent type: not_provided
    description: >-
      An ontology for accessing and comparing knowledge concerning phenotypes
      across species and genetic backgrounds.
  - id: infores:patric
    status: released
    name: Pathosystems Resource Integration Center
    xref:
      - https://ngdc.cncb.ac.cn/databasecommons/database/id/230
    synonym:
      - PATRIC
    knowledge level: curated
    agent type: not_provided
  - id: infores:pgxmine
    status: released
    name: Text Mined pharmacogenomic polymorphisms
    xref:
      - https://pgxmine.pharmgkb.org/
    synonym:
      - PGxMine
    knowledge level: curated
    agent type: not_provided
    description: Text mined pharmacogenomic polymorphisms to assist curation of PharmGKB.
  - id: infores:pdsp
    status: released
    name: Psychoactive Drug Screening Program
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PDSP
    knowledge level: not_provided
    agent type: not_provided
    description: >-
      This service provides screening of novel psychoactive compounds for pharmacological and 
      functional activity at cloned human or rodent CNS receptors, channels, and transporters.
  - id: infores:pdq-umls
    status: released
    name: Physician Data Query (PDQ) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/PDQ/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:pfam
    status: released
    name: Pfam
    xref:
      - https://www.ebi.ac.uk/interpro
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Pfam database is a large collection of protein families, each represented
      by multiple sequence alignments and hidden Markov models (HMMs).  Proteins are
      generally composed of one or more functional regions, commonly termed domains.
      Different combinations of domains give rise to the diverse range of proteins found
      in nature. The identification of domains that occur within proteins can therefore
      provide insights into their function.  Pfam also generates higher-level groupings
      of related entries, known as clans. A clan is a collection of Pfam entries which
      are related by similarity of sequence, structure or profile-HMM.  The data presented
      for each entry is based on the UniProt Reference Proteomes but information on
      individual UniProtKB sequences can still be found by entering the protein accession.
      Pfam full alignments are available from searching a variety of databases, either
      to provide different accessions (e.g. all UniProt and NCBI GI) or different levels
      of redundancy.
  - id: infores:pharmacotherapydb
    status: released
    name: Pharmacotherapy Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Pharmacotherapy-Database
    synonym:
      - PharmacotherapyDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:pharmgkb
    status: released
    name: Pharmacogenomics Knowledgebase
    xref:
      - https://www.pharmgkb.org/
    synonym:
      - PharmGKB
    knowledge level: curated
    agent type: not_provided
  - id: infores:pharos
    status: released
    name: Pharos
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Pharos
    knowledge level: curated
    agent type: not_provided
    description: >-
      focusing on three of the most commonly drug-targeted protein families:
      G-protein-coupled receptors (GPCRs, Ion channels (ICs), Kinases
  - id: infores:pr
    status: released
    name: Protein Ontology
    xref:
      - https://proconsortium.org/
    synonym:
      - PRO
    knowledge level: curated
    agent type: not_provided
  - id: infores:prefixcommons
    status: deprecated
    name: Prefix Commons
    xref:
      - https://github.com/prefixcommons
    knowledge level: curated
    agent type: not_provided
  - id: infores:preppi
    status: released
    name: PrePPI
    xref:
      - https://honiglab.c2b2.columbia.edu/PrePPI/
    synonym:
      - PrePPI
    knowledge level: predicted
    agent type: not_provided
  - id: infores:probe-miner
    status: released
    name: Probe Miner
    xref:
      - https://probeminer.icr.ac.uk
    knowledge level: correlation
    agent type: not_provided
  - id: infores:psy-umls
    status: released
    name: Psychological Index Terms (PSY) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/PSY/index.html#:~:text=PSY%20(Psychological%20Index%20Terms)%20%2D%20Synopsis,-Synopsis%20Metadata%20Statistics&text=The%20Thesaurus%20of%20Psychological%20Index%20Terms%20is%20a%20controlled%20vocabulary,provide%20subject%20searching%20of%20data.
    knowledge level: curated
    agent type: not_provided
  - id: infores:pubchem
    status: released
    name: PubChem
    xref:
      - https://pubchem.ncbi.nlm.nih.gov/
    knowledge level: curated
    agent type: not_provided
    description: >-
      an open chemistry database at the National Institutes of Health (NIH),
      mostly contains small molecules, but also larger molecules such as nucleotides,
      carbohydrates, lipids, peptides, and chemically-modified macromolecules
  - id: infores:pubmed
    status: released
    name: PubMed
    xref:
      - https://pubmed.ncbi.nlm.nih.gov/
    knowledge level: curated
    agent type: not_provided
  - id: infores:pubmed-central
    status: released
    name: PubMed Central
    xref:
      - https://www.ncbi.nlm.nih.gov/pmc/tools/openftlist/
    synonym:
      - PMC
    knowledge level: curated
    agent type: not_provided
  - id: infores:quickgo
    status: released
    name: QuickGO
    xref:
      - https://www.ebi.ac.uk/QuickGO/api/index.html#!/gene_ontology/baseUrlUsingGET_1
    synonym:
      - QuickGO
    knowledge level: curated
    agent type: not_provided
  - id: infores:reactome
    status: released
    name: Reactome
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/reactome
    knowledge level: curated
    agent type: not_provided
  - id: infores:renci-bionames
    status: released
    name: RENCI BioNames
    xref:
      - https://bionames.renci.org/apidocs/#/default/get_lookup__q___concept__
    synonym:
      - Bionames
    knowledge level: curated
    agent type: not_provided
  - id: infores:repodb
    status: released
    name: Drug Repositioning Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/repoDB
    synonym:
      - repoDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:rgd
    status: released
    name: RGD API
    xref:
      - https://rgd.mcw.edu/
    knowledge level: curated
    agent type: not_provided
    description: The RGD API
  - id: infores:ro
    status: released
    name: Relations Ontology
    xref:
      - http://www.obofoundry.org/ontology/ro.html
    synonym:
      - RO
    knowledge level: curated
    agent type: not_provided
  - id: infores:robokop
    status: released
    name: ROBOKOP
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ARAGORN#ROBOKOP
    synonym:
      - Robokop
    knowledge level: curated
    agent type: not_provided
    description: An API for answering biomedical questions
  - id: infores:robokop-kg
    name: ROBOKOP KG
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ROBOKOP-KG
    knowledge level: curated
    agent type: not_provided
  - id: infores:robokop-kp
    status: released
    name: ROBOKOP (Reasoning Over Biomedical Objects linked in Knowledge-Oriented Pathway)
    xref:
      - http://robokop.renci.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:robokp-ranker
    status: released
    name: ROBOKOP Ranker
    xref:
      - http://robokop.renci.org
    knowledge level: curated
    agent type: not_provided
    description: An API for answering biomedical questions
  - id: infores:rtx-kg2
    status: released
    name: RTX KG2
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/RTX%E2%80%90KG2
    synonym:
      - Rtx-kg2
    knowledge level: curated
    agent type: not_provided
    description: TRAPI 1.1 endpoint for the NCATS Biomedical Translator KP called RTX
      KG2
  - id: infores:rxnorm
    status: released
    name: RxNorm
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/RxNORM
    knowledge level: curated
    agent type: not_provided
    description: >-
      normalized names for clinical drugs and links its names to many of
      the drug vocabularies commonly used in pharmacy management and drug interaction
      software, including those of First Databank, Micromedex, and Gold Standard Drug
      Database
  - id: infores:sabio-rk
    status: released
    name: SABIO-RK Biochemical Reaction Kinetics Database
    xref:
      - http://sabiork.h-its.org/
    knowledge level: curated
    agent type: not_provided
  - id: infores:scibite
    status: released
    name: Semantic Analytics & Clean Data Intelligence Experts
    xref:
      - https://www.scibite.com/
    knowledge level: text_mined
    agent type: not_provided
  - id: infores:semmeddb
    status: released
    name: Semantic Medline Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SemMedDB
    knowledge level: text_mined
    agent type: not_provided
  - id: infores:sgd
    status: released
    name: Saccharomyces Genome Database
    xref:
      - http://www.yeastgenome.org/
    knowledge level: curated
    agent type: not_provided
  - id: infores:sider
    status: released
    name: SIDER
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SIDER
    knowledge level: curated
    agent type: not_provided
  - id: infores:smart-api
    name: SmartAPI API
    knowledge level: curated
    agent type: not_provided
    description: This is the API provided from [SmartAPI](https://smart-api.info) application.
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Smart-API-Registry
  - id: infores:smartapi
    status: released
    name: SmartAPI API
    xref:
      - https://smart-api.info
    knowledge level: curated
    agent type: not_provided
    description:
      - This is the API provided from [SmartAPI](https://smart-api.info) application.
  - id: infores:smpdb
    status: released
    name: Small Molecule Pathway Database (SMPDB)
    xref:
      - https://smpdb.ca/
    synonym:
      - SMPDB
    knowledge level: curated
    agent type: not_provided
  - id: infores:snomedct
    status: released
    name: Systemized Nomenclature of Medicine
    xref:
      - http://www.snomed.org/
    synonym:
      - SNOMED
    knowledge level: curated
    agent type: not_provided
  - id: infores:snpeff
    status: released
    name: SnpEff
    xref:
      - https://pcingola.github.io/SnpEff/
    knowledge level: prediction
    agent type: computational_model
    description: >-
      Genetic variant annotation and functional effect prediction toolbox. 
      It annotates and predicts the effects of genetic variants on genes and proteins (such as amino acid changes).
  - id: infores:so
    status: released
    name: Sequence Ontology
    xref:
      - http://purl.obolibrary.org/obo/so.owl
    synonym:
      - SO
    knowledge level: curated
    agent type: not_provided
  - id: infores:spoke
    status: released
    name: SPOKE KP
    synonym:
      - Spoke
    knowledge level: curated
    agent type: not_provided
    description: SPOKE KP - an NIH NCATS Knowledge Provider to expose UCSFs SPOKE
  - id: infores:sri-edge-normalization-service
    status: deprecated
    name: Edge Normalization Service
    xref:
      - https://github.com/TranslatorSRI/EdgeNormalization
    knowledge level: curated
    agent type: not_provided
    description: SRI service to validate and normalize edges to Translator standards.
  - id: infores:sri-name-resolver
    status: released
    name: Name Resolver
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Name-Resolution-Service
    knowledge level: curated
    agent type: not_provided
    description: Service to resolve Translator concept names.
  - id: infores:sri-node-normalizer
    status: released
    name: Node Normalization
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Node-Normalizer
    knowledge level: curated
    agent type: not_provided
    description: >-
      Node normalization takes a CURIE, and returns resolved alias and
      the canonical identifier of a node.
  - id: infores:sri-ontology
    status: released
    name: Ontology-KP API
    knowledge level: curated
    agent type: not_provided
    description: TRAPI interface to integrated ontology knowledgebase
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Ontology-Service
  - id: infores:sri-reference-kg
    status: released
    name: SRI Reference Knowledge Graph API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Reference-Knowledge-Graph
    knowledge level: curated
    agent type: not_provided
    description: >-
      The SRI reference KG aims to aggregate knowledge sources across translator
      using KGX.  The initial graph contains data files provided by the Monarch Initiative
      and several ontologies.
  - id: infores:sri-semmeddb
    status: deprecated
    name: SRI SemMedDb KGX File Set
    knowledge level: curated
    agent type: not_provided
    description: >-
      The SRI Semantic Medline Database is a Biolink Model compliant KGX
      file set mapping of NIH NLM SemMedDb.  The graph contains data files generated
      by the ETL process pipeline at https://github.com/NCATS-Tangerine/semmed-biolink.
      The KGX file set is hosted on the Knowledge Graph Exchange Archive (https://archive.translator.ncats.io).
  - id: infores:startgeo
    status: released
    name: STAR GEO Search Application
    xref:
      - http://stargeo.org/
    synonym:
      - STARGEO
    knowledge level: curated
    agent type: not_provided
  - id: infores:stitch
    status: released
    name: STITCH
    xref:
      - http://stitch.embl.de/
    synonym:
      - STITCH
    knowledge level: curated
    agent type: not_provided
    description: >-
      Database of known and predicted interactions between chemicals and
      proteins. The interactions include direct (physical) and indirect (functional)
      associations
  - id: infores:strider
    status: deprecated
    name: Strider
    xref:
      - https://github.com/ranking-agent/strider
    knowledge level: curated
    agent type: not_provided
    description: Translator Autonomous Relay Agent
  - id: infores:string
    status: released
    name: Search Tool for the Retrieval of Interacting Genes/Proteins
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/STRING
    synonym:
      - STRING
    knowledge level: curated
    agent type: not_provided
  - id: infores:symp
    status: released
    name: Symptom Ontology
    xref:
      - http://www.obofoundry.org/ontology/symp.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:tcga
    status: released
    name: The Cancer Genome Atlas
    xref:
      - https://www.cancer.gov/about-nci/organization/ccg/research/structural-genomics/tcga
    synonym:
      - TCGA
    knowledge level: curated
    agent type: not_provided
  - id: infores:tcrd
    status: released
    name: Target Central Resource Database
    xref:
      - http://juniper.health.unm.edu/tcrd/
    synonym:
      - TCRD
    knowledge level: curated
    agent type: not_provided
  - id: infores:tiga
    status: released
    name: Target Illumination GWAS Analytics
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/TIGA
    synonym:
      - TIGA
    knowledge level: curated
    agent type: not_provided
    description: >-
      Aggregating and assessing experimental evidence for interpretable,
      explainable, accountable gene-trait associations.
  - id: infores:textmining-kp
    name: Text Mining KP
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Text-Mining-Provider-KG
    knowledge level: text_mined
    agent type: not_provided
  - id: infores:text-mining-provider-cooccurrence
    status: released
    name: Text Mining COOCCURRENCE API
    knowledge level: text_mined
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Text-Mining-Provider
    description: >-
      API serving a knowledge graph comprised of pairs of concepts that
      have been found to co-occur in the scientific literature. Here, cooccurrence of
      a pair of biomedical concepts within a single document or sentence serves as a
      proxy for a potential relationship between the two concepts.
  - id: infores:text-mining-provider-targeted
    status: released
    name: Text Mining Targeted Association API
    knowledge level: text_mined
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Text-Mining-Provider
    description: >-
      API serving explicitly targeted Biolink Associations extracted from
      sentences in the scientific literature. Here, targeted refers to the fact that
      this service is based on text-mining models targeted to extract specific associations
      between concepts, as opposed to concepts cooccurring with each other.
  - id: infores:tissues-expression-db
    status: released
    name: Tissue Expression Database
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Tissue-Expression-Database
    synonym:
      - TED
    knowledge level: curated
    agent type: not_provided
  - id: infores:topmed
    status: released
    name: NHLBI Trans-Omics for Precision Medicine
    xref:
      - https://www.nhlbi.nih.gov/science/trans-omics-precision-medicine-topmed-program
    synonym:
      - TOPMed
    knowledge level: curated
    agent type: not_provided
  - id: infores:ttd
    status: released
    name: Therapeutic Target Database (TTD)
    xref:
      - https://db.idrblab.net/ttd/
    synonym:
      - TTD
    knowledge level: curated
    agent type: not_provided
  - id: infores:uberon
    status: released
    name: Uber Anatomy Ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Uberon
    synonym:
      - Uberon
    knowledge level: curated
    agent type: not_provided
  - id: infores:umls
    status: released
    name: Unified Medical Language System
    xref:
      - https://www.nlm.nih.gov/research/umls/index.html
    synonym:
      - UMLS
    knowledge level: curated
    agent type: not_provided
  - id: infores:umls-metathesaurus
    status: released
    name: UMLS Metathesaurus (MTH) (from UMLS)
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/MTH/index.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:unc-cdwh-ehr-data
    status: released
    name: UNC Carolina Data Warehouse for Health Patient EHR Data
    xref:
      - https://tracs.unc.edu/index.php/services/informatics-and-data-science/cdw-h
    knowledge level: curated
    agent type: not_provided
  - id: infores:unichem
    status: released
    name: UniChem
    xref:
      - https://www.ebi.ac.uk/unichem/
    synonym:
      - unichem
    knowledge level: curated
    agent type: not_provided
  - id: infores:uniprot
    status: released
    name: UniProt Knowledgebase
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/UniProt
    synonym:
      - UniProt
    knowledge level: curated
    agent type: not_provided
  - id: infores:uniref
    status: released
    name: UniRef
    xref:
      - https://www.uniprot.org/help/uniref
    synonym:
      - UniRef
    knowledge level: curated
    agent type: not_provided
  - id: infores:unsecret-agent
    status: released
    name: Unsecret Agent OpenAPI for NCATS Biomedical Translator Reasoners
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/UnSecret-Agent
    knowledge level: predicted
    agent type: not_provided
    description: OpenAPI for NCATS Biomedical Translator Reasoners
  - id: infores:us-census-acs-data
    status: released
    name: United States Census Bureau American Community Survey Data
    xref:
      - https://www.census.gov/programs-surveys/acs/data.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:us-census-tiger-roadway-exposures-data
    status: released
    name: United States Census Bureau TIGER/line Roadway Data
    xref:
      - http://www.census.gov/geo/maps-data/data/tiger-line.html
    knowledge level: curated
    agent type: not_provided
  - id: infores:us-dot-roadway-exposures-data
    status: released
    name: United States Department of Transportation Roadway Exposures Data
    xref:
      - https://highways.dot.gov/
    knowledge level: curated
    agent type: not_provided
  - id: infores:us-epa-airborne-pollutant-exposures-data
    status: deprecated
    name: United States Environmental Protection Agency Airborne Pollutant Exposures Data
    knowledge level: curated
    agent type: not_provided
  - id: infores:upheno
    status: released
    name: Unified phenotype ontology
    xref:
      - https://obofoundry.org/ontology/upheno.html
    synonym:
      - uPheno
    knowledge level: curated
    agent type: not_provided
    description: >-
      The uPheno ontology integrates multiple phenotype ontologies into a
      unified cross-species phenotype ontology.
  - id: infores:vandf-umls
    status: released
    name: Veterans Association National Drug File (VANDF) (from UMLS)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/VANDF
    knowledge level: curated
    agent type: not_provided
  - id: infores:wikidata
    status: released
    name: Wikidata
    xref:
      - https://wikidata.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:wikidata-garbanzo
    status: released
    name: Wikidata Garbanzo
    xref:
      - https://query.wikidata.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:wikipathways
    status: released
    name: WikiPathways
    xref:
      - https://www.wikipathways.org
    knowledge level: curated
    agent type: not_provided
  - id: infores:xpo
    status: released
    name: Xenopus Phenotype Ontology
    xref:
      - https://obofoundry.org/ontology/xpo.html
    synonym:
      - XPO
    knowledge level: curated
    agent type: not_provided
    description: XPO represents anatomical, cellular, and gene function phenotypes
      occurring throughout the development of the African frogs Xenopus laevis and tropicalis.
  - id: infores:workflow-runner
    status: released
    name: Translator Workflow Runner
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Workflow-Runner
    knowledge level: curated
    agent type: not_provided
    description: Translator general purpose workflow runner
  - id: infores:wormbase
    status: released
    name: WormBase
    xref:
      - http://www.wormbase.org/
    knowledge level: curated
    agent type: not_provided
  - id: infores:zfa
    status: released
    name: Zebrafish anatomy and development ontology
    xref:
      - https://obofoundry.org/ontology/zfa.html
    synonym:
      - ZFA
    knowledge level: curated
    agent type: not_provided
    description: A structured controlled vocabulary of the anatomy and development of
      the Zebrafish
  - id: infores:zfin
    status: released
    name: Zebrafish Information Network
    xref:
      - https://zfin.org/
    synonym:
      - ZFIN
    knowledge level: curated
    agent type: not_provided
  - id: infores:ddinter
    status: released
    name: DDinter
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ddinter
    knowledge level: curated
    agent type: not_provided
    description: >-
      DDInter is anopen-access database specific to drug-drug interactions
      with annotations including mechanism description, risk levels, management strategies,
      alternative medications, etc. to improve clinical decision-making and patient
      safety.
  - id: infores:ki-database
    status: released
    name: Ki database
    xref:
      - https://pdsp.unc.edu/databases/kidb.php
    synonym:
      - KiDB
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Ki database serves as a data warehouse for published and internally-derived
      Ki, or affinity, values for a large number of drugs and drug candidates at UNC's
      Psychoactive Drug Screening Program
  - id: infores:community-sar
    status: released
    name: Community Structure-Activity Resource
    xref:
      - http://www.csardock.org/
    synonym:
      - CSAR
    knowledge level: curated
    agent type: not_provided
    description: >-
      CSAR disseminated experimental datasets of crystal structures and binding
      affinities for diverse protein-ligand complexes
  - id: infores:drug-design
    status: released
    name: Drug Design Data Resource
    xref:
      - https://drugdesigndata.org/
    synonym:
      - D3R
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Drug Design Data Resource (D3R) aims to advance the technology
      of computer-aided drug discovery through the interchange of high quality protein-ligand
      datasets
  - id: infores:aeolus
    status: released
    name: Adverse Event Open Learning through Universal Standardization (AEOLUS)
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/AEOLUS
    knowledge level: curated
    agent type: not_provided
    description: >-
      A curated and standardized version of FAERS removing duplicate case
      records, applying standardized vocabularies with drug names mapped to RxNorm concepts
      and outcomes mapped to SNOMED-CT concepts, and pre-computed summary statistics
      about drug-outcome relationships for general consumption.
  - id: infores:regl
    status: released
    name: Richards Effector Gene List
    xref:
      - https://www.mcgill.ca/genepi/
    knowledge level: curated
    agent type: not_provided
    description: An effector index to predict target genes at GWAS loci
  - id: infores:huri
    status: released
    name: The Human Reference Protein Ineractome
    xref:
      - http://www.interactome-atlas.org/download
    synonym:
      - HuRI
    knowledge level: curated
    agent type: not_provided
    description: >-
      A human ‘all-by-all’ reference interactome map of human binary protein
      interactions, or ‘HuRI’. With approximately 53,000 protein–protein interactions,
      HuRI has approximately four times as many such interactions as there are high-quality
      curated interactions from small-scale studies
  - id: infores:zp
    status: released
    name: Zebrafish Phenotype Ontology
    xref:
      - https://obofoundry.org/ontology/zp.html
    synonym:
      - ZP
    knowledge level: curated
    agent type: not_provided
    description: >-
      The Zebrafish Phenotype Ontology formally defines all phenotypes of
      the Zebrafish model organism.
  - id: infores:flybase
    status: released
    name: FlyBase
    xref:
      - https://flybase.org
    synonym:
      - FlyBase
    knowledge level: curated
    agent type: not_provided
    description: A Database of Drosophila Genes & Genomes
  - id: infores:xenbase
    status: released
    name: Xenbase
    xref:
      - https://xenbase.org
    synonym:
      - Xenbase
    knowledge level: curated
    agent type: not_provided
    description: >-
      Xenbase's mission is to provide the international research community
      with a comprehensive, integrated and easy to use web based resource that gives
      access the diverse and rich genomic, expression and functional data available
      from Xenopus research. Xenbase also provides a critical data sharing infrastructure
      for many other NIH-funded projects, and is a focal point for the Xenopus community.
      In addition to our primary goal of supporting Xenopus researchers, Xenbase enhances
      the availability and visibility of Xenopus data to the broader biomedical research
      community.
  - id: infores:biothings-rare-source
    status: released
    name: BioThings RARe-SOURCE API
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-RARe-SOURCE-API
    knowledge level: curated
    agent type: not_provided
    description: Documentation of the BioThings API for [NCATS RARe-SOURCE](https://raresource.nih.gov/) data.
  - id: infores:rare-source
    status: released
    name: NCATS RARe-SOURCE
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/rare-source
    knowledge level: curated
    agent type: not_provided
    description: Integrated Bioinformatics Resource for Rare Diseases
  - id: infores:infores:sri-answer-appraiser
    status: released
    name: SRI Answer Appraiser
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Answer-Appraiser
    knowledge level: curated
  - id: infores:sri-clinical-evidence-score
    status: released
    name: SRI Clinical Evidence Score
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Clinical-Evidence-Score
    knowledge level: curated
    agent type: not_provided
  - id: infores:sri-confidence-score
    status: released
    name: SRI Confidence Score
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Confidence-Score
    knowledge level: curated
    agent type: not_provided
  - id: infores:sri-novelty-score
    status: released
    name: SRI Novelty Score
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Novelty-Score
    knowledge level: curated
    agent type: not_provided
  - id: infores:translator-f-score
    status: released
    name: SRI Novelty Score
    knowledge level: curated
    agent type: not_provided
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Translator-f()%E2%80%90score