{"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\u2019s 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.  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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. 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["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": 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[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\u2122)](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 \u2018small\u2019 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 \u2013 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 \u2018predicted\u2019 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\u2013protein 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\u2013target 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\u2013Pathogen Interaction Database (HPIDB)", "id": "infores:hpidb", "xref": ["https://hpidb.igbb.msstate.edu/"], "description": "Curated host\u2013pathogen 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 \u2018all-by-all\u2019 reference interactome map of human binary protein interactions, or \u2018HuRI\u2019. With approximately 53,000 protein\u2013protein 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\u2013protein 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\u2019s 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\u2013protein 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. 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(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. 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