---
information_resources:
  - status: released
    name: Aggregate Analysis of ClinicalTrial.gov (AACT) database
    id: infores:aact
    xref:
      - https://aact.ctti-clinicaltrials.org/
    synonym:
      - AACT
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:multiomics-clinicaltrials
  - status: released
    name: Adverse Event Open Learning through Universal Standardization (AEOLUS)
    id: infores:aeolus
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/AEOLUS
    description: >-
      A knowledge_assertion 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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:mychem-info
  - status: released
    name: Alliance of Genome Resources (AGR Knowledgebase)
    id: infores:agrkb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Alliance-of-Genome-Resources
    synonym:
      - ALLIANCE
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-agr
  - status: released
    name: The Amyloidoses Collection (AmyCo) Database
    id: infores:amyco
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/AmyCo
    description: >-
      The Amyloidoses Collection (AmyCo) database contains manually curated data from articles
      on
      amyloidoses and other diseases related to amyloid deposition. The resource is not
      directly  accessible
      at this time, but Jensen Lab's [DISEASES](https://doi.org/10.1093/database/baac019)
      reports that it ingests this resource.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Annotator Service
    id: infores:annotator
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Annotator-Service
    description: >-
      Service to provide detailed annotations for any given biomedical entities.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Answer coalesce
    id: infores:answer-coalesce
    xref:
      - https://github.com/ranking-agent/AnswerCoalesce
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:arax
  - status: released
    name: Adverse Outcome Pathways Casual Activity Models
    id: infores:aop-cam
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/AOP-CAM
    synonym:
      - AOP-CAM
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ARAGORN
    id: infores:aragorn
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ARAGORN
    description: >-
      ARAGORN: Performs a query operation which compiles data from numerous
      ARAGORN ranking agent services.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:automat-binding-db
      - infores:automat-cam-kp
      - infores:automat-cebs
      - infores:automat-ctd
      - infores:automat-drug-central
      - infores:automat-ehr-may-treat-kp
      - infores:automat-genome-alliance
      - infores:automat-gtex
      - infores:automat-gtopdb
      - infores:automat-gwas-catalog
      - infores:automat-hetionet
      - infores:automat-hgnc
      - infores:automat-hmdb
      - infores:automat-human-goa
      - infores:automat-icees-kg
      - infores:automat-intact
      - infores:automat-monarchinitiative
      - infores:automat-panther
      - infores:automat-pharos
      - infores:automat-reactome
      - infores:automat-robokop
      - infores:automat-string-db
      - infores:automat-ubergraph
      - infores:automat-viral-proteome
      - infores:biothings-multiomics-biggim-drugresponse
      - infores:catrax-pharmacogenomics
      - infores:cohd
      - infores:connections-hypothesis
      - infores:gelinea
      - infores:genetics-data-provider
      - infores:knowledge-collaboratory
      - infores:molepro
      - infores:multiomics-clinicaltrials
      - infores:multiomics-drugapprovals
      - infores:multiomics-microbiome
      - infores:multiomics-multiomics
      - infores:openpredict
      - infores:rtx-kg2
      - infores:service-provider-trapi
      - infores:spoke
      - infores:text-mining-provider-cooccurrence
    consumed_by:
      - infores:ars
  - status: deprecated
    name: ARAGORN Ranker
    id: infores:aragorn-ranker
    xref:
      - https://github.com/ranking-agent/aragorn-ranker
    synonym:
      - ARAGORN
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ARAX Translator Reasoner
    id: infores:arax
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Expander-Agent
    synonym:
      - ARAX
    description: >-
      TRAPI 1.1 endpoint for the NCATS Biomedical Translator Reasoner called ARAX
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:answer-coalesce
      - infores:automat-binding-db
      - infores:automat-cam-kp
      - infores:automat-cohd
      - infores:automat-ctd
      - infores:automat-drug-central
      - infores:automat-ehr-clinical-connections-kp
      - infores:automat-ehr-may-treat-kp
      - infores:automat-genome-alliance
      - infores:automat-gtex
      - infores:automat-gtopdb
      - infores:automat-gwas-catalog
      - infores:automat-hetionet
      - infores:automat-hgnc
      - infores:automat-hmdb
      - infores:automat-human-goa
      - infores:automat-icees-kg
      - infores:automat-intact
      - infores:automat-monarchinitiative
      - infores:automat-panther
      - infores:automat-pharos
      - infores:automat-reactome
      - infores:automat-robokop
      - infores:automat-string-db
      - infores:automat-ubergraph
      - infores:automat-viral-proteome
      - infores:biothings-multiomics-biggim-drugresponse
      - infores:catrax-pharmacogenomics
      - infores:cohd
      - infores:connections-hypothesis
      - infores:gelinea
      - infores:genetics-data-provider
      - infores:knowledge-collaboratory
      - infores:molepro
      - infores:multiomics-clinicaltrials
      - infores:multiomics-drugapprovals
      - infores:multiomics-microbiome
      - infores:multiomics-multiomics
      - infores:openpredict
      - infores:retriever
      - infores:rtx-kg2
      - infores:service-provider-trapi
      - infores:spoke
      - infores:text-mining-provider-cooccurrence
    consumed_by:
      - infores:ars
  - status: released
    name: Autonomous Relay System
    id: infores:ars
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Autonomous-Relay-System-(ARS)
    knowledge_level: not_provided
    agent_type: not_provided
    consumes:
      - infores:aragorn
      - infores:arax
      - infores:biothings-explorer
      - infores:improving-agent
      - infores:unsecret-agent
  - status: released
    name: Anatomical Therapeutic Chemical (ATC) Codes (from UMLS)
    id: infores:atc-codes-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ATC/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Autophagy Ontology
    id: infores:atgo
    xref:
      - https://pubmed.ncbi.nlm.nih.gov/28132844/
    synonym:
      - ATGO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Athena
    id: infores:athena
    xref:
      - https://athena.ohdsi.org/search-terms/start
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat BindingDB
    id: infores:automat-binding-db
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Automat CAM-KP
    id: infores:automat-cam-kp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      TRAPI interface to database of Causal Activity Models
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat CEBS
    id: infores:automat-cebs
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      CEBS is a public, web-accessible, manually curated and accessioned repository of individual
      study data and  summarized study data from the National Toxicology Program (NTP) testing
      program and other toxicology programs  and research teams, including studies on carcinogenicity,
      short-term toxicity, and genetic toxicity.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: deprecated
    name: Automat Chemical normalization (trapi v-1.1.0)
    id: infores:automat-chem-norm
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    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: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Automat Chembio
    id: infores:automat-chembio
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on [chem2bio2rdf (http://cheminfov.informatics.indiana.edu:8080/c2b2r/)](http://cheminfov.informatics.indiana.edu:8080/c2b2r/).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Columbia Open Health Data (COHD)
    id: infores:automat-cohd
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    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)
    knowledge_level: statistical_association
    agent_type: not_provided
    consumes:
      - infores:automat-ubergraph
      - infores:columbia-cdw-ehr-data
      - infores:omop-ohdsi
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:openpredict
      - infores:service-provider-trapi
  - status: deprecated
    name: Automat Cord19
    id: infores:automat-cord19
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A literature co-occurence graph based on parsing the CORD-19 paper set.
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: Automat Cord19 Scibite (trapi v-1.1.0)
    id: infores:automat-cord19-scibite
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    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.
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: Automat Cord19 Scigraph (trapi v-1.1.0)
    id: infores:automat-cord19-scigraph
    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: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: Automat Covid Phenotypes (trapi v-1.1.0)
    id: infores:automat-covid-phenotypes
    description: >-
      A hand-knowledge_assertion graph of phenotypes of covid-19.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Automat Covidkop KG (trapi v-1.1.0)
    id: infores:automat-covidkop
    description: >-
      Knowledge graph constructed from Robokop KG by incorporating Cord-19
      dataset and other covid related knowledge sources.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat CTD
    id: infores:automat-ctd
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on the [Comparative Toxicogenomics Database (ctdbase.org)](ctdbase.org).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat DrugCentral
    id: infores:automat-drug-central
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on DrugCentral
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat Multiomics EHRMLA Clinical Connections API
    id: infores:automat-ehr-clinical-connections-kp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph consisting of clinical connections associations from Multiomics Electronic-Health-Record
      (EHR) Machine Learning Analysis (MLA)
      using the Providence health records
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:arax
  - status: released
    name: Automat Multiomics EHRMLA May Treat API
    id: infores:automat-ehr-may-treat-kp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph consisting of May Treat associations from Multiomics Electronic-Health-Record
      (EHR) Machine Learning Analysis (MLA)
      using the Providence health records
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:providence-st-joseph-ehr
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Automat Foodb
    id: infores:automat-foodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph of the food/chemical relationships in [foodb.ca](foodb.ca).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Alliance of Genome Resources
    id: infores:automat-genome-alliance
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Automat GTEx
    id: infores:automat-gtex
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat GtoPdb
    id: infores:automat-gtopdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on the [IUPHAR Guide to Pharmacology (https://www.guidetopharmacology.org/)](https://www.guidetopharmacology.org/)
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat GWAS Catalog
    id: infores:automat-gwas-catalog
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on the GWAS Catalog
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: deprecated
    name: Automat Hetio
    id: infores:automat-hetio
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on [hetionet (het.io)](het.io).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Hetionet
    id: infores:automat-hetionet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on [hetionet (het.io)](het.io).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat HGNC
    id: infores:automat-hgnc
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      Gene families from [HGNC (genenames.org)](genenames.org).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat HMDB
    id: infores:automat-hmdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on the [Human Metabolome DataBase (hmdb.org)](hmdb.org).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat Human GOA
    id: infores:automat-human-goa
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      Human Gene Ontology Annotations from the GO consortium.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat ICEES KG
    id: infores:automat-icees-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat IntAct
    id: infores:automat-intact
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      Molecular (Gene-Gene) interactions from EBI IntAct (https://www.ebi.ac.uk/intact/)](https://www.ebi.ac.uk/intact/).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: deprecated
    name: Automat KEGG
    id: infores:automat-kegg
    description: >-
      A graph based on the [Kyoto Encyclopedia of Genes and Genomes (https://www.genome.jp/kegg/)](https://www.genome.jp/kegg/).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Monarch Initiative
    id: infores:automat-monarchinitiative
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      The Monarch Knowledge Graph is a reference implementation of the Biolink model specification.  It
      contains data from the Monarch Initiative aggregated database as well as several OBO
      ontologies.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: deprecated
    name: Automat MyChem (trapi v-1.1.0)
    id: infores:automat-mychem-info
    description: >-
      A graph integrating DrugBank, DrugCentral, and Aeolus data as provided
      by [mychem.info](mychem.info).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Automat Ontological Hierarchy (trapi v-1.1.0)
    id: infores:automat-ontology-hierarchy
    description: >-
      A graph for ontological hierarchy extracted from Uberongraph.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Openhealth Data at Carolina
    id: infores:automat-openhealthdata-carolina
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on infores:openhealthdata-carolina, providing access to counts
      and frequencies of conditions, procedures, drug exposures, and patient demographics,
      and the co-occurrence frequencies between them.
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
  - status: released
    name: Automat PANTHER
    id: infores:automat-panther
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph of gene families and pathways from [Panther (pantherdb.org)](pantherdb.org)
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat Pharos
    id: infores:automat-pharos
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on [Pharos (pharos.nih.gov)](pharos.nih.gov).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat Reactome
    id: infores:automat-reactome
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: deprecated
    name: Automat RENCI SRI Reference KG
    id: infores:automat-renci-sri-reference-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph based on the [Monarch API (https://api.monarchinitiative.org/)](https://api.monarchinitiative.org/).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat ROBOKOP
    id: infores:automat-robokop
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Automat ROBOKOP KG
    id: infores:automat-robokop-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      Biomedical Knowledge graph build by constructing relationships from federated data
      sets.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Automat SRI Reference Knowledge Graph
    id: infores:automat-sri-reference-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Reference-Knowledge-Graph
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat STRING
    id: infores:automat-string-db
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      The Search Tool for the Retrieval of INteracting Genes/proteins (STRING)
      database provides information on known and prediction 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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: deprecated
    name: Automat Textmining KP
    id: infores:automat-text-mining-provider
    description: >-
      A literature co-occurrence graph created by the Translator Text Mining KP.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Ubergraph
    id: infores:automat-ubergraph
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph representation of Ubergraph, an integration of ontologies
      including GO, CHEBI, Uberon, and HPO.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:cohd
  - status: deprecated
    name: Automat Ubergraph Nonredundant
    id: infores:automat-ubergraph-nonredundant
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Automat Viral Proteome
    id: infores:automat-viral-proteome
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    description: >-
      A graph consisting of viral proteins from UniProt, connected by similarity
      edges from UniRef.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Berkeley CMM Experimental Data
    id: infores:ber-cmm-data
    xref:
      - https://github.com/berkeleybop/cmm-ai-automation
    description: >-
      Experimental growth data from the Berkeley Critical Mineral Metabolism (CMM) project,
      containing strain-medium growth relationships curated by laboratory researchers.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Basic Formal Ontology
    id: infores:bfo
    xref:
      - fairsharing:FAIRsharing.wcpd6f
      - http://www.obofoundry.org/ontology/bfo.html
    synonym:
      - BFO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Bgee
    id: infores:bgee
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Bgee
    synonym:
      - BGEE
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: BHF-UCL Cardiovascular Gene Ontology Initiative
    id: infores:bhf-ucl
    xref:
      - https://www.ucl.ac.uk/cardiovascular/
    description: >-
      Curated dataset of cardiovascular-related protein interactions and gene ontology annotations
      from the
      British Heart Foundation and University College London. (PSI-MI: MI:1332)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: deprecated
    name: Big Cell Line Association Miner
    id: infores:bigclam
    xref:
      - https://github.com/PriceLab/translator-bigquery-api
    synonym:
      - BigClam
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: BiGG Models
    id: infores:bigg-models
    xref:
      - fairsharing:FAIRsharing.va62ke
      - https://github.com/NCATSTranslator/Translator-All/wiki/BiGG-Models
    synonym:
      - BIGG
    description: >-
      a knowledgebase of genome-scale metabolic network reconstructions
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: deprecated
    name: Big Gene Interaction Miner
    id: infores:biggim
    xref:
      - https://github.com/PriceLab/translator-bigquery-api/
    synonym:
      - BigGIM
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: BindingDB
    id: infores:bindingdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/bindingdb
    synonym:
      - The Binding Database
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-bindingdb
      - infores:molepro
  - status: released
    name: Bio2RDF
    id: infores:bio2rdf
    xref:
      - fairsharing:FAIRsharing.6gz84c
      - https://bio2rdf.org
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: BioCatalogue
    id: infores:biocatalogue
    xref:
      - fairsharing:FAIRsharing.9vT2Wg
    knowledge_level: other
    agent_type: not_provided
  - status: released
    name: 'The Biological General Repository for Interaction Datasets '
    id: infores:biogrid
    xref:
      - https://thebiogrid.org/
    synonym:
      - BioGrid
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
  - status: released
    name: BioLink API
    id: infores:biolink-api
    xref:
      - http://api-v3.monarchinitiative.org/
    description: >-
      API integration layer for linked biological objects.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Biolink Model Lookup
    id: infores:biolink-model-lookup
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Biolink-Lookup-Service
    description: >-
      Biolink Model Lookup service.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Biolink ontology
    id: infores:biolink-ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioLink-OWL
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: BioPlanet
    id: infores:bioplanet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/bioplanet
    description: >-
      https://tripod.nih.gov/bioplanet/#
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-bioplanet-pathway-disease
      - infores:biothings-bioplanet-pathway-gene
  - status: released
    name: National Center for Biomedical Ontology BioPortal
    id: infores:bioportal
    xref:
      - http://bioportal.bioontology.org/
    synonym:
      - bioportal
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: BioThings AGR API
    id: infores:biothings-agr
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for
      [AGR](https://www.alliancegenome.org/downloads) disease associations data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:agrkb
    consumed_by:
      - infores:service-provider-trapi
  - status: deprecated
    name: Big GIM 1 API
    id: infores:biothings-biggim-1
    description: >-
      Documentation of the Big GIM 1 KP query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: BioThings BindingDB API
    id: infores:biothings-bindingdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings [BindingDB](https://www.bindingdb.org/rwd/bind/index.jsp)
      query web services.
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:bindingdb
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings BioPlanet Pathway-Disease API
    id: infores:biothings-bioplanet-pathway-disease
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings [BioPlanet](https://tripod.nih.gov/bioplanet/#)
      pathway-disease association query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:bioplanet
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings BioPlanet Pathway-Gene API
    id: infores:biothings-bioplanet-pathway-gene
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings [BioPlanet](https://tripod.nih.gov/bioplanet/#)
      pathway-gene association query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:bioplanet
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings DDInter API
    id: infores:biothings-ddinter
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [DDInter](http://ddinter.scbdd.com/) data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:ddinter
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings DGIdb API
    id: infores:biothings-dgidb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings DGIdb query web services.
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:dgidb
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings DISEASES API
    id: infores:biothings-diseases
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the DISEASES query web services.
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:diseases
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings EBIgene2phenotype API
    id: infores:biothings-ebi-gene2phenotype
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the EBIgene2phenotype query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:ebi-gene2phenotype
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Explorer
    id: infores:biothings-explorer
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-Explorer-(BTE)
    synonym:
      - BTE
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:service-provider-trapi
    consumed_by:
      - infores:ars
  - status: released
    name: BioThings FooDB API
    id: infores:biothings-foodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [FooDB](https://foodb.ca/) data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:fooddb
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings FoodData Central API
    id: infores:biothings-fooddata-central
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for  [FoodData Central](https://fdc.nal.usda.gov/index.html)
      data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:fooddata-central
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Gene Ontology Biological Process API
    id: infores:biothings-go-bp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the Gene Ontology Biological Process query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:go
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Gene Ontology Cellular Component API
    id: infores:biothings-go-cc
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the Gene Ontology Cellular Component query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:go
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Gene Ontology Molecular Activity API
    id: infores:biothings-go-mf
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the Gene Ontology Molecular Activity query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:go
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings GTRx API
    id: infores:biothings-gtrx
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [Genome-to-Treatment (GTRx™)](https://gtrx.rbsapp.net/about.html).  This
      API includes the content from the linked website, specifically the recommended acute
      treatments
      and  interventions for seriously ill newborns, infants and children with newly diagnosed
      genetic diseases.  These may include therapeutics, dietary changes, surgery, medical
      devices
      or other interventions.  For more info, see the paper (open-access): https://www.nature.com/articles/s41467-022-31446-6.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:gtrx
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings HMDB API
    id: infores:biothings-hmdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [HMDB](https://hmdb.ca/) data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: BioThings Human Phenotype Ontology API
    id: infores:biothings-hpo
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the HPO query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:hpo
      - infores:hpo-annotations
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings iDISK API
    id: infores:biothings-idisk
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:idisk
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings InnateDB API
    id: infores:biothings-innatedb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [InnateDB](https://www.innatedb.com/) data.
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:innatedb
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Mabs
    id: infores:biothings-mabs
    xref:
      - https://biothings.ncats.io/mabs
    knowledge_level: not_provided
    agent_type: not_provided
    consumes:
      - infores:sepid_mab
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings MGIgene2phenotype API
    id: infores:biothings-mgi-g2p
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the MGIgene2phenotype query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:mgi
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Multiomics BigGIM-DrugResponse KP API
    id: infores:biothings-multiomics-biggim-drugresponse
    xref:
      - https://github.com/NCATS-Tangerine/BigGIM_APIWrapper
      - https://github.com/NCATSTranslator/Translator-All/wiki/Big-GIM-II:-Drug-Response-KP
    description: >-
      Documentation of the Drug Response KP query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:biogrid
      - infores:huri
      - infores:gtex
      - infores:ttd
      - infores:tcga
      - infores:gdsc
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: deprecated
    name: Multiomics ClinicalTrials KP API
    id: infores:biothings-multiomics-clinicaltrials
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Clinical-Trials-KP
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: modified
    name: Multiomics EHR Risk KP API
    id: infores:biothings-multiomics-ehr-risk
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/EHR-Risk-KP
    description: >-
      Documentation of the Multiomics Electronic-Health-Record (EHR) Risk
      KP query web services.
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Multiomics Wellness KP API
    id: infores:biothings-multiomics-wellness
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Wellness-KP
    description: >-
      Documentation of the Multiomics Wellness KP query web services.
    knowledge_level: statistical_association
    agent_type: data_analysis_pipeline
    consumes:
      - infores:isb-wellness
    consumed_by:
      - infores:service-provider-trapi
  - status: modified
    name: BioThings PFOCR API
    id: infores:biothings-pfocr
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the pfocr query web services.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:pfocr
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings RARe-SOURCE API
    id: infores:biothings-rare-source
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [NCATS RARe-SOURCE](https://raresource.nih.gov/)
      data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:rare-source
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings repoDB API
    id: infores:biothings-repodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [repoDB](https://unmtid-shinyapps.net/shiny/repodb/)
      data.  and download
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:repodb
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings Rhea API
    id: infores:biothings-rhea
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings Rhea query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:rhea
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings SEMMEDDB API
    id: infores:biothings-semmeddb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings SEMMEDDB query web services.
    knowledge_level: not_provided
    agent_type: text_mining_agent
    consumes:
      - infores:semmeddb
    consumed_by:
      - infores:service-provider-trapi
  - status: deprecated
    name: SEMMED Anatomy API
    id: infores:biothings-semmeddb-anatomy
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Anatomy
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: SEMMED Biological Process API
    id: infores:biothings-semmeddb-biological-process
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Biological-Process
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: SEMMED Chemical API
    id: infores:biothings-semmeddb-chemical
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Chemical
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [mydisease.info](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: SEMMED Disease API
    id: infores:biothings-semmeddb-disease
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Disease
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more
      about [semmed disease](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: SEMMED Gene API
    id: infores:biothings-semmeddb-gene
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-SEMMED-DB-Gene
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more about [mydisease.info](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: SEMMED Phenotype API
    id: infores:biothings-semmeddb-phenotype
    xref:
      - https://github.com/biothings
    description: >-
      Documentation of the SEMMED disease query web services.  Learn more about [mydisease.info](http://pending.biothings.io/semmed)
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: released
    name: BioThings SuppKG API
    id: infores:biothings-suppkg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for
      [SuppKG](https://github.com/zhang-informatics/SemRep_DS/tree/main/SuppKG) data. SuppKG
      contains relations
      between dietary supplements and other entities, such as diseases. More information
      can
      be found in [this  paper](https://doi.org/10.1016/j.jbi.2022.104120).
    knowledge_level: not_provided
    agent_type: text_mining_agent
    consumes:
      - infores:suppkg
    consumed_by:
      - infores:service-provider-trapi
  - status: deprecated
    name: Multiomics TCGA Mutation Frequency KP API
    id: infores:biothings-tcga-mut-freq
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Big-GIM-II:-Tumor-gene-mutation-KP
    description: >-
      Documentation of the TCGA Mutation Frequency KP query web services.
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: BioThings TISSUES API
    id: infores:biothings-tissues
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [TISSUES](https://tissues.jensenlab.org/About)
      data.
    knowledge_level: mixed
    agent_type: not_provided
  - status: released
    name: Biothings Therapeutic Target Database API
    id: infores:biothings-ttd
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the BioThings API for [TherapeuticTargetDatabase](https://db.idrblab.net/ttd/).
      This KP contains drug-disease, target-disease, drug-protein target, and biomarker-disease
      associations.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:ttd
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: BioThings UBERON Ontology API
    id: infores:biothings-uberon-ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/BioThings-APIs
    description: >-
      Documentation of the UBERON query web services.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:uberon
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Biological Spatial Ontology
    id: infores:bspo
    xref:
      - fairsharing:FAIRsharing.newa3z
      - https://obofoundry.org/ontology/bspo.html
    synonym:
      - BSPO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Community Assessment of Community Annotation with Ontologies
    id: infores:cacao
    xref:
      - http://gowiki.tamu.edu/wiki/index.php/Category:CACAO
    synonym:
      - CACAO
    description: >-
      A collaborative annotation project where undergraduate students use the Gene Ontology
      to annotate proteins based on evidence from scientific papers.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: CAM-KP API
    id: infores:cam-kp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/CAM-Provider-KG
    synonym:
      - Causal Activity Model KP
    description: >-
      TRAPI interface to database of Causal Activity Models
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Clinical Asset Mapping Program for FHIR
    id: infores:campfhir
    xref:
      - https://researchsoftwareinstitute.github.io/data-translator/apps/camp-fhir
    synonym:
      - CAMP FHIR
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: CancerCommons
    id: infores:cancercommons
    xref:
      - https://cancercommons.org/
    description: >-
      Nonprofit resource connecting patients, oncologists, and scientists with up-to-date
      treatment information and molecular data.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Multiomics Pharmacogenomics KP API
    id: infores:catrax-pharmacogenomics
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Pharmacogenomics-KP
    description: >-
      Documentation of the Pharmacogenomics KP query web services.
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
    consumes:
      - infores:drugbank
      - infores:ncbi-gene
      - infores:hpo
      - infores:hpo-annotations
      - infores:sider
      - infores:mondo
      - infores:drugcentral
      - infores:pharmgkb
      - infores:primekg
      - infores:cellmarker
      - infores:signor
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: CEBS
    id: infores:cebs
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/CEBS
    synonym:
      - Chemical Effects in Biological Systems
    description: >-
      CEBS is a public, web-accessible, manually curated and accessioned repository of individual
      study data  and summarized study data from the National Toxicology Program (NTP) testing
      program and other toxicology  programs and research teams, including studies on carcinogenicity,
      short-term toxicity, and genetic toxicity.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: CellMarker 2.0
    id: infores:cellmarker
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/CellMarker
    synonym:
      - CellMarker
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
  - status: released
    name: Cancer Genome Interpreter (CGI)
    id: infores:cgi
    xref:
      - https://www.cancergenomeinterpreter.org/home
    description: >-
      Resource that interprets the biological and clinical relevance of tumor genomic alterations
      to support precision oncology.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Chemical Entity of Biological Interest
    id: infores:chebi
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ChEBI
    synonym:
      - ChEBI
    description: >-
      a freely available dictionary of molecular entities focused on ‘small’ chemical compounds
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:molepro
      - infores:mychem-info
      - infores:rtx-kg2
  - status: deprecated
    name: Chem2bio2RDF
    id: infores:chem2bio2rdf
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Chem2bio2RDF
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: ChemBank
    id: infores:chembank
    description: >-
      Initiative for Chemical Genetics contract from the National Cancer Institute
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: deprecated
    name: ChemBio
    id: infores:chembio
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ChEMBL
    id: infores:chembl
    xref:
      - fairsharing:FAIRsharing.m3jtpg
      - https://github.com/NCATSTranslator/Translator-All/wiki/ChEMBL
    synonym:
      - Chembl
    description: >-
      a manually knowledge_assertion database of bioactive molecules with drug-like properties.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:molepro
      - infores:mychem-info
      - infores:rtx-kg2
  - status: deprecated
    name: Chemotext
    id: infores:chemotext
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Chemotext
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Consumer Health Vocabulary (from UMLS)
    id: infores:chv-umls
    xref:
      - http://consumerhealthvocab.org/
      - http://consumerhealthvocab.org/docs/README.pdf
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/
    description: >-
      CHV connects informal, common words and phrases about health to technical terms
      used by health care professionals. It includes jargon, slang, ambiguous, and misspelled
      words as used by consumers and health care professionals. OAC CHV is designed to complement
      the existing framework of the UMLS and to aid the needs of consumer health applications,
      enabling these applications to translate technical terms to consumer friendly language.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Clinical Interpretation of Variants in Cancer
    id: infores:civic
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/civic
    synonym:
      - CIViC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:myvariant-info
  - status: released
    name: Cancer KnowledgeBase CORE – Genomenon (CKB-CORE)
    id: infores:ckb-core
    xref:
      - https://ckb.genomenon.com/
    description: >-
      Commercially curated database of actionable cancer variants and targeted therapies.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Cell Ontology
    id: infores:cl
    xref:
      - fairsharing:FAIRsharing.j9y503
      - https://github.com/NCATSTranslator/Translator-All/wiki/CL
    synonym:
      - CL
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Clearity Foundation Biomarkers
    id: infores:clearity-biomarkers
    xref:
      - https://ocrahope.org/clearity-has-joined-ocra/
    description: >-
      Dataset of biomarkers and treatment options for ovarian cancer compiled by the Clearity
      Foundation.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Clearity Foundation Clinical Trial
    id: infores:clearity-clinical-trial
    xref:
      - https://ocrahope.org/clearity-has-joined-ocra/
    description: >-
      Clinical trial information for ovarian cancer from the Clearity Foundation initiative.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Clinical Genome Resource (ClinGen)
    id: infores:clingen
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/clingen
    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
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:genetics-data-provider
      - infores:mygene-info
  - status: deprecated
    name: Clinical Profiles
    id: infores:clinical-profiles
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ClinicalTrials.gov
    id: infores:clinicaltrials
    xref:
      - fairsharing:FAIRsharing.mewhad
      - https://clinicaltrials.gov
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ClinVar
    id: infores:clinvar
    xref:
      - fairsharing:FAIRsharing.wx5r6f
      - https://github.com/NCATSTranslator/Translator-All/wiki/clinvar
    description: >-
      ClinVar is a freely accessible, public archive of reports of the
      relationships among human variations and phenotypes, with supporting evidence.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:genetics-data-provider
      - infores:myvariant-info
  - status: released
    name: Connectivity Map
    id: infores:cmap
    xref:
      - http://clue.io/cmap
    synonym:
      - CMAP
    description: >-
      genome-scale library of cellular signatures that catalogs transcriptional
      responses to chemical, genetic, and disease perturbation"'
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: CMM AI Automation Pipeline
    id: infores:cmm-ai-automation
    xref:
      - https://github.com/berkeleybop/cmm-ai-automation
    description: >-
      AI-assisted automation pipeline for Critical Mineral Metabolism (CMM) data curation.
      Aggregates and reconciles data from multiple sources (BacDive, MediaDive, TogoMedium,
      NCBI)
      to generate knowledge graph edges.
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
  - status: released
    name: Columbia Open Health Data (COHD)
    id: infores:cohd
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    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)
    knowledge_level: statistical_association
    agent_type: not_provided
    consumes:
      - infores:automat-ubergraph
      - infores:columbia-cdw-ehr-data
      - infores:omop-ohdsi
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:openpredict
      - infores:service-provider-trapi
  - status: released
    name: Columbia Open Health Data (COHD) for COVID-19 Research
    id: infores:cohd-covid
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    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)
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: deprecated
    name: Columbia Open Health Data for COVID-19 Research API
    id: infores:cohd-covid19-api
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/COHD-KP
    synonym:
      - COHD COVID-19
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Columbia Clinical Data Warehouse for Health Patient EHR Data
    id: infores:columbia-cdw-ehr-data
    xref:
      - https://www.irvinginstitute.columbia.edu/services/clinical-data-warehouse-cdw-navigator-support
    description: >-
      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: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:cohd
  - status: released
    name: Community Structure-Activity Resource
    id: infores:community-sar
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Community-Structure-Activity-Resource
    synonym:
      - CSAR
    description: >-
      CSAR disseminated experimental datasets of crystal structures and binding
      affinities for diverse protein-ligand complexes
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Complex Portal
    id: infores:complex-portal
    xref:
      - fairsharing:FAIRsharing.wP3t2L
      - https://github.com/NCATSTranslator/Translator-All/wiki/Complex-Portal
    description: >-
      The Complex Portal is a manually curated, encyclopaedic resource of macromolecular
      complexes  from
      a number of key model organisms. The majority of complexes are made up of proteins
      but  may
      also include nucleic acids or small molecules. All data is freely available for search  and
      download
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: EMBL-EBI Complex Portal
    id: infores:complexportal
    xref:
      - https://www.ebi.ac.uk/complexportal
    description: >-
      Manually curated definitions of stable macromolecular complexes with composition,
      function, and cross-references; integrated with IntAct. (PSI-MI: MI:0954)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Connections Hypothesis Provider API
    id: infores:connections-hypothesis
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Connections-Hypothesis-Provider
    description: >-
      A Translator Reasoner API for the Connections Hypothesis Provider
    knowledge_level: prediction
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: deprecated
    name: COVID-19 Open Research Dataset
    id: infores:cord19
    xref:
      - https://github.com/allenai/cord19
    synonym:
      - CORD19
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: COVID-19 Open Research Dataset Scibite
    id: infores:cord19-scibite
    synonym:
      - CORD19-Scibite
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Catalog of Somatic Mutations in Cancer
    id: infores:cosmic
    xref:
      - https://cancer.sanger.ac.uk/cosmic
    synonym:
      - COSMIC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Covid Phenotypes
    id: infores:covid-phenotypes
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ConsensusPathDB
    id: infores:cpdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/cpdb
    synonym:
      - CPDB
    knowledge_level: mixed
    agent_type: not_provided
    consumed_by:
      - infores:mygene-info
  - status: deprecated
    name: Current Procedural Terminology (CPT) Codes (from UMLS)
    id: infores:cpt-codes-umls
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Translator knowledge_assertion Query Service
    id: infores:cqs
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Translator-Curated-Query-Service
    synonym:
      - CQS
    description: >-
      The Translator Curated Query Service (CQS) is an SRI service that provides ARA-like
      capabilities.
      The service generates ‘predicted’ edges in response to inferred queries, based on
      customizable
      inference rules that are captured as CQS templates. The CQS links predictions to their
      supporting aux graphs and attaches provenance metadata, and then scores the results.
    knowledge_level: prediction
    agent_type: computational_model
    consumes:
      - infores:automat-icees-kg
      - infores:automat-cohd
      - infores:automat-isb-EHRMLA-data
      - infores:connections-hypothesis
      - infores:multiomics-ctkp
      - infores:text-mining-provider-targeted
      - infores:service-provider-tmkp-targeted
      - infores:openpredict
      - infores:service-provider-aeolus
      - infores:spoke-chembl
      - infores:molepro-chembl
      - infores:rtxkg2-semmed
      - infores:service-provider-semmed
      - infores:service-provider-chembl
      - infores:cam-kp
    consumed_by:
      - infores:ars
  - status: released
    name: Comparative Toxicogenomics Database
    id: infores:ctd
    xref:
      - fairsharing:FAIRsharing.h3tjtr
      - https://github.com/NCATSTranslator/Translator-All/wiki/CTD
    synonym:
      - CTDbase
    description: >-
      A robust, publicly available database that aims to advance understanding
      about how environmental exposures affect human health.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
      - infores:mydisease-info
      - infores:service-provider-trapi
  - status: released
    name: Cancer Therapeutics Response Portal
    id: infores:ctrp
    xref:
      - https://portals.broadinstitute.org/ctrp.v2.1/
    synonym:
      - CTRP
    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.
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: DailyMed
    id: infores:dailymed
    xref:
      - https://dailymed.nlm.nih.gov/dailymed/
    description: >-
      The DailyMed database contains labeling, submitted by companies to the Food and Drug
      Administration
      (FDA).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:multiomics-drugapprovals
      - infores:multiomics-clinicaltrials
  - status: released
    name: Drugs to target pAthways by the Tissue Expression
    id: infores:date
    xref:
      - https://tatonettilab-resources.s3.amazonaws.com/syspharm/DATE.zip
    synonym:
      - DATE
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Single Nucleotide Polymorphism Database
    id: infores:dbsnp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/dbsnp
    synonym:
      - dbSNP
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:litvar
      - infores:myvariant-info
  - status: released
    name: Dictyostelium discoideum anatomy
    id: infores:dda
    xref:
      - http://www.obofoundry.org/ontology/ddanat.html
    synonym:
      - DDA
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: DDinter
    id: infores:ddinter
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ddinter
    description: >-
      DDInter is an open-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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-ddinter
  - status: released
    name: Dictyostelium discoideum phenotype ontology
    id: infores:ddpheno
    xref:
      - https://obofoundry.org/ontology/ddpheno.html
    synonym:
      - ddpheno
    description: >-
      A structured controlled vocabulary of phenotypes of the slime-mould Dictyostelium
      discoideum.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: delta QT Database
    id: infores:delta-qt-db
    xref:
      - http://deltaqt.org
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Cancer Dependency Map
    id: infores:depmap
    xref:
      - https://depmap.org/portal/
    synonym:
      - DepMap
    description: >-
      Cancer Dependency Map to systematically identify genetic and pharmacologic
      dependencies and the biomarkers that predict them.
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Drug Gene Interaction Database
    id: infores:dgidb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/dgidb
    synonym:
      - DGIdb
    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.
    knowledge_level: prediction
    agent_type: automated_agent
    consumed_by:
      - infores:biothings-dgidb
      - infores:molepro
      - infores:rtx-kg2
  - status: released
    name: dictyBase
    id: infores:dictybase
    xref:
      - fairsharing:FAIRsharing.4shj9c
      - http://dictybase.org
    description: >-
      The central resource for Dictyostelid genomics, providing model organism database
      services for the research community.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Drug-Induced Liver Injury Network (DILIN) Participant Data
    id: infores:dili-network-study-data
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: Database of Interacting Proteins (DIP)
    id: infores:dip
    xref:
      - https://dip.doe-mbi.ucla.edu/
    description: >-
      One of the earliest curated repositories of experimentally observed protein–protein
      interactions. (PSI-MI: MI:0465)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Disease Ontology
    id: infores:disease-ontology
    xref:
      - fairsharing:FAIRsharing.8b6wfq
      - https://github.com/NCATSTranslator/Translator-All/wiki/disease-ontology
    synonym:
      - DO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:ols
      - infores:rtx-kg2
  - status: released
    name: DISEASES
    id: infores:diseases
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Diseases
    description: >-
      DISEASES is a weekly updated web resource that integrates evidence on disease-gene
      associations  from
      automatic text mining, manually curated literature, cancer mutation data, and  genome-wide
      association studies. We further unify the evidence by assigning confidence  scores
      that
      facilitate comparison of the different types and sources of evidence.
    knowledge_level: prediction
    agent_type: text_mining_agent
    consumed_by:
      - infores:biothings-diseases
      - infores:rtx-kg2
  - status: released
    name: DisGeNET
    id: infores:disgenet
    xref:
      - fairsharing:FAIRsharing.fssydn
      - https://github.com/NCATSTranslator/Translator-All/wiki/DisGeNET
    knowledge_level: prediction
    agent_type: automated_agent
    consumed_by:
      - infores:mydisease-info
      - infores:rtx-kg2
  - status: released
    name: DisProt
    id: infores:disprot
    xref:
      - fairsharing:FAIRsharing.dt9z89
      - https://www.disprot.org
    description: >-
      A database of intrinsically disordered proteins that provides manually curated
      annotations for regions of disorder in proteins.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Diseases & Traits in LD database
    id: infores:distild
    synonym:
      - DistiLD database
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Disease Ontology Annotation Framework (DOAF)
    id: infores:doaf
    xref:
      - https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0049686
    synonym:
      - DOAF
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Database of Cancer Mutations
    id: infores:docm
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/docm
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Dogpark Tier 0
    id: infores:dogpark-tier0
    xref:
      - https://github.com/NCATSTranslator/DogPark-Ranger
    description: >-
      Centralized graph-based knowledge hosting
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:rtx-kg2
    consumed_by:
      - infores:retriever
  - status: released
    name: Dogpark Tier 1
    id: infores:dogpark-tier1
    xref:
      - https://github.com/NCATSTranslator/DogPark-Ranger
    description: >-
      Centralized index-based knowledge hosting
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:rtx-kg2
    consumed_by:
      - infores:retriever
  - status: released
    name: Drug Design Data Resource
    id: infores:drug-design
    xref:
      - https://drugdesigndata.org/
    synonym:
      - D3R
    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
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Drug Repurposing Hub
    id: infores:drug-repurposing-hub
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Drug-Repurposing-Hub
    description: >-
      knowledge_assertion and annotated collection of FDA-approved drugs, clinical
      trial drugs, and pre-clinical tool compounds with a companion information resource
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: DrugBank
    id: infores:drugbank
    xref:
      - fairsharing:FAIRsharing.353yat
      - https://github.com/NCATSTranslator/Translator-All/wiki/DrugBank
    synonym:
      - Drugbank
    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
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:molepro
      - infores:openpredict
      - infores:rtx-kg2
  - status: released
    name: DrugCentral
    id: infores:drugcentral
    xref:
      - fairsharing:FAIRsharing.3me82d
      - https://github.com/NCATSTranslator/Translator-All/wiki/DrugCentral
    synonym:
      - Drugcentral
    description: >-
      Online drug information resource created and maintained by Division
      of Translational Informatics at University of New Mexico in collaboration with
      the IDG.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:molepro
      - infores:mychem-info
      - infores:rtx-kg2
  - status: released
    name: DrugMatrix
    id: infores:drugmatrix
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/DrugMatrix
    description: >-
      DrugMatrix was a large-scale toxicogenomics database and analysis tool.
      The resource does not seem to be directly accessible now, but
      [DrugCentral](https://pmc.ncbi.nlm.nih.gov/articles/PMC10692006/#Sec10) reports that
      it uses this resource as a source of bioactivity data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: DrugMechDB
    id: infores:drugmechdb
    xref:
      - https://github.com/SuLab/DrugMechDB
    synonym:
      - drugmechdb
    description: >-
      A database of paths that represent the mechanism of action from a drug to a disease
      in
      an indication.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Distributed Structure-Searchable Toxicity (DSSTox) Database
    id: infores:dsstoxdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Drug Target Commons (DTC)
    id: infores:dtc
    xref:
      - http://www.drugtargetcommons.org/
    description: >-
      Community-driven bioactivity database for drug–target interactions supporting quantitative
      pharmacology.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: European Bioinformatics Institute
    id: infores:ebi
    xref:
      - https://www.ebi.ac.uk/
    synonym:
      - EBI
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: European Bioinformatics Institute Gene to Phenotype Resource
    id: infores:ebi-gene2phenotype
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ebi-gene2phenotype
    description: >-
      This entry has been deprecated. Please use infores:gene2phenotype instead.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-ebi-gene2phenotype
  - status: released
    name: EBI Proteins API
    id: infores:ebi-proteins
    xref:
      - https://www.ebi.ac.uk/proteins/api/doc/
    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."'
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:uniprot
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: QuickGO API
    id: infores:ebi-quick-go
    xref:
      - https://www.ebi.ac.uk/QuickGO/api/index.html
    synonym:
      - QuickGO
    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).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:go
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Evidence & Conclusion Ontology
    id: infores:eco
    xref:
      - https://obofoundry.org/ontology/eco.html
    synonym:
      - ECO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Environmental conditions, treatments and exposures ontology
    id: infores:ecto
    xref:
      - https://obofoundry.org/ontology/ecto.html
    synonym:
      - ECTO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Experimental Factor Ontology
    id: infores:efo
    xref:
      - fairsharing:FAIRsharing.1gr4tz
      - https://github.com/NCATSTranslator/Translator-All/wiki/EFO
    synonym:
      - EFO
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Human Developmental Anatomy Ontology
    id: infores:ehdaa2
    xref:
      - http://obofoundry.org/ontology/ehdaa2.html
    synonym:
      - EHDAA2
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Mouse Developmental Anatomy Ontology
    id: infores:emapa
    xref:
      - fairsharing:FAIRsharing.j0fa1d
      - https://obofoundry.org/ontology/emapa.html
    synonym:
      - EMAPA
    description: >-
      An ontology for mouse anatomy covering embryonic development and postnatal
      stages.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Embiology
    id: infores:embiology
    xref:
      - https://www.embiology.com
    description: >-
      EmBiology is a web-based knowledge graph developed by Elsevier that integrates biological
      relationships across  genes, proteins, diseases, pathways, and small molecules. It
      combines text-mined evidence from scientific  literature with curated database content
      to capture causal, regulatory, and associative connections among  biological entities.
      Updated weekly, EmBiology supports interactive exploration and visualization of biological  mechanisms,
      enabling target discovery, biomarker identification, and hypothesis generation in
      drug discovery and  translational research.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Ensembl gene
    id: infores:ensembl-gene
    xref:
      - https://www.ebi.ac.uk/training/online/courses/ensembl-browsing-genomes/exploring-sources-of-biological-data/ensembl-genes/
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Entrez
    id: infores:entrez
    xref:
      - https://www.ncbi.nlm.nih.gov/Web/Search/entrezfs.html
    synonym:
      - NCBIGene
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: EPSD
    id: infores:epsd
    xref:
      - https://epsd.biocuckoo.cn
    synonym:
      - Eukaryotic phosporylation site database
    knowledge_level: not_provided
    agent_type: not_provided
  - status: released
    name: 'eRAM: encyclopedia of rare disease annotations for precision medicine'
    id: infores:eram
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/eRAM
    synonym:
      - eRAM
    description: >-
      encyclopedia of rare disease annotations for precision medicine
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Evolutionary Rate Covariation (ERC) Analysis
    id: infores:erc-analysis
    synonym:
      - ERC Analysis
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: deprecated
    name: Explanatory Agent API
    id: infores:explanatory-agent
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Explanatory-Agent
    description: >-
      A Translator Reasoner API for the Explanatory Agent
    knowledge_level: prediction
    agent_type: not_provided
  - status: released
    name: FDA Adverse Event Reporting System
    id: infores:faers
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FAERS
    description: >-
      The FDA Adverse Event Reporting System (FAERS) is a database that contains information
      on adverse event and medication error reports submitted to FDA.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:multiomics-drugapprovals
  - status: released
    name: Drosophila gross anatomy
    id: infores:fbbt
    xref:
      - https://obofoundry.org/ontology/fbbt.html
    synonym:
      - FBbt
    description: >-
      An ontology representing the gross anatomy of Drosophila melanogaster.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: FlyBase Controlled Vocabulary
    id: infores:fbcv
    xref:
      - fairsharing:FAIRsharing.6tgyxf
      - https://obofoundry.org/ontology/fbcv.html
    synonym:
      - FBcv
    description: >-
      A structured controlled vocabulary used for various aspects of annotation by FlyBase.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Drosophila Developmental Ontology
    id: infores:fbdv
    xref:
      - fairsharing:FAIRsharing.p52pzj
      - https://obofoundry.org/ontology/fbdv.html
    synonym:
      - FBdv
    description: >-
      A structured controlled vocabulary of the development of Drosophila melanogaster.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: FDA Orphan Drug Project designation database
    id: infores:fda-orphan-drug-db
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FDA-Orphan-Drug
    description: >-
      Resource for searching FDA Orphan Drug Designations and Approvals
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:mychem-info
  - status: released
    name: FDA Pharmacogenomic Biomarkers in Drug Labeling
    id: infores:fda-pgx
    xref:
      - https://www.fda.gov/drugs/science-and-research-drugs/table-pharmacogenomic-biomarkers-drug-labeling
    description: >-
      FDA resource listing pharmacogenomic biomarkers included in drug labeling.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: FDA Pharmacogenomics Biomarker table
    id: infores:fda-pharmacogenomics-biomarker
    xref:
      - https://www.fda.gov/drugs/science-and-research-drugs/table-pharmacogenomic-biomarkers-drug-labeling
    description: >-
      Resource lists therapeutic products from Drugs@FDA with pharmacogenomic information
      found in the drug labeling.
      Biomarkers in the table include but are not limited to germline or somatic gene variants
      (polymorphisms, mutations), functional deficiencies with a genetic etiology, gene
      expression differences, and chromosomal abnormalities;  selected protein biomarkers
      that are used to select treatments for patients are also included.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: FHIR Patient data Integration Tool
    id: infores:fhir-pit
    xref:
      - https://researchsoftwareinstitute.github.io/data-translator/apps/fhir-pit
    synonym:
      - FHIR PIT
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: FlyBase
    id: infores:flybase
    xref:
      - fairsharing:FAIRsharing.wrvze3
      - https://flybase.org
    synonym:
      - FlyBase
    description: >-
      A Database of Drosophila Genes & Genomes
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Foundational Model of Anatomy Ontology (FMA -- both from UMLS and from OBO)
    id: infores:fma-obo
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/FMA/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Foundational Model of Anatomy Ontology (FMA -- both from UMLS and from OBO)
    id: infores:fma-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/FMA/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Food Database
    id: infores:foodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FooDB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-foodb
  - status: released
    name: FoodData Central
    id: infores:fooddata-central
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/FoodData-Central
    description: >-
      FoodData Central is an integrated data system that provides expanded nutrient profile
      data  and links to related agricultural and experimental research.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-fooddata-central
  - status: released
    name: FooDB
    id: infores:fooddb
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:biothings-foodb
  - status: released
    name: Food Ontology
    id: infores:foodon
    xref:
      - fairsharing:FAIRsharing.dzxae
      - http://www.obofoundry.org/ontology/foodon.html
    synonym:
      - FOODON
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Fission Yeast Phenotype Ontology
    id: infores:fypo
    xref:
      - fairsharing:FAIRsharing.4vr0ys
      - https://obofoundry.org/ontology/fypo.html
    synonym:
      - FYPO
    description: >-
      FYPO is a formal ontology of phenotypes observed in fission yeast.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: National Cancer Institute Genomic Data Commons Data Portal
    id: infores:gdc
    xref:
      - https://portal.gdc.cancer.gov
    synonym:
      - GDC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Genomics of Drug Sensitivity in Cancer
    id: infores:gdsc
    xref:
      - https://www.cancerrxgene.org/faq
    synonym:
      - GDSC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
  - status: released
    name: GeLiNEA
    id: infores:gelinea
    xref:
      - https://github.com/broadinstitute/GeLiNEA
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:molepro
  - status: released
    name: GenAge Database of Ageing-Related Genes
    id: infores:genage
    xref:
      - http://genomics.senescence.info/genes/
    synonym:
      - GenAge; The Aging Gene Database
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: The Gene Curation Coalition (GenCC)
    id: infores:gencc
    xref:
      - https://thegencc.org/
    description: >-
      The GenCC DB provides information pertaining to the validity of gene-disease
      relationships, with a current focus on Mendelian diseases
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:genetics-data-provider
  - status: released
    name: GenDR Database of Dietary Restriction-Related Genes
    id: infores:gendr
    xref:
      - http://genomics.senescence.info/diet/
    synonym:
      - GenDR
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Gene2Phenotype
    id: infores:gene2phenotype
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/gene2phenotype
      - https://www.ebi.ac.uk/gene2phenotype
      - https://www.ebi.ac.uk/gene2phenotype/about/project
    synonym:
      - G2P
    description: >-
      G2P is a publicly-accessible online system designed to facilitate development, validation,
      curation and distribution of large-scale, evidence-based datasets for diagnostic variant
      filtering. Each entry associates an allelic requirement and mutational consequence
      at a defined locus with a disease entity, including assigned confidence levels and
      evidence links.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:biothings-ebi-gene2phenotype
  - status: released
    name: 'Genebass: Gene-based association summary statistics'
    id: infores:genebass
    xref:
      - https://genebass.org/
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:genetics-data-provider
  - status: released
    name: Genomic Epidemiology Ontology
    id: infores:genepio
    xref:
      - fairsharing:FAIRsharing.y1mmbv
      - https://genepio.org/
    synonym:
      - GenEpiO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: GeneProf
    id: infores:geneprof
    xref:
      - fairsharing:FAIRsharing.qmygaa
      - https://github.com/NCATSTranslator/Translator-All/wiki/GeneProf
    description: >-
      underlying resource is throwing 404 error atm
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Genetics KP
    id: infores:genetics-data-provider
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Genetics-Knowledge-Provider
    description: >-
      TRAPI 1.1 endpoint for the NCATS Biomedical Translator Genetics Data KP
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:clingen
      - infores:clinvar
      - infores:gencc
      - infores:genebass
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:molepro
  - status: released
    name: Genetics Home Reference
    id: infores:ghr
    xref:
      - https://ghr.nlm.nih.gov/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Global Network of Biomedical Relationships
    id: infores:gnbr
    xref:
      - https://zenodo.org/record/1035500
    synonym:
      - GNBR
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Gene Ontology
    id: infores:go
    xref:
      - fairsharing:FAIRsharing.6xq0ee
      - https://github.com/NCATSTranslator/Translator-All/wiki/go
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:biothings-go-bp
      - infores:biothings-go-cc
      - infores:biothings-go-mf
      - infores:ebi-quick-go
      - infores:rtx-kg2
  - status: released
    name: Gene Ontology Causal Activity Model Annotations
    id: infores:go-cam
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GO-CAM
    synonym:
      - GO-CAM
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: GO Central
    id: infores:go-central
    xref:
      - http://www.geneontology.org/
    description: >-
      The core GO Consortium annotation team responsible for producing annotations
      for a range of model organisms.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Gene Ontology Plus
    id: infores:go-plus
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GO-Plus
    synonym:
      - GO-Plus
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Gene Ontology Annotations
    id: infores:goa
    xref:
      - http://www.geneontology.org/
    synonym:
      - GOA
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Gene Ontology Consortium
    id: infores:goc
    xref:
      - http://www.geneontology.org/
    synonym:
      - GOC
    description: >-
      The consortium that develops and maintains the Gene Ontology and produces
      GO annotations based on published experimental results.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: GOTE (Gpcrs to dOwnstream cellular pathways byTissue Expression)
    id: infores:gote
    xref:
      - https://tatonettilab-resources.s3.amazonaws.com/syspharm/GOTE.zip
    synonym:
      - GOTE
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: 'Genotype-Tissue Expression '
    id: infores:gtex
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GTEx
    synonym:
      - GTEx
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
  - status: released
    name: Guide to Pharmacology Database
    id: infores:gtopdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GtoPdb
    description: >-
      An expert-knowledge_assertion resource of ligand-activity-target relationships,
      the majority of which come from high-quality pharmacological and medicinal chemistry
      literature
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Genome-to-Treatment
    id: infores:gtrx
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/gtrx
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-gtrx
  - status: released
    name: GWAS Catalog
    id: infores:gwas-catalog
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/GWAS-Catalog
    synonym:
      - GWAS
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: Healthcare Common Procedure Coding System (from UMLS)
    id: infores:hcp-codes-umls
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HCPCS-Version-of-Current-Procedural-Terminology
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: HCPCS Version of Current Procedural Terminology (HCPT) (from UMLS)
    id: infores:hcpcs-cpt-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/HCPT/index.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Hetionet
    id: infores:hetionet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Hetionet
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: HUGO Gene Nomenclature Committee
    id: infores:hgnc
    xref:
      - fairsharing:FAIRsharing.29we0s
      - https://github.com/NCATSTranslator/Translator-All/wiki/HGNC
    synonym:
      - HGNC
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:molepro
      - infores:rtx-kg2
  - status: released
    name: Health Level Seven (HL7) (from UMLS)
    id: infores:hl7-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/HL7V3.0/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: 'Human Metabolome Database '
    id: infores:hmdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/HMDB
    synonym:
      - HMDB
    description: >-
      A freely available electronic database containing detailed information
      about small molecule metabolites found in the human body
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:molepro
      - infores:rtx-kg2
  - status: released
    name: HomoloGene
    id: infores:homologene
    xref:
      - https://www.ncbi.nlm.nih.gov/homologene
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Hopkins Synthetic Patient Data
    id: infores:hopkins-synthetic-patient-data
    xref:
      - https://ictr.johnshopkins.edu/about
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Human Protein Atlas
    id: infores:hpa
    xref:
      - http://www.proteinatlas.org/
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Host–Pathogen Interaction Database (HPIDB)
    id: infores:hpidb
    xref:
      - https://hpidb.igbb.msstate.edu/
    description: >-
      Curated host–pathogen protein interaction resource covering multiple species and pathogens.
      (PSI-MI: MI:1335)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Human Phenotype Ontology
    id: infores:hpo
    xref:
      - fairsharing:FAIRsharing.kbtt7f
      - https://github.com/NCATSTranslator/Translator-All/wiki/HPO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:biothings-hpo
      - infores:catrax-pharmacogenomics
      - infores:rtx-kg2
  - status: released
    name: Human Phenotype Ontology
    id: infores:hpo-annotations
    xref:
      - fairsharing:FAIRsharing.kbtt7f
      - https://github.com/NCATSTranslator/Translator-All/wiki/HPO-Annotations
    synonym:
      - HPO Annotations
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-hpo
      - infores:mydisease-info
  - status: released
    name: Human Developmental Stages Ontology
    id: infores:hsapdv
    xref:
      - fairsharing:FAIRsharing.c6vhm3
      - https://obofoundry.org/ontology/hsapdv.html
    synonym:
      - HsapDv
    description: >-
      An ontology that covers life cycle stages for humans, including both embryonic (Carnegie)
      stages and adult stages.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Human Gene Ontology Annotations
    id: infores:human-goa
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Human-GOA
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: The Human Reference Protein Interactome Mapping Project
    id: infores:huri
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/The-Human-Reference-Protein-Interactome
    synonym:
      - HuRI
    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
      knowledge_assertion interactions from small-scale studies
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
  - status: released
    name: Interologous Interaction Database (I2D)
    id: infores:i2d
    xref:
      - https://ophid.utoronto.ca/i2d
    description: >-
      Aggregates experimentally validated and orthology-transferred protein–protein interactions
      across species.
      (PSI-MI: MI:0911)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: ICD10 (from UMLS)
    id: infores:icd10-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10/index.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: ICD10AE (from UMLS)
    id: infores:icd10ae-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10AE/index.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: ICD10 Clinical Modification
    id: infores:icd10cm
    xref:
      - https://icd10cmtool.cdc.gov/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ICD10CM (from UMLS)
    id: infores:icd10cm-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10CM/index.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: ICD10PCS (from UMLS)
    id: infores:icd10pcs-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD10PCS/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: ICD11 Foundation
    id: infores:icd11-foundation
    xref:
      - https://icd.who.int/dev11/f/en
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
  - status: released
    name: ICD9CM (from UMLS)
    id: infores:icd9cm-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/ICD9CM/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: ICEES (Integrated Clinical and Environmental Exposures Service)
    id: infores:icees-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ICEES-KG
    synonym:
      - KP
    description: >-
      ICEES Knowledge Graph (KG) is an open service that exposes clinical data (i.e., electronic
      health  records, clinical study data) that have been integrated at the patient level
      with
      public exposures data  (e.g., airborne pollutants, major roadways/highways, concentrated
      animal feeding operations, landfills),  with pairwise positive and negative correlations
      between feature variables reported on edges.
    knowledge_level: statistical_association
    agent_type: not_provided
  - status: released
    name: integrated Dietary Supplement Knowledge Base
    id: infores:idisk
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/iDISK
    synonym:
      - iDISK
    description: >-
      https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7075538/
    knowledge_level: mixed
    agent_type: not_provided
    consumed_by:
      - infores:biothings-idisk
  - status: released
    name: International Molecular Exchange Consortium (IMEx)
    id: infores:imex
    xref:
      - https://www.imexconsortium.org/
    description: >-
      Consortium coordinating standards and shared curation for molecular interaction data
      integrated by partners including IntAct. (PSI-MI: MI:0959)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: imProving Agent
    id: infores:improving-agent
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/imProving-Agent
    description: >-
      imProving Agent OpenAPI TRAPI Specification
    knowledge_level: prediction
    agent_type: not_provided
    consumed_by:
      - infores:ars
  - status: deprecated
    name: OpenAPI for indigo NCATS Biomedical Translator Reasoner
    id: infores:indigo-reasoner
    xref:
      - https://github.com/NCATSTranslator/ReasonerAPI
    description: >-
      OpenAPI for indigo NCATS Biomedical Translator Reasoner
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: InnateDB
    id: infores:innatedb
    xref:
      - fairsharing:FAIRsharing.rb2drw
      - https://github.com/NCATSTranslator/Translator-All/wiki/InnateDB
    description: >-
      InnateDB is a publicly available database of the genes, proteins, experimentally-verified
      interactions  and signaling pathways involved in the innate immune response of humans,
      mice and bovines to microbial infection.  The database captures an improved coverage
      of
      the innate immunity interactome by integrating known interactions  and pathways from
      major
      public databases together with manually-curated data into a centralised resource.
    knowledge_level: mixed
    agent_type: not_provided
    consumed_by:
      - infores:biothings-innatedb
  - status: released
    name: Interaction Network Ontology
    id: infores:ino
    xref:
      - fairsharing:FAIRsharing.mm72as
      - http://www.obofoundry.org/ontology/ino.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: IntAct
    id: infores:intact
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/IntAct
    description: >-
      EMBL-EBI’s core manually curated molecular interaction knowledgebase using PSI-MI
      standards;
      primary IMEx curation and hosting platform. "(PSI-MI: MI:0469)"
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Interactome Projects at CCSB
    id: infores:interactome-ccsb
    xref:
      - http://interactome.dfci.harvard.edu/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: InterPro
    id: infores:interpro
    xref:
      - http://www.ebi.ac.uk/interpro
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: 'Inxight: Drugs'
    id: infores:inxight-drugs
    xref:
      - https://drugs.ncats.io/
    description: >-
      NCATS Inxight Drugs contains information on ingredients in medicinal
      products, including: US APPROVED DRUGS, MARKETED DRUGS and INVESTIGATIONAL DRUGS.
      Manually knowledge_assertion data supplied by the FDA and private companies, and provides
      marketing and regulatory status, rigorous drug ingredient definitions, biological
      activity, clinical use, and more.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: iProClass
    id: infores:iproclass
    xref:
      - http://pir.georgetown.edu/iproclass/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: iPTMNet
    id: infores:iptm-net
    xref:
      - https://research.bioinformatics.udel.edu/iptmnet/
    description: >-
      A bioinformatics resource for integrated understanding of protein post-translational
      modifications
      (PTMs)  in systems biology context. It connects multiple disparate bioinformatics
      tools
      and systems text mining,  data mining, analysis and visualization tools, and databases
      and ontologies into an integrated  cross-cutting research resource to address the
      knowledge
      gaps in exploring and discovering PTM networks.
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: released
    name: iPTMnet
    id: infores:iptmnet
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/iPTMnet
    description: >-
      iPTMnet is a bioinformatics resource for integrated understanding of protein post-translational
      modifications (PTMs) in systems biology context. It connects multiple disparate bioinformatics
      tools and systems text mining, data mining, analysis and visualization tools, and
      databases
      and ontologies into an integrated cross-cutting research resource to address the knowledge
      gaps
      in exploring and discovering PTM networks.
    knowledge_level: mixed
    agent_type: not_provided
  - status: released
    name: iRefIndex
    id: infores:irefindex
    xref:
      - https://irefindex.vib.be/wiki/index.php/iRefIndex
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Multiomics EHRMLA Clinical Connections API
    id: infores:isb-EHRMLA-clinicalconnections
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Multiomics-EHRMLA-Clinical-Connections-KP
    description: >-
      Documentation of the Multiomics Electronic-Health-Record (EHR) Machine Learning Analysis
      (MLA) Clinical Connections query web services.
    knowledge_level: prediction
    agent_type: computational_model
  - status: released
    name: Multiomics EHRMLA May Treat API
    id: infores:isb-EHRMLA-data
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Multiomics-EHRMLA-May-Treat-KP
    description: >-
      Documentation of the Multiomics Electronic-Health-Record (EHR) Machine Learning Analysis
      (MLA) May Treat query web services.
    knowledge_level: prediction
    agent_type: computational_model
  - status: released
    name: Institute for Systems Biology COVID-19 Immune Response Study
    id: infores:isb-incov
    xref:
      - https://isbscience.org/research/covid-19/
    synonym:
      - ISB Novel COronaVirus
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Institute for Systems Biology Scientific Wellness
    id: infores:isb-wellness
    xref:
      - https://isbscience.org/research/scientificwellness/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-wellness
  - status: released
    name: Kyoto Encyclopedia of Genes and Genomes (KEGG)
    id: infores:kegg
    xref:
      - https://www.genome.jp/kegg/
    synonym:
      - KEGG
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: Knowledge Graph Exchange Archive
    id: infores:kgea
    xref:
      - https://archive.translator.ncats.io/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: KinAce
    id: infores:kinace
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/KinAce
    description: >-
      https://kinace.kinametrix.com/#section-about
      The KinAce web portal aggregates and visualizes the network of interactions between
      protein-kinases
      and their substrates in the human genome.  To begin, click on one of the tabs above.
      Each
      tab provides a unique way to select a set of proteins and display the known kinase-substrate
      interactions between them.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: KINOMEscan
    id: infores:kinomescan
    xref:
      - https://lincs.hms.harvard.edu/kinomescan/
    knowledge_level: other
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Translator Knowledge Collaboratory API
    id: infores:knowledge-collaboratory
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Knowledge-Collaboratory-KP
    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)'
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:nanopublications
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Life Science Resource Registry
    id: infores:life-science-resource-registry
    xref:
      - https://download.bio2rdf.org/files/release/3/lsr/lsr.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Library of Integrated Network-Based Cellular Signatures
    id: infores:lincs
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/LINCS
    synonym:
      - LINCS
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Linked Structured Product Labels
    id: infores:linkedspl
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: LitVar API
    id: infores:litvar
    xref:
      - https://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/LitVar/
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:dbsnp
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Logical Observation Identifiers Names and Codes
    id: infores:loinc
    xref:
      - https://loinc.org/
    synonym:
      - LOINC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: LOINC (from UMLS)
    id: infores:loinc-umls
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/LOINC-from-UMLS
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: MatrixDB
    id: infores:matrixdb
    xref:
      - https://matrixdb.univ-lyon1.fr/
    description: >-
      Specialized resource for interactions involving extracellular matrix components,
      glycoproteins, and polysaccharides. (PSI-MI: MI:0950)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Medical Action Ontology
    id: infores:maxo
    xref:
      - fairsharing:FAIRsharing.945c78
      - http://www.obofoundry.org/ontology/maxo.html
    synonym:
      - MAXO
    description: >-
      see also https://github.com/monarch-initiative/MAxO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Mitochondrial Biology Information System (MBInfo)
    id: infores:mbinfo
    xref:
      - https://www.mitobinfo.org/
    description: >-
      Specialized database focused on mitochondrial protein interactions, processes, and
      pathways;
      provides curated mitochondrial PPIs integrated through MIntAct. (PSI-MI: MI:1222)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: MedDRA (from UMLS)
    id: infores:meddra-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: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: MedGen
    id: infores:medgen
    xref:
      - https://www.ncbi.nlm.nih.gov/medgen/
    synonym:
      - MedGen
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: MeDI
    id: infores:medi
    xref:
      - https://github.com/marcello-deluca/medic
    description: >-
      Indications and contraindications from DailyMed, extracted using LLMs.
    knowledge_level: knowledge_assertion
    agent_type: text_mining_agent
    consumes:
      - infores:dailymed
    consumed_by:
      - infores:multiomics-drugapprovals
  - status: released
    name: MedlinePlus (from UMLS)
    id: infores:medlineplus
    xref:
      - https://medlineplus.gov/
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Medication Reference Terminology (MED-RT) (from UMLS)
    id: infores:medrt-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/MED-RT/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Medical Subject Headings Thesaurus
    id: infores:mesh
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/MeSH
    synonym:
      - MeSH
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: MetaCyc Metabolic Pathway Database
    id: infores:metacyc
    xref:
      - https://metacyc.org/
    synonym:
      - MetaCyc
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Mouse Genome Informatics
    id: infores:mgi
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/mgi
    synonym:
      - MGI
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-mgi-g2p
  - status: released
    name: Molecular Interactions Controlled Vocabulary
    id: infores:mi
    xref:
      - http://www.obofoundry.org/ontology/mi.html
    synonym:
      - MI
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Molecular INTeraction Database (MINT)
    id: infores:mint
    xref:
      - https://mint.bio.uniroma2.it/
    description: >-
      Literature-curated experimentally verified protein–protein interactions from the University
      of Rome;
      now curated within IntAct under the MIntAct model. (PSI-MI: MI:0471)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: The microRNA Database
    id: infores:mirbase
    xref:
      - https://www.mirbase.org/
    synonym:
      - miRBase
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: MiRGate
    id: infores:mirgate
    xref:
      - https://pubmed.ncbi.nlm.nih.gov/25858286/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Molecular Connections
    id: infores:molecular-connections
    xref:
      - http://www.molecularconnections.com
    description: >-
      In silico discovery-services company specializing in drug discovery informatics that
      contributes curated molecular interaction data pro bono to the IMEx Consortium.
      (PSI-MI: MI:1263)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Molecular Data Provider for NCATS Biomedical Translator Reasoners
    id: infores:molepro
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Molecular-Data-Provider
    description: >-
      Molecular Data Provider for NCATS Biomedical Translator Reasoners
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:bigg-models
      - infores:bindingdb
      - infores:chebi
      - infores:chembank
      - infores:chembl
      - infores:cmap
      - infores:ctd
      - infores:ctrp
      - infores:depmap
      - infores:dgidb
      - infores:drug-repurposing-hub
      - infores:drugbank
      - infores:drugcentral
      - infores:dsstoxdb
      - infores:gelinea
      - infores:genetics-data-provider
      - infores:gtopdb
      - infores:hgnc
      - infores:hmdb
      - infores:inxight-drugs
      - infores:kinomescan
      - infores:molepro
      - infores:msigdb
      - infores:pharmgkb
      - infores:pharos
      - infores:probe-miner
      - infores:pubchem
      - infores:reactome
      - infores:rxnorm
      - infores:sider
      - infores:sri-node-normalizer
      - infores:stitch
      - infores:string
      - infores:uniprot
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:molepro
      - infores:service-provider-trapi
  - status: deprecated
    name: SciGraph-Monarch-Data
    id: infores:monarch-data
    xref:
      - scigraph-data.monarchinitiative.org/scigraph/docs/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: SciGraph-Monarch-Ontology
    id: infores:monarch-ontology
    xref:
      - scigraph-ontology.monarchinitiative.org/scigraph/docs/
    knowledge_level: other
    agent_type: not_provided
  - status: released
    name: Monarch Initiative
    id: infores:monarchinitiative
    xref:
      - fairsharing:FAIRsharing.2c5132
      - https://github.com/NCATSTranslator/Translator-All/wiki/Monarch-Initiative
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: MONDO Disease Ontology
    id: infores:mondo
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/mondo
    synonym:
      - MONDO
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:mydisease-info
      - infores:rtx-kg2
  - status: released
    name: Molecular Process Ontology
    id: infores:mop
    xref:
      - fairsharing:FAIRsharing.mct09a
      - http://www.obofoundry.org/ontology/mop.html
    synonym:
      - MOP
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Mouse Genome Informatics Mousemine
    id: infores:mousemine
    xref:
      - http://www.mousemine.org/mousemine/api.do
    synonym:
      - Mousemine
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Mammalian Phenotype Ontology
    id: infores:mp
    xref:
      - fairsharing:FAIRsharing.kg1x4z
      - https://obofoundry.org/ontology/mp.html
    description: >-
      Standard terms for annotating mammalian phenotypic data.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Mouse pathology ontology
    id: infores:mpath
    xref:
      - https://obofoundry.org/ontology/mpath.html
    synonym:
      - MPATH
    description: >-
      A structured controlled vocabulary of mutant and transgenic mouse pathology
      phenotypes
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Microbial Protein Interaction Database (MPIDB)
    id: infores:mpidb
    xref:
      - https://www.ebi.ac.uk/intact/
    description: >-
      Collection of physical protein-protein interactions in prokaryotes. As of 2013 the
      original MPIDB database is no longer active; all IMEx-curated MPIDB content was
      imported into and is now maintained by IntAct. (PSI-MI: MI:0903)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Molecular Signatures Database
    id: infores:msigdb
    xref:
      - https://www.gsea-msigdb.org/gsea/msigdb
    synonym:
      - MSigDB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Multiomics ClinicalTrials KP API
    id: infores:multiomics-clinicaltrials
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Clinical-Trials-KP
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumes:
      - infores:aact
      - infores:dailymed
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:rtx-kg2
      - infores:service-provider-trapi
  - status: released
    name: Multiomics Drug Approvals KP API
    id: infores:multiomics-drugapprovals
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Multiomics-Drug-Approvals-KP
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumes:
      - infores:dailymed
      - infores:faers
      - infores:medi
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:rtx-kg2
      - infores:service-provider-trapi
  - status: released
    name: Multiomics Microbiome KP API
    id: infores:multiomics-microbiome
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Microbiome-KP
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumes:
      - infores:pubmed-central
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: Multiomics KP API
    id: infores:multiomics-multiomics
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Multiomics-KP
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumes:
      - infores:pubmed-central
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:service-provider-trapi
  - status: released
    name: My Cancer Genome
    id: infores:mycancergenome
    xref:
      - https://www.mycancergenome.org/
    description: >-
      Knowledgebase providing up-to-date information on cancer gene variants and targeted
      therapies.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: My Cancer Genome Clinical Trial
    id: infores:mycancergenome-trials
    xref:
      - https://www.mycancergenome.org/
    description: >-
      Clinical trial data linked to molecular cancer variants curated by My Cancer Genome.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: MyChem.info API
    id: infores:mychem-info
    xref:
      - http://mychem.info
    synonym:
      - mychem
    description: >-
      Documentation of the MyChem.info chem query web services.  Learn more
      about [MyChem.info](http://MyChem.info/)
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:aeolus
      - infores:chebi
      - infores:chembl
      - infores:drugcentral
      - infores:fda-orphan-drug-db
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: MyDisease.info API
    id: infores:mydisease-info
    xref:
      - http://mydisease.info/
    synonym:
      - mydisease
    description: >-
      Documentation of the MyDisease.info disease query web services.  Learn
      more about [mydisease.info](http://mydisease.info/)
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:ctd
      - infores:disgenet
      - infores:hpo-annotations
      - infores:mondo
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: MyGene.info API
    id: infores:mygene-info
    xref:
      - https://mygene.info/
    synonym:
      - mygene
    description: >-
      Documentation of the MyGene.info Gene Query web services. Learn more
      about [MyGene.info](http://mygene.info/)
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:clingen
      - infores:cpdb
      - infores:ncbi-gene
      - infores:panther
      - infores:reactome
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: MyGeneset.info API
    id: infores:mygeneset-info
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/MyGeneset
    description: >-
      MyGeneset allows scientists to conveniently collect, save, and share sets of genes  from
      thousands of different species.
    knowledge_level: other
    agent_type: not_provided
  - status: released
    name: MyVariant.info API
    id: infores:myvariant-info
    xref:
      - http://myvariant.info/
    synonym:
      - myvariant
    description: >-
      Documentation of the MyVariant.info Variant Query web services. Learn
      more about [MyVariant.info](http://myvariant.info/)
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:civic
      - infores:clinvar
      - infores:dbsnp
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: Nanopublications Network
    id: infores:nanopublications
    xref:
      - http://nanopub.net/
    synonym:
      - Nanopublications
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:knowledge-collaboratory
  - status: released
    name: Neuro Behavior Ontology
    id: infores:nbo
    xref:
      - fairsharing:FAIRsharing.pktgc6
      - https://github.com/NCATSTranslator/Translator-All/wiki/NBO
    synonym:
      - NBO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: National Center for Advancing Translational Science Biomedical Data Translator 
      Autonomous Relay System
    id: infores:ncats-ars
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Autonomous-Relay-System-(ARS)
    synonym:
      - NCATS Translator Autonomous Relay System Translator  Autonomous Relay System
      - NCATS Translator ARS
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: National Center for Biotechnology Information Gene
    id: infores:ncbi-gene
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ncbi-gene
    synonym:
      - NGBI Gene
      - ncbigene
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:mygene-info
      - infores:rtx-kg2
  - status: released
    name: NCBI Taxonomy Ontology
    id: infores:ncbi-taxon
    xref:
      - http://www.obofoundry.org/ontology/ncbitaxon.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: NCBI Taxonomy
    id: infores:ncbi-taxonomy
    xref:
      - http://www.ncbi.nlm.nih.gov/taxonomy
    synonym:
      - ncbitaxonomy
      - ncbitaxon
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: North Carolina Department of Environmental Quality Concentrated Animal Feeding 
      Operations Exposures Data
    id: infores:ncdeq-cafo-exposures-data
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: North Carolina Department of Environmental Quality Landfill Exposures Data
    id: infores:ncdeq-landfill-exposures-data
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: NCES public school exposures data
    id: infores:nces-schools-exposure-data
    xref:
      - https://nces.ed.gov/
    synonym:
      - NCES Data
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: National Cancer Institute Thesaurus
    id: infores:ncit
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NCIT
    synonym:
      - NCT Thesaurus
      - NCIt
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: National Drug Code Directory
    id: infores:ndcd
    xref:
      - https://www.fda.gov/drugs/drug-approvals-and-databases/national-drug-code-directory
    synonym:
      - NDCD
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: National Drug Data File (NDDF) (from UMLS)
    id: infores:nddf-umls
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: NDEx
    id: infores:ndex
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NDEx
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: National Drug File - Reference Terminology (NDF-RT) (from UMLS)
    id: infores:ndfrt
    xref:
      - https://www.nlm.nih.gov/research/umls/rxnorm/sourcereleasedocs/vandf.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: NEXO Align Ontology
    id: infores:nexo-align
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NEXO-Align-Ontology
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: NEXO Construct Ontology
    id: infores:nexo-construct
    xref:
      - http://nexo.ucsd.edu/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: NIEHS Environmental Polymorphisms Registry
    id: infores:niehs-epr-study-datae
    synonym:
      - NIEHS EPR
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: National Organization for Rare Disorders (NORD) Database
    id: infores:nord
    xref:
      - http://rarediseases.org/
    synonym:
      - NORD
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: nSides
    id: infores:nsides
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/nSides
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Norwegian University of Science and Technology (NTNU)
    id: infores:ntnu
    xref:
      - https://www.ntnu.no/
    description: >-
      NTNU-affiliated curators contributing molecular interaction annotations to the IMEx
      Consortium via IntAct. (PSI-MI: MI:1264)
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Ontology of Biological Attributes
    id: infores:oba
    xref:
      - fairsharing:FAIRsharing.mp0rwf
      - https://obofoundry.org/ontology/oba.html
    synonym:
      - OBA
    description: >-
      A collection of biological attributes (traits) covering all kingdoms of life.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Ontology Lookup Service API
    id: infores:ols
    xref:
      - https://www.ebi.ac.uk/ols4/help
    synonym:
      - OLS
    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).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:disease-ontology
    consumed_by:
      - infores:service-provider-trapi
  - status: released
    name: OmicsDI
    id: infores:omicsdi
    xref:
      - https://www.omicsdi.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Online Mendelian Inheritance in Man (OMIM)
    id: infores:omim
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OMIM
    synonym:
      - OMIM
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:openpredict
      - infores:rtx-kg2
  - status: released
    name: OmniCorp
    id: infores:omnicorp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OmniCorp
    synonym:
      - OmniCorp
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Observational Medical Outcomes Partnership Common Data Model
    id: infores:omop-cdm
    xref:
      - https://www.ohdsi.org/data-standardization/the-common-data-model/
    synonym:
      - OMOP-CDM
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: OMOP (OHDSI)
    id: infores:omop-ohdsi
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Automat
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:cohd
  - status: released
    name: Observational Medical Outcomes Partnership Observational Health Data Sciences 
      and Informatics API
    id: infores:omop-ohdsi-api
    xref:
      - https://chime.ucsf.edu/observational-medical-outcomes-partnership-omop
    synonym:
      - OMOP OHDSI API
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: OncoKB
    id: infores:oncokb
    xref:
      - https://www.oncokb.org/
    description: >-
      Precision oncology knowledgebase linking somatic mutations to clinical evidence levels
      and therapies.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Open Targets
    id: infores:open-targets
    xref:
      - fairsharing:FAIRsharing.3f9n4y
      - https://www.opentargets.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Open Health Data @ Carolina
    id: infores:openhealthdata-carolina
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Open-Health-Data-at-Carolina
    synonym:
      - OHD@Carolina, Open Health Data @ Carolina
    description: >-
      Open Health Data @ Carolina 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 UNC Health's OMOP database on a five-year cohort
      (~6M patients over years 2018 through 2022) of all UNC Health patients,  including
      their
      inpatient and outpatient visit data. Counts represent the number of  patients associated
      with a given 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 was <= 10 were excluded,  and counts were randomized
      by the Poisson distribution.
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:automat-openhealthdata-carolina
  - status: released
    name: OpenPredict API
    id: infores:openpredict
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OpenPredict-KP
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:cohd
      - infores:drugbank
      - infores:omim
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Orphanet Rare Disease Ontology
    id: infores:ordo
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Orphanet-Rare-Disease-Ontology
    synonym:
      - ORDO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Orphanet
    id: infores:orphanet
    xref:
      - fairsharing:FAIRsharing.6bd5k6
      - https://www.orpha.net
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: OWLSim Ontology Based Profile Matching
    id: infores:owlsim
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/OWLSim
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Ontology Xref Service
    id: infores:oxo
    xref:
      - https://www.ebi.ac.uk/spot/oxo/
    synonym:
      - OxO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Panther Classification System
    id: infores:panther
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PANTHER
    synonym:
      - Panther
    knowledge_level: other
    agent_type: not_provided
    consumed_by:
      - infores:mygene-info
  - status: released
    name: PathoPhenoDB
    id: infores:path-pheno-db
    xref:
      - http://patho.phenomebrowser.net/#/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Pathway Commons
    id: infores:pathway-commons
    xref:
      - fairsharing:FAIRsharing.5y3gdd
      - https://www.pathwaycommons.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: PathWhiz
    id: infores:pathwhiz
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PathWhiz
    knowledge_level: prediction
    agent_type: automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Phenotype and Trait Ontology
    id: infores:pato
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PATO
    synonym:
      - PATO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Pathosystems Resource Integration Center
    id: infores:patric
    xref:
      - https://ngdc.cncb.ac.cn/databasecommons/database/id/230
    synonym:
      - PATRIC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Physician Data Query (PDQ) (from UMLS)
    id: infores:pdq-umls
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/PDQ/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Psychoactive Drug Screening Program
    id: infores:pdsp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PDSP
    description: >-
      PDSP is the NIMH's Psychoactive Drug Screening Program, which provides screening of
      novel psychoactive compounds for pharmacological and functional activity at cloned
      human or rodent CNS receptors, channels, and transporters.
      The website links to several databases.  
    knowledge_level: other
    agent_type: not_provided
  - status: released
    name: PDSP Ki Database
    id: infores:pdsp-ki
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PDSP-Ki
      - https://pdsp.unc.edu/kidb2/kidb/web/
    synonym:
      - KiDB
    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
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Pfam
    id: infores:pfam
    xref:
      - https://www.ebi.ac.uk/interpro
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: PFOCR
    id: infores:pfocr
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/pfocr
    knowledge_level: prediction
    agent_type: not_provided
    consumed_by:
      - infores:biothings-pfocr
  - status: released
    name: Text Mined pharmacogenomic polymorphisms
    id: infores:pgxmine
    xref:
      - https://pgxmine.pharmgkb.org/
    synonym:
      - PGxMine
    description: >-
      Text mined pharmacogenomic polymorphisms to assist curation of PharmGKB.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Pharmacotherapy Database
    id: infores:pharmacotherapydb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Pharmacotherapy-Database
    synonym:
      - PharmacotherapyDB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Pharmacogenomics Knowledgebase
    id: infores:pharmgkb
    xref:
      - https://www.pharmgkb.org/
    synonym:
      - PharmGKB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:molepro
  - status: released
    name: Pharos
    id: infores:pharos
    xref:
      - fairsharing:FAIRsharing.52d6ae
      - https://github.com/NCATSTranslator/Translator-All/wiki/Pharos
    description: >-
      focusing on three of the most commonly drug-targeted protein families:
      G-protein-coupled receptors (GPCRs, Ion channels (ICs), Kinases
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Phenomics Integrated Ontology
    id: infores:phenio
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/phenio
    synonym:
      - PHENIO
    description: >-
      An ontology for accessing and comparing knowledge concerning phenotypes
      across species and genetic backgrounds.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: PhenoPacket Store
    id: infores:phenopacket-store
    xref:
      - https://github.com/monarch-initiative/phenopacket-store
    synonym:
      - Phenopacket Store
    description: >-
      A repository for storage and retrieval of phenopackets, which are structured data  for
      representing and exchanging phenotypic information across computational contexts.
    knowledge_level: observation
    agent_type: manual_agent
  - status: released
    name: Protein Ontology
    id: infores:pr
    xref:
      - fairsharing:FAIRsharing.4ndncv
      - https://proconsortium.org/
    synonym:
      - PRO
    knowledge_level: knowledge_assertion
    agent_type: manual_validation_of_automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: Prefix Commons
    id: infores:prefixcommons
    xref:
      - https://github.com/prefixcommons
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: PrePPI
    id: infores:preppi
    xref:
      - https://honiglab.c2b2.columbia.edu/PrePPI/
    synonym:
      - PrePPI
    knowledge_level: prediction
    agent_type: not_provided
  - status: released
    name: PrimeKG, Precision Medicine Knowledge Graph
    id: infores:primekg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PrimeKG
    synonym:
      - PrimeKG
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
  - status: released
    name: Probe Miner
    id: infores:probe-miner
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Probe-Miner
    knowledge_level: statistical_association
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: Providence St. Joseph EHR Data
    id: infores:providence-st-joseph-ehr
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/EHR-KP-Providence-Health-Systems-and-Affiliates-Data
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:automat-ehr-may-treat-kp
  - status: released
    name: PhosphoSitePlus
    id: infores:psite-plus
    xref:
      - https://www.phosphosite.org/homeAction.action
    description: >-
      provides comprehensive information and tools for the study of protein  post-translational
      modifications (PTMs) including phosphorylation, acetylation, and more.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Psychological Index Terms (PSY) (from UMLS)
    id: infores:psy-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: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: PubChem
    id: infores:pubchem
    xref:
      - fairsharing:FAIRsharing.qt3w7z
      - https://pubchem.ncbi.nlm.nih.gov/
    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
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: PubMed
    id: infores:pubmed
    xref:
      - fairsharing:FAIRsharing.a5sv8m
      - https://pubmed.ncbi.nlm.nih.gov/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:text-mining-provider-cooccurrence
      - infores:text-mining-provider-targeted
  - status: released
    name: PubMed Central
    id: infores:pubmed-central
    xref:
      - fairsharing:FAIRsharing.wpt5mp
      - https://www.ncbi.nlm.nih.gov/pmc/tools/openftlist/
    synonym:
      - PMC
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:multiomics-multiomics
      - infores:multiomics-microbiome
      - infores:text-mining-provider-cooccurrence
      - infores:text-mining-provider-targeted
  - status: released
    name: Pubtator
    id: infores:pubtator
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/PubTator
      - https://www.ncbi.nlm.nih.gov/research/pubtator3/
    description: >-
      PubTator is a biomedical literature resource using state-of-the-art AI
      techniques to offer semantic and relation searches for key concepts like
      proteins, genetic variants, diseases and chemicals. It covers millions of
      PubMed abstracts and full-text articles from PMC Open Access Subset (PMC-OA).
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: deprecated
    name: QuickGO
    id: infores:quickgo
    xref:
      - https://www.ebi.ac.uk/QuickGO/api/index.html#!/gene_ontology/baseUrlUsingGET_1
    synonym:
      - QuickGO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: RaMPDB
    id: infores:rampdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/RaMPDB
    description: >-
      RaMP-DB (Relational database of Metabolomic Pathways) is a multi-sourced integrated
      database
      with comprehensive annotations on biological pathways, structure/chemistry, disease
      and
      ontology
      annotations for genes, proteins, and metabolites. RaMP-DB also provides a framework
      for
      single
      and batch queries of those annotations, and for performing chemical and biological
      pathway
      enrichment analyses on input multi-omic datasets.
    knowledge_level: mixed
    agent_type: not_provided
  - status: released
    name: NCATS RARe-SOURCE
    id: infores:rare-source
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/rare-source
    description: >-
      Integrated Bioinformatics Resource for Rare Diseases
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-rare-source
  - status: released
    name: Reactome
    id: infores:reactome
    xref:
      - fairsharing:FAIRsharing.tf6kj8
      - https://github.com/NCATSTranslator/Translator-All/wiki/reactome
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:molepro
      - infores:mygene-info
      - infores:rtx-kg2
  - status: released
    name: RefMet - A Reference list of Metabolite names
    id: infores:refmet
    xref:
      - https://www.metabolomicsworkbench.org/databases/refmet/index.php
    description: >-
      RefMet provides a standardized reference nomenclature for both discrete metabolite
      structures and metabolite species identified by spectroscopic techniques in metabolomics
      experiments. The resource curates over 700,000 metabolite names from 3,500+ MS and
      NMR studies into a standardized analytical chemistry-focused nomenclature system,
      enabling researchers to compare and contrast metabolite data across different experiments
      and studies.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Richards Effector Gene List
    id: infores:regl
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Richards-Effector-Gene-List
    description: >-
      An effector index to predict target genes at GWAS loci
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: RENCI BioNames
    id: infores:renci-bionames
    xref:
      - https://bionames.renci.org/apidocs/#/default/get_lookup__q___concept__
    synonym:
      - Bionames
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Drug Repositioning Database
    id: infores:repodb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/repoDB
    synonym:
      - repoDB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-repodb
  - status: released
    name: Retriever
    id: infores:retriever
    xref:
      - https://github.com/BioPack-team/retriever
    description: >-
      Retriever: The TRAPI access layer to Tier 0/1/2 KGs.
    knowledge_level: mixed
    agent_type: not_provided
    consumes:
      - infores:dogpark-tier0
      - infores:dogpark-tier1
    consumed_by:
      - infores:arax
      - infores:shepherd-aragorn
      - infores:shepherd-arax
      - infores:shepherd-bte
      - infores:shepherd-sipr
  - status: released
    name: RGD API
    id: infores:rgd
    xref:
      - https://rgd.mcw.edu/
    description: >-
      The RGD API
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Rhea
    id: infores:rhea
    xref:
      - fairsharing:FAIRsharing.pn1sr5
      - https://github.com/NCATSTranslator/Translator-All/wiki/rhea
    description: >-
      https://www.rhea-db.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-rhea
  - status: released
    name: RNAcentral
    id: infores:rnacentral
    xref:
      - fairsharing:FAIRsharing.KcCjL7
      - https://rnacentral.org
    description: >-
      A comprehensive database of non-coding RNA sequences that provides a single access
      point
      to RNA sequences from a range of resources.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Relations Ontology
    id: infores:ro
    xref:
      - http://www.obofoundry.org/ontology/ro.html
    synonym:
      - RO
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: ROBOKOP
    id: infores:robokop
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ARAGORN#ROBOKOP
    synonym:
      - Robokop
    description: >-
      An API for answering biomedical questions
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: ROBOKOP KG
    id: infores:robokop-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/ROBOKOP-KG
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:unsecret-agent
  - status: deprecated
    name: ROBOKOP (Reasoning Over Biomedical Objects linked in Knowledge-Oriented Pathway)
    id: infores:robokop-kp
    xref:
      - http://robokop.renci.org
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: ROBOKOP Ranker
    id: infores:robokp-ranker
    xref:
      - http://robokop.renci.org
    description: >-
      An API for answering biomedical questions
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: RTX KG2
    id: infores:rtx-kg2
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/RTX-KG2
    synonym:
      - Rtx-kg2
    description: >-
      TRAPI 1.1 endpoint for the NCATS Biomedical Translator KP called RTX KG2
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:atc-codes-umls
      - infores:bfo
      - infores:biolink-ontology
      - infores:biothings-multiomics-clinicaltrials
      - infores:bspo
      - infores:chebi
      - infores:chembl
      - infores:chv-umls
      - infores:cl
      - infores:cpt-codes-umls
      - infores:dda
      - infores:dgidb
      - infores:disease-ontology
      - infores:diseases
      - infores:disgenet
      - infores:drugbank
      - infores:drugcentral
      - infores:efo
      - infores:ehdaa2
      - infores:ensembl-gene
      - infores:fma-obo
      - infores:fma-umls
      - infores:foodon
      - infores:genepio
      - infores:go
      - infores:go-plus
      - infores:goa
      - infores:hcp-codes-umls
      - infores:hcpcs-cpt-umls
      - infores:hgnc
      - infores:hl7-umls
      - infores:hmdb
      - infores:hpo
      - infores:icd10-umls
      - infores:icd10ae-umls
      - infores:icd10cm-umls
      - infores:icd10pcs-umls
      - infores:icd9cm-umls
      - infores:ino
      - infores:intact
      - infores:kegg
      - infores:loinc-umls
      - infores:meddra-umls
      - infores:medlineplus
      - infores:medrt-umls
      - infores:mesh
      - infores:mi
      - infores:mirbase
      - infores:mondo
      - infores:multiomics-clinicaltrials
      - infores:multiomics-drugapprovals
      - infores:nbo
      - infores:ncbi-gene
      - infores:ncbi-taxon
      - infores:ncbi-taxonomy
      - infores:ncit
      - infores:nddf-umls
      - infores:ndfrt
      - infores:omim
      - infores:ordo
      - infores:pathwhiz
      - infores:pato
      - infores:pdq-umls
      - infores:pr
      - infores:psy-umls
      - infores:reactome
      - infores:ro
      - infores:rxnorm
      - infores:semmeddb
      - infores:smpdb
      - infores:snomedct
      - infores:ttd
      - infores:uberon
      - infores:umls
      - infores:umls-metathesaurus
      - infores:unichem
      - infores:unii
      - infores:uniprot
      - infores:vandf-umls
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:unsecret-agent
  - status: released
    name: RxNorm
    id: infores:rxnorm
    xref:
      - fairsharing:FAIRsharing.36pf8q
      - https://github.com/NCATSTranslator/Translator-All/wiki/RxNORM
    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
    knowledge_level: knowledge_assertion
    agent_type: automated_agent
    consumed_by:
      - infores:molepro
      - infores:rtx-kg2
  - status: released
    name: SABIO-RK Biochemical Reaction Kinetics Database
    id: infores:sabio-rk
    xref:
      - fairsharing:FAIRsharing.cwx04e
      - https://www.h-its.org/projects/sabio-rk-biochemical-reaction-kinetics-database/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Semantic Analytics & Clean Data Intelligence Experts
    id: infores:scibite
    xref:
      - https://www.scibite.com/
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: released
    name: Semantic Medline Database
    id: infores:semmeddb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SemMedDB
    knowledge_level: prediction
    agent_type: text_mining_agent
    consumed_by:
      - infores:biothings-semmeddb
      - infores:rtx-kg2
  - status: released
    name: SEPID MAB
    id: infores:sepid_mab
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:biothings-mabs
  - status: released
    name: Service Provider TRAPI endpoints
    id: infores:service-provider-trapi
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Service-Provider-TRAPI
    synonym:
      - service provider
    knowledge_level: other
    agent_type: not_provided
    consumes:
      - infores:automat-ctd
      - infores:automat-drug-central
      - infores:automat-gtex
      - infores:automat-gtopdb
      - infores:automat-gwas-catalog
      - infores:automat-hetionet
      - infores:automat-hgnc
      - infores:automat-hmdb
      - infores:automat-human-goa
      - infores:automat-icees-kg
      - infores:automat-intact
      - infores:automat-panther
      - infores:automat-pharos
      - infores:automat-robokop
      - infores:automat-viral-proteome
      - infores:biothings-agr
      - infores:biothings-bindingdb
      - infores:biothings-bioplanet-pathway-disease
      - infores:biothings-bioplanet-pathway-gene
      - infores:biothings-ddinter
      - infores:biothings-dgidb
      - infores:biothings-diseases
      - infores:biothings-ebi-gene2phenotype
      - infores:biothings-foodb
      - infores:biothings-fooddata-central
      - infores:biothings-go-bp
      - infores:biothings-go-cc
      - infores:biothings-go-mf
      - infores:biothings-gtrx
      - infores:biothings-hpo
      - infores:biothings-idisk
      - infores:biothings-innatedb
      - infores:biothings-mabs
      - infores:biothings-mgi-g2p
      - infores:biothings-multiomics-biggim-drugresponse
      - infores:biothings-multiomics-ehr-risk
      - infores:biothings-multiomics-wellness
      - infores:biothings-pfocr
      - infores:biothings-rare-source
      - infores:biothings-repodb
      - infores:biothings-rhea
      - infores:biothings-semmeddb
      - infores:biothings-suppkg
      - infores:biothings-ttd
      - infores:biothings-uberon-ontology
      - infores:cohd
      - infores:complex-portal
      - infores:connections-hypothesis
      - infores:ctd
      - infores:ebi-proteins
      - infores:ebi-quick-go
      - infores:litvar
      - infores:molepro
      - infores:monarchinitiative
      - infores:multiomics-clinicaltrials
      - infores:multiomics-drugapprovals
      - infores:multiomics-microbiome
      - infores:multiomics-multiomics
      - infores:mychem-info
      - infores:mydisease-info
      - infores:mygene-info
      - infores:myvariant-info
      - infores:ols
      - infores:text-mining-provider-targeted
    consumed_by:
      - infores:aragorn
      - infores:arax
      - infores:biothings-explorer
  - status: released
    name: Saccharomyces Genome Database
    id: infores:sgd
    xref:
      - fairsharing:FAIRsharing.pzvw40
      - http://www.yeastgenome.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Shepherd Aragorn ARA
    id: infores:shepherd-aragorn
    xref:
      - https://github.com/BioPack-team/shepherd
    description: >-
      Shepherd Aragorn: The Aragorn ARA implementation within the
      Shepherd platform.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:retriever
    consumed_by:
      - infores:ars
  - status: released
    name: Shepherd ARAX ARA
    id: infores:shepherd-arax
    xref:
      - https://github.com/BioPack-team/shepherd
    description: >-
      Shepherd ARAX: The ARAX ARA implementation within the
      Shepherd platform.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:retriever
    consumed_by:
      - infores:ars
  - status: released
    name: Shepherd BTE ARA
    id: infores:shepherd-bte
    xref:
      - https://github.com/BioPack-team/shepherd
    description: >-
      Shepherd BTE: The BTE ARA implementation within the
      Shepherd platform.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:retriever
    consumed_by:
      - infores:ars
  - status: released
    name: Shepherd SIPR ARA
    id: infores:shepherd-sipr
    xref:
      - https://github.com/BioPack-team/shepherd
    description: >-
      Shepherd SIPR: The SIPR ARA implementation within the
      Shepherd platform. Uses Page Rank algorithm for Set Input Queries.
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:retriever
    consumed_by:
      - infores:ars
  - status: released
    name: SIDER
    id: infores:sider
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SIDER
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
      - infores:molepro
  - status: released
    name: SIGNOR 3.0
    id: infores:signor
    xref:
      - https://signor.uniroma2.it/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:catrax-pharmacogenomics
  - status: released
    name: SmartAPI API
    id: infores:smart-api
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Smart-API-Registry
    description: >-
      This is the API provided from SmartAPI, https://smart-api.info, application.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: SmartAPI API
    id: infores:smartapi
    xref:
      - https://smart-api.info
    description: >-
      This is the API provided from SmartAPI, https://smart-api.info, application.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Small Molecule Pathway Database (SMPDB)
    id: infores:smpdb
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SMPDB
    synonym:
      - SMPDB
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Systemized Nomenclature of Medicine
    id: infores:snomedct
    xref:
      - http://www.snomed.org/
    synonym:
      - SNOMED
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: SnpEff
    id: infores:snpeff
    xref:
      - https://pcingola.github.io/SnpEff/
    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).
    knowledge_level: prediction
    agent_type: computational_model
  - status: released
    name: Sequence Ontology
    id: infores:so
    xref:
      - fairsharing:FAIRsharing.6bc7h9
      - http://purl.obolibrary.org/obo/so.owl
    synonym:
      - SO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: SPOKE KP
    id: infores:spoke
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SPOKE-KP
    synonym:
      - Spoke
    description: >-
      SPOKE KP - an NIH NCATS Knowledge Provider to expose UCSFs SPOKE
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumes:
      - infores:bgee
      - infores:bindingdb
      - infores:gdsc
      - infores:chembl
      - infores:civic
      - infores:lincs
      - infores:disease-ontology
      - infores:diseases
      - infores:drugcentr
      - infores:fooddb
      - infores:gwas-catalog
      - infores:hpa
      - infores:interpro
      - infores:kegg
      - infores:go
      - infores:mesh
      - infores:ncbi-taxonomy
      - infores:omim
      - infores:path-pheno-db
      - infores:pfam
      - infores:sider
      - infores:string
      - infores:uberon
      - infores:uniprot
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: SRI Answer Appraiser
    id: infores:sri-answer-appraiser
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Answer-Appraiser
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: Edge Normalization Service
    id: infores:sri-edge-normalization-service
    xref:
      - https://github.com/TranslatorSRI/EdgeNormalization
    description: >-
      SRI service to validate and normalize edges to Translator standards.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Name Resolver
    id: infores:sri-name-resolver
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Name-Resolution-Service
    description: >-
      Service to resolve Translator concept names.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Node Normalization
    id: infores:sri-node-normalizer
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Node-Normalizer
    description: >-
      Node normalization takes a CURIE, and returns resolved alias and
      the canonical identifier of a node.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: deprecated
    name: Ontology-KP API
    id: infores:sri-ontology
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Ontology-Service
    description: >-
      TRAPI interface to integrated ontology knowledgebase
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: SRI Reference Knowledge Graph API
    id: infores:sri-reference-kg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Reference-Knowledge-Graph
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: SRI SemMedDb KGX File Set
    id: infores:sri-semmeddb
    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).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: STAR GEO Search Application
    id: infores:startgeo
    xref:
      - http://stargeo.org/
    synonym:
      - STARGEO
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: STITCH
    id: infores:stitch
    xref:
      - http://stitch.embl.de/
    synonym:
      - STITCH
    description: >-
      Database of known and prediction interactions between chemicals and
      proteins. The interactions include direct (physical) and indirect (functional)
      associations
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: deprecated
    name: Strider
    id: infores:strider
    xref:
      - https://github.com/ranking-agent/strider
    description: >-
      Translator Autonomous Relay Agent
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Search Tool for the Retrieval of Interacting Genes/Proteins
    id: infores:string
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/STRING
    synonym:
      - STRING
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:molepro
  - status: released
    name: SuppKG
    id: infores:suppkg
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SuppKG
    description: >-
      SuppKG contains relations between dietary supplements and other entities, such as
      diseases.  More
      information can be found in [this paper](https://doi.org/10.1016/j.jbi.2022.104120).
    knowledge_level: not_provided
    agent_type: text_mining_agent
    consumed_by:
      - infores:biothings-suppkg
  - status: released
    name: Symptom Ontology
    id: infores:symp
    xref:
      - fairsharing:FAIRsharing.ay74mj
      - http://www.obofoundry.org/ontology/symp.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: The Cancer Genome Atlas
    id: infores:tcga
    xref:
      - https://www.cancer.gov/about-nci/organization/ccg/research/structural-genomics/tcga
    synonym:
      - TCGA
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
  - status: released
    name: Target Central Resource Database
    id: infores:tcrd
    xref:
      - fairsharing:FAIRsharing.1gn47b
      - http://juniper.health.unm.edu/tcrd/
    synonym:
      - TCRD
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Text Mining COOCCURRENCE API
    id: infores:text-mining-provider-cooccurrence
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Literature-Cooccurrence-KP
    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.
    knowledge_level: not_provided
    agent_type: text_mining_agent
    consumes:
      - infores:pubmed
      - infores:pubmed-central
    consumed_by:
      - infores:aragorn
      - infores:arax
  - status: released
    name: Text Mining Targeted Association API
    id: infores:text-mining-provider-targeted
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Text%E2%80%90mined-Assertion-KP
    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.
    knowledge_level: not_provided
    agent_type: text_mining_agent
    consumes:
      - infores:pubmed
      - infores:pubmed-central
    consumed_by:
      - infores:service-provider-trapi
      - infores:unsecret-agent
  - status: deprecated
    name: Text Mining KP
    id: infores:textmining-kp
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Text%E2%80%90mined-Assertion-KP
    knowledge_level: not_provided
    agent_type: text_mining_agent
  - status: released
    name: Target Illumination GWAS Analytics
    id: infores:tiga
    xref:
      - fairsharing:FAIRsharing.beffb7
      - https://github.com/NCATSTranslator/Translator-All/wiki/TIGA
    synonym:
      - TIGA
    description: >-
      Aggregating and assessing experimental evidence for interpretable,
      explainable, accountable gene-trait associations.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: TISSUES
    id: infores:tissues
    xref:
      - fairsharing:FAIRsharing.yXPvpU
      - https://github.com/NCATSTranslator/Translator-All/wiki/TISSUES
    description: >-
      TISSUES is a weekly updated web resource that integrates evidence on tissue expression  from
      manually curated literature, proteomics and transcriptomics screens, and automatic  text
      mining. We map all evidence to common protein identifiers and Brenda Tissue Ontology  terms,
      and further unify it by assigning confidence scores that facilitate comparison of  the
      different types and sources of evidence. We finally visualize these scores on a  schematic
      human body to provide a convenient overview.
    knowledge_level: mixed
    agent_type: not_provided
  - status: released
    name: Tissue Expression Database
    id: infores:tissues-expression-db
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Tissue-Expression-Database
    synonym:
      - TED
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: NHLBI Trans-Omics for Precision Medicine
    id: infores:topmed
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/NHLBI-Trans-Omics-for-Precision-Medicine
    synonym:
      - TOPMed
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Therapeutic Target Database (TTD)
    id: infores:ttd
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/TTD
    synonym:
      - TTD
    description: >-
      TTD is a database providing information about the known and explored therapeutic protein  and
      nucleic acid targets, the targeted disease, pathway information and the corresponding
      drugs  directed at each of these targets.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:biothings-multiomics-biggim-drugresponse
      - infores:biothings-ttd
      - infores:rtx-kg2
  - status: released
    name: Ubergraph
    id: infores:ubergraph
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/Ubergraph
    description: >-
      A graph representation of Ubergraph, an integration of ontologies including GO, CHEBI,
      Uberon, and HPO.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Uber Anatomy Ontology
    id: infores:uberon
    xref:
      - fairsharing:FAIRsharing.4c0b6b
      - https://github.com/NCATSTranslator/Translator-All/wiki/Uberon
    synonym:
      - Uberon
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:biothings-uberon-ontology
      - infores:rtx-kg2
  - status: released
    name: Unified Medical Language System
    id: infores:umls
    xref:
      - https://www.nlm.nih.gov/research/umls/index.html
    synonym:
      - UMLS
    knowledge_level: knowledge_assertion
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: UMLS Metathesaurus (MTH) (from UMLS)
    id: infores:umls-metathesaurus
    xref:
      - https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/MTH/index.html
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: deprecated
    name: UNC Carolina Data Warehouse for Health Patient EHR Data
    id: infores:unc-cdwh-ehr-data
    xref:
      - https://tracs.unc.edu/index.php/services/informatics-and-data-science/cdw-h
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: UniChem
    id: infores:unichem
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/UniChem
    synonym:
      - unichem
    knowledge_level: logical_entailment
    agent_type: automated_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: Unique Ingredient Identifier
    id: infores:unii
    knowledge_level: not_provided
    agent_type: not_provided
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: UniProt Knowledgebase
    id: infores:uniprot
    xref:
      - fairsharing:FAIRsharing.s1ne3g
      - https://github.com/NCATSTranslator/Translator-All/wiki/UniProt
    synonym:
      - UniProt
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:ebi-proteins
      - infores:molepro
      - infores:rtx-kg2
  - status: released
    name: UniRef
    id: infores:uniref
    xref:
      - https://www.uniprot.org/help/uniref
    synonym:
      - UniRef
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Unsecret Agent OpenAPI for NCATS Biomedical Translator Reasoners
    id: infores:unsecret-agent
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/UnSecret-Agent
    description: >-
      OpenAPI for NCATS Biomedical Translator Reasoners
    knowledge_level: prediction
    agent_type: not_provided
    consumes:
      - infores:robokop-kg
      - infores:rtx-kg2
      - infores:text-mining-provider-targeted
    consumed_by:
      - infores:ars
  - status: released
    name: University of Osnabrueck Molecular Cell Biology Division
    id: infores:uos-mcb
    xref:
      - https://holthuis-lab-uos.de
    synonym:
      - UOS-MCB
    description: >-
      A Gene Ontology Consortium annotation group at the University of
      Osnabrueck, Molecular Cell Biology Division, contributing manual GO
      annotations.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Unified phenotype ontology
    id: infores:upheno
    xref:
      - https://obofoundry.org/ontology/upheno.html
    synonym:
      - uPheno
    description: >-
      The uPheno ontology integrates multiple phenotype ontologies into a
      unified cross-species phenotype ontology.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: United States Census Bureau American Community Survey Data
    id: infores:us-census-acs-data
    xref:
      - https://www.census.gov/programs-surveys/acs/data.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: United States Census Bureau TIGER/line Roadway Data
    id: infores:us-census-tiger-roadway-exposures-data
    xref:
      - http://www.census.gov/geo/maps-data/data/tiger-line.html
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: United States Department of Transportation Roadway Exposures Data
    id: infores:us-dot-roadway-exposures-data
    xref:
      - https://highways.dot.gov/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: deprecated
    name: United States Environmental Protection Agency Airborne Pollutant Exposures Data
    id: infores:us-epa-airborne-pollutant-exposures-data
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Veterans Association National Drug File (VANDF) (from UMLS)
    id: infores:vandf-umls
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/VANDF
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
    consumed_by:
      - infores:rtx-kg2
  - status: released
    name: C. elegans Gross Anatomy Ontology
    id: infores:wbbt
    xref:
      - https://obofoundry.org/ontology/wbbt.html
    synonym:
      - WBBT
    description: >-
      A structured controlled vocabulary of the anatomy of Caenorhabditis elegans.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: C. elegans development ontology
    id: infores:wbls
    xref:
      - https://obofoundry.org/ontology/wbls.html
    synonym:
      - WBls
    description: >-
      A structured controlled vocabulary of the development of Caenorhabditis elegans.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: C. elegans phenotype
    id: infores:wbphenotype
    xref:
      - fairsharing:FAIRsharing.agvc7y
      - https://obofoundry.org/ontology/wbphenotype.html
    synonym:
      - WBPhenotype
    description: >-
      A structured controlled vocabulary of Caenorhabditis elegans phenotypes
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Wikidata
    id: infores:wikidata
    xref:
      - fairsharing:FAIRsharing.6s749p
      - https://wikidata.org
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Wikidata Garbanzo
    id: infores:wikidata-garbanzo
    xref:
      - https://query.wikidata.org
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: WikiPathways
    id: infores:wikipathways
    xref:
      - fairsharing:FAIRsharing.1x53qk
      - https://github.com/NCATSTranslator/Translator-All/wiki/WikiPathways
    description: >-
      WikiPathways is an open science platform for biological pathways contributed, updated,
      and used by the research community.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: World of Molecular Bioactivity - Pharmacokinetics (WOMBAT-PK)
    id: infores:wombat-pk
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/WOMBAT-PK
    description: >-
      The WOrld of Molecular BioAcTivity - PharmacoKinetics (WOMBAT-PK) contained clinical
      pharmacokinetics data curated from literature. The resource does not seem to be directly
      accessible now, but [DrugCentral](https://pmc.ncbi.nlm.nih.gov/articles/PMC10692006/#Sec10)
      reports that it uses this resource as a source of bioactivity data.
    knowledge_level: knowledge_assertion
    agent_type: manual_agent
  - status: released
    name: Translator Workflow Runner
    id: infores:workflow-runner
    xref:
      - https://github.com/NCATSTranslator/Translator-All/wiki/SRI-Workflow-Runner
    description: >-
      Translator general purpose workflow runner
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: WormBase
    id: infores:wormbase
    xref:
      - fairsharing:FAIRsharing.zx1td8
      - http://www.wormbase.org/
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Xenopus Anatomy Ontology
    id: infores:xao
    xref:
      - fairsharing:FAIRsharing.17zapb
      - https://obofoundry.org/ontology/xao.html
    synonym:
      - XAO
    description: >-
      Represents the anatomy and development of the African frogs Xenopus laevis and tropicalis.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Xenbase
    id: infores:xenbase
    xref:
      - https://xenbase.org
    synonym:
      - Xenbase
    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.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Xenopus Phenotype Ontology
    id: infores:xpo
    xref:
      - https://obofoundry.org/ontology/xpo.html
    synonym:
      - XPO
    description: >-
      XPO represents anatomical, cellular, and gene function phenotypes
      occurring throughout the development of the African frogs Xenopus laevis and tropicalis.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Zebrafish anatomy and development ontology
    id: infores:zfa
    xref:
      - https://obofoundry.org/ontology/zfa.html
    synonym:
      - ZFA
    description: >-
      A structured controlled vocabulary of the anatomy and development of
      the Zebrafish
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Zebrafish Information Network
    id: infores:zfin
    xref:
      - https://zfin.org/
    synonym:
      - ZFIN
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Zebrafish Developmental Stages Ontology
    id: infores:zfs
    xref:
      - https://obofoundry.org/ontology/zfs.html
    synonym:
      - ZFS
    description: >-
      An ontology of developmental stages of the Zebrafish (Danio rerio).
    knowledge_level: knowledge_assertion
    agent_type: not_provided
  - status: released
    name: Zebrafish Phenotype Ontology
    id: infores:zp
    xref:
      - https://obofoundry.org/ontology/zp.html
    synonym:
      - ZP
    description: >-
      The Zebrafish Phenotype Ontology formally defines all phenotypes of
      the Zebrafish model organism.
    knowledge_level: knowledge_assertion
    agent_type: not_provided
