tooluniverse 0.1.0__py3-none-any.whl
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- tooluniverse/__init__.py +17 -0
- tooluniverse/base_tool.py +32 -0
- tooluniverse/data/__init__.py +0 -0
- tooluniverse/data/fda_drug_labeling_tools.json +6529 -0
- tooluniverse/data/fda_drugs_with_brand_generic_names_for_tool.py +201670 -0
- tooluniverse/data/monarch_tools.json +118 -0
- tooluniverse/data/opentarget_tools.json +1415 -0
- tooluniverse/data/special_tools.json +48 -0
- tooluniverse/execute_function.py +216 -0
- tooluniverse/graphql_tool.py +122 -0
- tooluniverse/openfda_tool.py +421 -0
- tooluniverse/restful_tool.py +95 -0
- tooluniverse/utils.py +172 -0
- tooluniverse-0.1.0.dist-info/METADATA +54 -0
- tooluniverse-0.1.0.dist-info/RECORD +17 -0
- tooluniverse-0.1.0.dist-info/WHEEL +5 -0
- tooluniverse-0.1.0.dist-info/top_level.txt +1 -0
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[
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{
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"name": "get_associated_targets_by_disease_efoId",
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"description": "Find targets associated with a specific disease or phenotype based on efoId.",
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"label": [
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"Disease",
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"Phenotype",
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"Target",
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"Association",
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"OpenTarget",
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"GraphQL"
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],
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"parameter": {
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"type": "object",
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"properties": {
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"efoId": {
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"type": "string",
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"description": "The efoId of a disease or phenotype.",
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"required": true
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}
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}
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},
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"query_schema": "\nquery associatedTargets($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n associatedTargets {\n count\n rows {\n target {\n id\n approvedSymbol\n }\n score\n }\n }\n }\n}\n",
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"type": "OpenTarget"
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},
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{
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"name": "get_associated_diseases_phenotypes_by_target_ensemblID",
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"description": "Find diseases or phenotypes associated with a specific target using ensemblId.",
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"label": [
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"Target",
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"Disease",
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"Phenotype",
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"Association",
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"OpenTarget",
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"GraphQL"
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],
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"parameter": {
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"type": "object",
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"properties": {
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"ensemblId": {
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"type": "string",
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"description": "The ensemblId of a target.",
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"required": true
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}
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}
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},
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"query_schema": "\nquery associatedDiseases($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n associatedDiseases {\n count\n rows {\n disease {\n id\n name\n }\n datasourceScores {\n id\n score\n }\n }\n }\n }\n}\n",
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"type": "OpenTarget"
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},
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{
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"name": "target_disease_evidence",
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"description": "Explore evidence that supports a specific target-disease association. Input is disease efoId and target ensemblID.",
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"label": [
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"Target",
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"Disease",
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"Evidence",
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"Association",
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"OpenTarget",
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"GraphQL"
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],
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"parameter": {
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"type": "object",
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"properties": {
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"efoId": {
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"type": "string",
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"description": "The efoId of a disease or phenotype.",
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"required": true
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},
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"ensemblId": {
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"type": "string",
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"description": "The ensemblId of a target.",
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"required": true
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}
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}
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},
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"query_schema": "\nquery targetDiseaseEvidence($efoId: String!, $ensemblId: String!) {\n disease(efoId: $efoId) {\n id\n name\n evidences(datasourceIds: [\"intogen\"], ensemblIds: [$ensemblId]) {\n count\n rows {\n disease {\n id\n name\n }\n diseaseFromSource\n target {\n id\n approvedSymbol\n }\n mutatedSamples {\n functionalConsequence {\n id\n label\n }\n numberSamplesTested\n numberMutatedSamples\n }\n resourceScore\n significantDriverMethods\n cohortId\n cohortShortName\n cohortDescription\n }\n }\n }\n}\n",
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"type": "OpenTarget"
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},
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{
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"name": "get_drug_warnings_by_chemblId",
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"description": "Retrieve warnings for a specific drug using ChEMBL ID.",
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"parameter": {
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"type": "object",
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"properties": {
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"chemblId": {
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"type": "string",
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"description": "The ChEMBL ID of the drug.",
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"required": true
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}
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}
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},
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"query_schema": "\n query drugWarnings($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n drugWarnings {\n warningType\n description\n country\n year\n toxicityClass\n chemblIds\n efoIdForWarningClass\n references {\n id\n source\n url\n }\n }\n }\n }\n ",
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"label": [
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"Drug",
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"AdverseEvents",
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"SafetyLiability",
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"OpenTarget",
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"GraphQL",
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"Warnings",
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"Safety",
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"Withdrawal",
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"Toxicity"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_drug_mechanisms_of_action_by_chemblId",
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"description": "Retrieve the mechanisms of action associated with a specific drug using chemblId.",
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"parameter": {
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"type": "object",
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"properties": {
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"chemblId": {
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"type": "string",
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"description": "The ChEMBL ID of the drug.",
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"required": true
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}
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}
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},
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"query_schema": "\n query drugMechanismsOfAction($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n mechanismsOfAction {\n rows {\n mechanismOfAction\n actionType\n targetName\n targets {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
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"label": [
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"Drug",
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"MechanismsOfAction",
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"Target",
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"Pharmacology",
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"ChemblId",
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"OpenTarget",
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"GraphQL"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_associated_drugs_by_disease_efoId",
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"description": "Retrieve known drugs associated with a specific disease by disease efoId.",
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"parameter": {
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"type": "object",
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"properties": {
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"efoId": {
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"type": "string",
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"description": "The EFO ID of the disease.",
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"required": true
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},
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"size": {
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"type": "integer",
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"description": "Number of entries to fetch, recomanding a large number to avoid missing drugs.",
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"required": true
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}
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}
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},
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"query_schema": "\n query diseaseKnownDrugs($efoId: String!, $size: Int!, $freeTextQuery: String) {\n disease(efoId: $efoId) {\n id\n name\n knownDrugs(size: $size, freeTextQuery: $freeTextQuery) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n }\n ",
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"label": [
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"OpenTarget",
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"Disease",
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"Drug",
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"Pagination",
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"GraphQL"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_similar_entities_by_disease_efoId",
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"description": "Retrieve similar entities for a given disease efoId using a model trained with PubMed.",
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"parameter": {
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"type": "object",
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"properties": {
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"efoId": {
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"type": "string",
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"description": "The EFO ID of the disease.",
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"required": true
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},
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"threshold": {
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"type": "number",
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"description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
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"required": true
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},
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"size": {
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"type": "integer",
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"description": "Number of similar entities to fetch.",
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"required": true
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}
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}
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},
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"query_schema": "\n query diseaseSimilarEntities($efoId: String!, $threshold: Float!, $size: Int!) {\n disease(efoId: $efoId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
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"label": [
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"Disease",
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"Similarity",
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"Model",
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"Entities",
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"OpenTarget",
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"GraphQL"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_similar_entities_by_drug_chemblId",
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"description": "Retrieve similar entities for a given drug chemblId using a model trained with PubMed.",
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"parameter": {
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"type": "object",
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"properties": {
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"chemblId": {
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"type": "string",
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"description": "The chemblId of the disease.",
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"required": true
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},
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"threshold": {
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"type": "number",
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"description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
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"required": true
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},
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"size": {
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"type": "integer",
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"description": "Number of similar entities to fetch.",
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"required": true
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}
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}
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},
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"query_schema": "\n query diseaseSimilarEntities($chemblId: String!, $threshold: Float!, $size: Int!) {\n drug(chemblId: $chemblId) {\n id\n name\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
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"label": [
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"Drug",
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"Similarity",
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"Model",
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"Entities",
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"OpenTarget",
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"GraphQL"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_similar_entities_by_target_ensemblID",
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"description": "Retrieve similar entities for a given target ensemblID using a model trained with PubMed.",
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"parameter": {
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"type": "object",
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"properties": {
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"ensemblId": {
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"type": "string",
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"description": "The ensemblID of the disease.",
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"required": true
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},
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"threshold": {
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"type": "number",
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"description": "Threshold similarity between 0 and 1. Only results above threshold are returned.",
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"required": true
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},
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"size": {
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"type": "integer",
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"description": "Number of similar entities to fetch.",
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"required": true
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}
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}
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},
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"query_schema": "\n query diseaseSimilarEntities($ensemblId: String!, $threshold: Float!, $size: Int!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n similarEntities(threshold: $threshold, size: $size) {\n id\n category\n score\n object {\n ... on Disease {\n id\n name\n }\n ... on Target {\n id\n approvedSymbol\n }\n ... on Drug {\n id\n name\n }\n }\n }\n }\n }\n ",
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"label": [
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"Disease",
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"Similarity",
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"Model",
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"Entities",
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"OpenTarget",
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"GraphQL"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_associated_phenotypes_by_disease_efoId",
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"description": "Find HPO phenotypes asosciated with the specified disease efoId.",
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"parameter": {
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"type": "object",
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"properties": {
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"efoId": {
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"type": "string",
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"description": "The efoId of a disease or phenotype.",
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"required": true
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}
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}
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},
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"query_schema": "query diseaseAnnotation($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n phenotypes {\n rows {\n phenotypeHPO {\n id\n name\n description\n namespace\n }\n phenotypeEFO {\n id\n name\n }\n }\n }\n }\n}",
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"label": [
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"Disease",
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"OpenTarget",
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"GraphQL",
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"Phenotype",
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"Symptoms",
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"Clinical signs"
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],
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"type": "OpenTarget"
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},
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{
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"name": "get_drug_withdrawn_blackbox_status_by_chemblId",
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"description": "Find withdrawn and black-box warning statuses for a specific drug by chemblId.",
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"parameter": {
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"type": "object",
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"properties": {
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"chemblId": {
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"type": "array",
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"items": {
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"type": "string"
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},
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"description": "The chemblId of a drug.",
|
|
297
|
+
"required": true
|
|
298
|
+
}
|
|
299
|
+
}
|
|
300
|
+
},
|
|
301
|
+
"query_schema": "\n query drugWithdrawnWarningData($chemblId: String!) {\n drug(chemblId: $chemblId) {\n name\n id\n hasBeenWithdrawn\n blackBoxWarning\n }\n }\n ",
|
|
302
|
+
"label": [
|
|
303
|
+
"Drug",
|
|
304
|
+
"SafetyWarnings",
|
|
305
|
+
"Withdrawal",
|
|
306
|
+
"OpenTarget",
|
|
307
|
+
"GraphQL"
|
|
308
|
+
],
|
|
309
|
+
"type": "OpenTarget"
|
|
310
|
+
},
|
|
311
|
+
{
|
|
312
|
+
"name": "search_category_counts_by_query_string",
|
|
313
|
+
"description": "Get the count of entries in each entity category (disease, target, drug) based on a query string.",
|
|
314
|
+
"parameter": {
|
|
315
|
+
"type": "object",
|
|
316
|
+
"properties": {
|
|
317
|
+
"queryString": {
|
|
318
|
+
"type": "string",
|
|
319
|
+
"description": "The search string for querying information.",
|
|
320
|
+
"required": true
|
|
321
|
+
}
|
|
322
|
+
}
|
|
323
|
+
},
|
|
324
|
+
"query_schema": "\n query searchCategoryCounts($queryString: String!) {\n search(queryString: $queryString) {\n aggregations {\n total\n entities {\n total\n name\n }\n }\n }\n }\n ",
|
|
325
|
+
"label": [
|
|
326
|
+
"OpenTarget",
|
|
327
|
+
"GraphQL",
|
|
328
|
+
"SearchResults",
|
|
329
|
+
"Search",
|
|
330
|
+
"Query",
|
|
331
|
+
"Counts",
|
|
332
|
+
"Categories"
|
|
333
|
+
],
|
|
334
|
+
"type": "OpenTarget"
|
|
335
|
+
},
|
|
336
|
+
{
|
|
337
|
+
"name": "get_disease_id_description_by_name",
|
|
338
|
+
"description": "Retrieve the efoId and additional details of a disease based on its name.",
|
|
339
|
+
"parameter": {
|
|
340
|
+
"type": "object",
|
|
341
|
+
"properties": {
|
|
342
|
+
"diseaseName": {
|
|
343
|
+
"type": "string",
|
|
344
|
+
"description": "The name of the disease to search for.",
|
|
345
|
+
"required": true
|
|
346
|
+
}
|
|
347
|
+
}
|
|
348
|
+
},
|
|
349
|
+
"query_schema": "\n query getDiseaseIdByName($diseaseName: String!) {\n search(queryString: $diseaseName, entityNames: [\"disease\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
|
|
350
|
+
"label": [
|
|
351
|
+
"Disease",
|
|
352
|
+
"Identification",
|
|
353
|
+
"Search",
|
|
354
|
+
"Name",
|
|
355
|
+
"Disease",
|
|
356
|
+
"OpenTarget",
|
|
357
|
+
"GraphQL"
|
|
358
|
+
],
|
|
359
|
+
"type": "OpenTarget"
|
|
360
|
+
},
|
|
361
|
+
{
|
|
362
|
+
"name": "get_drug_id_description_by_name",
|
|
363
|
+
"description": "Fetch the drug chemblId and description based on the drug name.",
|
|
364
|
+
"parameter": {
|
|
365
|
+
"type": "object",
|
|
366
|
+
"properties": {
|
|
367
|
+
"drugName": {
|
|
368
|
+
"type": "string",
|
|
369
|
+
"description": "The name of the drug for which the ID is required.",
|
|
370
|
+
"required": true
|
|
371
|
+
}
|
|
372
|
+
}
|
|
373
|
+
},
|
|
374
|
+
"query_schema": "\n query getDrugIdByName($drugName: String!) {\n search(queryString: $drugName, entityNames: [\"drug\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
|
|
375
|
+
"label": [
|
|
376
|
+
"Identification",
|
|
377
|
+
"Search",
|
|
378
|
+
"Name",
|
|
379
|
+
"Drug",
|
|
380
|
+
"OpenTarget",
|
|
381
|
+
"GraphQL"
|
|
382
|
+
],
|
|
383
|
+
"type": "OpentargetToolDrugNameMatch"
|
|
384
|
+
},
|
|
385
|
+
{
|
|
386
|
+
"name": "get_drug_indications_by_chemblId",
|
|
387
|
+
"description": "Fetch indications (treatable phenotypes/diseases) for a given drug chemblId.",
|
|
388
|
+
"parameter": {
|
|
389
|
+
"type": "object",
|
|
390
|
+
"properties": {
|
|
391
|
+
"chemblId": {
|
|
392
|
+
"type": "string",
|
|
393
|
+
"description": "The chemblId of the drug for which to retrieve treatable phenotypes information.",
|
|
394
|
+
"required": true
|
|
395
|
+
}
|
|
396
|
+
}
|
|
397
|
+
},
|
|
398
|
+
"query_schema": "\n query drugIndications($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n indications {\n rows {\n disease {\n id\n name\n }\n maxPhaseForIndication\n references {\n source\n }\n }\n }\n }\n }\n ",
|
|
399
|
+
"label": [
|
|
400
|
+
"Drug",
|
|
401
|
+
"Indications",
|
|
402
|
+
"Disease",
|
|
403
|
+
"Treatment",
|
|
404
|
+
"OpenTarget",
|
|
405
|
+
"GraphQL"
|
|
406
|
+
],
|
|
407
|
+
"type": "OpenTarget"
|
|
408
|
+
},
|
|
409
|
+
{
|
|
410
|
+
"name": "get_target_gene_ontology_by_ensemblID",
|
|
411
|
+
"description": "Retrieve Gene Ontology annotations for a specific target by Ensembl ID.",
|
|
412
|
+
"parameter": {
|
|
413
|
+
"type": "object",
|
|
414
|
+
"properties": {
|
|
415
|
+
"ensemblId": {
|
|
416
|
+
"type": "string",
|
|
417
|
+
"description": "The Ensembl ID of the target for which to retrieve Gene Ontology annotations.",
|
|
418
|
+
"required": true
|
|
419
|
+
}
|
|
420
|
+
}
|
|
421
|
+
},
|
|
422
|
+
"query_schema": "\n query targetGeneOntology($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneOntology {\n aspect\n evidence\n geneProduct\n source\n term {\n id\n name\n }\n }\n }\n }\n ",
|
|
423
|
+
"label": [
|
|
424
|
+
"Target",
|
|
425
|
+
"GeneOntology",
|
|
426
|
+
"OpenTarget",
|
|
427
|
+
"GraphQL"
|
|
428
|
+
],
|
|
429
|
+
"type": "OpenTarget"
|
|
430
|
+
},
|
|
431
|
+
{
|
|
432
|
+
"name": "get_target_homologues_by_ensemblID",
|
|
433
|
+
"description": "Fetch homologues for a specific target by Ensembl ID.",
|
|
434
|
+
"parameter": {
|
|
435
|
+
"type": "object",
|
|
436
|
+
"properties": {
|
|
437
|
+
"ensemblId": {
|
|
438
|
+
"type": "string",
|
|
439
|
+
"description": "The Ensembl ID of the target for which to retrieve homologues.",
|
|
440
|
+
"required": true
|
|
441
|
+
}
|
|
442
|
+
}
|
|
443
|
+
},
|
|
444
|
+
"query_schema": "\n query targetHomologues($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n homologues {\n homologyType\n queryPercentageIdentity\n speciesId\n speciesName\n targetGeneId\n targetGeneSymbol\n targetPercentageIdentity\n isHighConfidence\n }\n }\n }\n ",
|
|
445
|
+
"label": [
|
|
446
|
+
"OpenTarget",
|
|
447
|
+
"Target Information",
|
|
448
|
+
"GraphQL",
|
|
449
|
+
"Homologue"
|
|
450
|
+
],
|
|
451
|
+
"type": "OpenTarget"
|
|
452
|
+
},
|
|
453
|
+
{
|
|
454
|
+
"name": "get_target_safety_profile_by_ensemblID",
|
|
455
|
+
"description": "Retrieve known target safety liabilities for a specific target Ensembl ID.",
|
|
456
|
+
"parameter": {
|
|
457
|
+
"type": "object",
|
|
458
|
+
"properties": {
|
|
459
|
+
"ensemblId": {
|
|
460
|
+
"type": "string",
|
|
461
|
+
"description": "The Ensembl ID of the target for which to retrieve safety liabilities.",
|
|
462
|
+
"required": true
|
|
463
|
+
}
|
|
464
|
+
}
|
|
465
|
+
},
|
|
466
|
+
"query_schema": "\n query targetSafetyLiabilities($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n safetyLiabilities {\n event\n eventId\n biosamples {\n cellFormat\n cellLabel\n tissueLabel\n tissueId\n }\n effects {\n dosing\n direction\n }\n studies {\n name\n type\n description\n }\n datasource\n literature\n }\n }\n }\n ",
|
|
467
|
+
"label": [
|
|
468
|
+
"Target",
|
|
469
|
+
"SafetyLiability",
|
|
470
|
+
"OpenTarget",
|
|
471
|
+
"GraphQL",
|
|
472
|
+
"Safety",
|
|
473
|
+
"Liabilities"
|
|
474
|
+
],
|
|
475
|
+
"type": "OpenTarget"
|
|
476
|
+
},
|
|
477
|
+
{
|
|
478
|
+
"name": "get_biological_mouse_models_by_ensemblID",
|
|
479
|
+
"description": "Retrieve biological mouse models, including allelic compositions and genetic backgrounds, for a specific target.",
|
|
480
|
+
"parameter": {
|
|
481
|
+
"type": "object",
|
|
482
|
+
"properties": {
|
|
483
|
+
"ensemblId": {
|
|
484
|
+
"type": "string",
|
|
485
|
+
"description": "The Ensembl ID of the target.",
|
|
486
|
+
"required": true
|
|
487
|
+
}
|
|
488
|
+
}
|
|
489
|
+
},
|
|
490
|
+
"query_schema": "\n query fetchBiologicalModels($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n mousePhenotypes {\n biologicalModels {\n allelicComposition\n geneticBackground\n id\n literature\n }\n }\n }\n }\n ",
|
|
491
|
+
"label": [
|
|
492
|
+
"OpenTarget",
|
|
493
|
+
"Target Information",
|
|
494
|
+
"BiologicalModels",
|
|
495
|
+
"GraphQL"
|
|
496
|
+
],
|
|
497
|
+
"type": "OpenTarget"
|
|
498
|
+
},
|
|
499
|
+
{
|
|
500
|
+
"name": "get_target_genomic_location_by_ensemblID",
|
|
501
|
+
"description": "Retrieve genomic location data for a specific target, including chromosome, start, end, and strand.",
|
|
502
|
+
"parameter": {
|
|
503
|
+
"type": "object",
|
|
504
|
+
"properties": {
|
|
505
|
+
"ensemblId": {
|
|
506
|
+
"type": "string",
|
|
507
|
+
"description": "The Ensembl ID of the target for which to retrieve genomic location information.",
|
|
508
|
+
"required": true
|
|
509
|
+
}
|
|
510
|
+
}
|
|
511
|
+
},
|
|
512
|
+
"query_schema": "\n query targetGenomicLocation($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n genomicLocation {\n chromosome\n start\n end\n strand\n }\n }\n }\n ",
|
|
513
|
+
"label": [
|
|
514
|
+
"Target",
|
|
515
|
+
"GenomicLocation",
|
|
516
|
+
"OpenTarget",
|
|
517
|
+
"GraphQL"
|
|
518
|
+
],
|
|
519
|
+
"type": "OpenTarget"
|
|
520
|
+
},
|
|
521
|
+
{
|
|
522
|
+
"name": "get_target_subcellular_locations_by_ensemblID",
|
|
523
|
+
"description": "Retrieve information about subcellular locations for a specific target ensemblID.",
|
|
524
|
+
"parameter": {
|
|
525
|
+
"type": "object",
|
|
526
|
+
"properties": {
|
|
527
|
+
"ensemblId": {
|
|
528
|
+
"type": "string",
|
|
529
|
+
"description": "The ensemblId of a target.",
|
|
530
|
+
"required": true
|
|
531
|
+
}
|
|
532
|
+
}
|
|
533
|
+
},
|
|
534
|
+
"query_schema": "\n query targetSubcellularLocations($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n subcellularLocations {\n location\n source\n termSL\n labelSL\n }\n }\n }\n ",
|
|
535
|
+
"label": [
|
|
536
|
+
"Target",
|
|
537
|
+
"Subcellular Locations",
|
|
538
|
+
"GraphQL",
|
|
539
|
+
"OpenTarget"
|
|
540
|
+
],
|
|
541
|
+
"type": "OpenTarget"
|
|
542
|
+
},
|
|
543
|
+
{
|
|
544
|
+
"name": "get_target_synonyms_by_ensemblID",
|
|
545
|
+
"description": "Retrieve synonyms for specified target, including alternative names and symbols, using given ensemblID.",
|
|
546
|
+
"parameter": {
|
|
547
|
+
"type": "object",
|
|
548
|
+
"properties": {
|
|
549
|
+
"ensemblId": {
|
|
550
|
+
"type": "string",
|
|
551
|
+
"description": "The Ensembl ID of the target.",
|
|
552
|
+
"required": true
|
|
553
|
+
}
|
|
554
|
+
}
|
|
555
|
+
},
|
|
556
|
+
"query_schema": "\n query retrieveTargetSynonyms($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n synonyms {\n label\n source\n }\n symbolSynonyms {\n label\n source\n }\n nameSynonyms {\n label\n source\n }\n }\n }\n ",
|
|
557
|
+
"label": [
|
|
558
|
+
"OpenTarget",
|
|
559
|
+
"Target Information",
|
|
560
|
+
"GraphQL",
|
|
561
|
+
"Target"
|
|
562
|
+
],
|
|
563
|
+
"type": "OpenTarget"
|
|
564
|
+
},
|
|
565
|
+
{
|
|
566
|
+
"name": "get_target_tractability_by_ensemblID",
|
|
567
|
+
"description": "Retrieve tractability assessments, including modality and values, for a specific target ensembl ID.",
|
|
568
|
+
"parameter": {
|
|
569
|
+
"type": "object",
|
|
570
|
+
"properties": {
|
|
571
|
+
"ensemblId": {
|
|
572
|
+
"type": "string",
|
|
573
|
+
"description": "The Ensembl ID of the target.",
|
|
574
|
+
"required": true
|
|
575
|
+
}
|
|
576
|
+
}
|
|
577
|
+
},
|
|
578
|
+
"query_schema": "\n query targetTractabilityAssessment($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tractability {\n label\n modality\n value\n }\n }\n }\n ",
|
|
579
|
+
"label": [
|
|
580
|
+
"Target",
|
|
581
|
+
"Tractability",
|
|
582
|
+
"OpenTarget",
|
|
583
|
+
"Target Information",
|
|
584
|
+
"GraphQL"
|
|
585
|
+
],
|
|
586
|
+
"type": "OpenTarget"
|
|
587
|
+
},
|
|
588
|
+
{
|
|
589
|
+
"name": "get_target_classes_by_ensemblID",
|
|
590
|
+
"description": "Retrieve the target classes associated with a specific target ensemblID.",
|
|
591
|
+
"parameter": {
|
|
592
|
+
"type": "object",
|
|
593
|
+
"properties": {
|
|
594
|
+
"ensemblId": {
|
|
595
|
+
"type": "string",
|
|
596
|
+
"description": "The Ensembl ID of the target.",
|
|
597
|
+
"required": true
|
|
598
|
+
}
|
|
599
|
+
}
|
|
600
|
+
},
|
|
601
|
+
"query_schema": "\n query fetchTargetClasses($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n targetClass {\n id\n label\n level\n }\n }\n }\n ",
|
|
602
|
+
"label": [
|
|
603
|
+
"OpenTarget",
|
|
604
|
+
"Target Information",
|
|
605
|
+
"GraphQL",
|
|
606
|
+
"Target"
|
|
607
|
+
],
|
|
608
|
+
"type": "OpenTarget"
|
|
609
|
+
},
|
|
610
|
+
{
|
|
611
|
+
"name": "get_target_enabling_packages_by_ensemblID",
|
|
612
|
+
"description": "Retrieve the Target Enabling Packages (TEP) associated with a specific target ensemblID.",
|
|
613
|
+
"parameter": {
|
|
614
|
+
"type": "object",
|
|
615
|
+
"properties": {
|
|
616
|
+
"ensemblId": {
|
|
617
|
+
"type": "string",
|
|
618
|
+
"description": "The Ensembl ID of the target.",
|
|
619
|
+
"required": true
|
|
620
|
+
}
|
|
621
|
+
}
|
|
622
|
+
},
|
|
623
|
+
"query_schema": "\n query fetchTargetEnablingPackages($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n tep {\n name\n uri\n therapeuticArea\n description\n }\n }\n }\n ",
|
|
624
|
+
"label": [
|
|
625
|
+
"OpenTarget",
|
|
626
|
+
"Target Information",
|
|
627
|
+
"GraphQL",
|
|
628
|
+
"Target"
|
|
629
|
+
],
|
|
630
|
+
"type": "OpenTarget"
|
|
631
|
+
},
|
|
632
|
+
{
|
|
633
|
+
"name": "get_target_interactions_by_ensemblID",
|
|
634
|
+
"description": "Retrieve interaction data for a specific target ensemblID, including interaction partners and evidence.",
|
|
635
|
+
"label": [
|
|
636
|
+
"Target",
|
|
637
|
+
"Interaction",
|
|
638
|
+
"Evidence",
|
|
639
|
+
"GraphQL",
|
|
640
|
+
"Pagination",
|
|
641
|
+
"OpenTarget"
|
|
642
|
+
],
|
|
643
|
+
"parameter": {
|
|
644
|
+
"type": "object",
|
|
645
|
+
"properties": {
|
|
646
|
+
"ensemblId": {
|
|
647
|
+
"type": "string",
|
|
648
|
+
"description": "The Ensembl ID of the target.",
|
|
649
|
+
"required": true
|
|
650
|
+
},
|
|
651
|
+
"page": {
|
|
652
|
+
"type": "object",
|
|
653
|
+
"properties": {
|
|
654
|
+
"index": {
|
|
655
|
+
"type": "integer",
|
|
656
|
+
"description": "The index of the page to retrieve.",
|
|
657
|
+
"required": true
|
|
658
|
+
},
|
|
659
|
+
"size": {
|
|
660
|
+
"type": "integer",
|
|
661
|
+
"description": "The number of items per page.",
|
|
662
|
+
"required": true
|
|
663
|
+
}
|
|
664
|
+
},
|
|
665
|
+
"description": "Pagination parameters.",
|
|
666
|
+
"required": false
|
|
667
|
+
}
|
|
668
|
+
}
|
|
669
|
+
},
|
|
670
|
+
"query_schema": "\n query targetInteractions($ensemblId: String!, $page: Pagination!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n interactions(page: $page) {\n count\n rows {\n intA\n targetA {\n id\n approvedSymbol\n }\n intB\n targetB {\n id\n approvedSymbol\n }\n score\n sourceDatabase\n evidences {\n evidenceScore\n pubmedId\n interactionDetectionMethodShortName\n }\n }\n }\n }\n }\n ",
|
|
671
|
+
"type": "OpenTarget"
|
|
672
|
+
},
|
|
673
|
+
{
|
|
674
|
+
"name": "get_disease_ancestors_parents_by_efoId",
|
|
675
|
+
"description": "Retrieve the disease ancestors and parents in the ontology using the disease EFO ID.",
|
|
676
|
+
"parameter": {
|
|
677
|
+
"type": "object",
|
|
678
|
+
"properties": {
|
|
679
|
+
"efoId": {
|
|
680
|
+
"type": "string",
|
|
681
|
+
"description": "The EFO ID of the disease.",
|
|
682
|
+
"required": true
|
|
683
|
+
}
|
|
684
|
+
}
|
|
685
|
+
},
|
|
686
|
+
"query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n ancestors\n parents {\n id\n name\n }\n }\n }\n ",
|
|
687
|
+
"label": [
|
|
688
|
+
"OpenTarget",
|
|
689
|
+
"Disease",
|
|
690
|
+
"Disease Information",
|
|
691
|
+
"GraphQL"
|
|
692
|
+
],
|
|
693
|
+
"type": "OpenTarget"
|
|
694
|
+
},
|
|
695
|
+
{
|
|
696
|
+
"name": "get_disease_descendants_children_by_efoId",
|
|
697
|
+
"description": "Retrieve the disease descendants and children in the ontology using the disease EFO ID.",
|
|
698
|
+
"parameter": {
|
|
699
|
+
"type": "object",
|
|
700
|
+
"properties": {
|
|
701
|
+
"efoId": {
|
|
702
|
+
"type": "string",
|
|
703
|
+
"description": "The EFO ID of the disease.",
|
|
704
|
+
"required": true
|
|
705
|
+
}
|
|
706
|
+
}
|
|
707
|
+
},
|
|
708
|
+
"query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n descendants\n children {\n id\n name\n }\n }\n }\n",
|
|
709
|
+
"label": [
|
|
710
|
+
"OpenTarget",
|
|
711
|
+
"Disease",
|
|
712
|
+
"Disease Information",
|
|
713
|
+
"GraphQL"
|
|
714
|
+
],
|
|
715
|
+
"type": "OpenTarget"
|
|
716
|
+
},
|
|
717
|
+
{
|
|
718
|
+
"name": "get_disease_locations_by_efoId",
|
|
719
|
+
"description": "Retrieve the disease's direct location and indirect location disease terms and IDs using the disease EFO ID.",
|
|
720
|
+
"parameter": {
|
|
721
|
+
"type": "object",
|
|
722
|
+
"properties": {
|
|
723
|
+
"efoId": {
|
|
724
|
+
"type": "string",
|
|
725
|
+
"description": "The EFO ID of the disease.",
|
|
726
|
+
"required": true
|
|
727
|
+
}
|
|
728
|
+
}
|
|
729
|
+
},
|
|
730
|
+
"query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n directLocationIds\n indirectLocationIds\n directLocations {\n id\n name\n }\n indirectLocations {\n id\n name\n }\n }\n }\n ",
|
|
731
|
+
"label": [
|
|
732
|
+
"OpenTarget",
|
|
733
|
+
"Disease",
|
|
734
|
+
"Disease Information",
|
|
735
|
+
"GraphQL"
|
|
736
|
+
],
|
|
737
|
+
"type": "OpenTarget"
|
|
738
|
+
},
|
|
739
|
+
{
|
|
740
|
+
"name": "get_disease_synonyms_by_efoId",
|
|
741
|
+
"description": "Retrieve disease synonyms by its EFO ID.",
|
|
742
|
+
"parameter": {
|
|
743
|
+
"type": "object",
|
|
744
|
+
"properties": {
|
|
745
|
+
"efoId": {
|
|
746
|
+
"type": "string",
|
|
747
|
+
"description": "The EFO ID of the disease.",
|
|
748
|
+
"required": true
|
|
749
|
+
}
|
|
750
|
+
}
|
|
751
|
+
},
|
|
752
|
+
"query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n synonyms {\n relation\n terms\n }\n }\n }\n",
|
|
753
|
+
"label": [
|
|
754
|
+
"OpenTarget",
|
|
755
|
+
"Disease",
|
|
756
|
+
"Disease Information",
|
|
757
|
+
"GraphQL"
|
|
758
|
+
],
|
|
759
|
+
"type": "OpenTarget"
|
|
760
|
+
},
|
|
761
|
+
{
|
|
762
|
+
"name": "get_disease_description_by_efoId",
|
|
763
|
+
"description": "Retrieve disease description, name, database cros references, obsolete terms, and whether it's a therapeutic area, all using the specified efoId.",
|
|
764
|
+
"parameter": {
|
|
765
|
+
"type": "object",
|
|
766
|
+
"properties": {
|
|
767
|
+
"efoId": {
|
|
768
|
+
"type": "string",
|
|
769
|
+
"description": "The EFO ID of the disease.",
|
|
770
|
+
"required": true
|
|
771
|
+
}
|
|
772
|
+
}
|
|
773
|
+
},
|
|
774
|
+
"query_schema": "\n query getDiseaseDetailsByEfoId($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n description\n dbXRefs\n obsoleteTerms\n isTherapeuticArea\n }\n }\n ",
|
|
775
|
+
"label": [
|
|
776
|
+
"OpenTarget",
|
|
777
|
+
"Disease",
|
|
778
|
+
"Disease Information",
|
|
779
|
+
"GraphQL"
|
|
780
|
+
],
|
|
781
|
+
"type": "OpenTarget"
|
|
782
|
+
},
|
|
783
|
+
{
|
|
784
|
+
"name": "get_disease_therapeutic_areas_by_efoId",
|
|
785
|
+
"description": "Retrieve the therapeutic areas associated with a specific disease efoId.",
|
|
786
|
+
"parameter": {
|
|
787
|
+
"type": "object",
|
|
788
|
+
"properties": {
|
|
789
|
+
"efoId": {
|
|
790
|
+
"type": "string",
|
|
791
|
+
"description": "The EFO ID of the disease.",
|
|
792
|
+
"required": true
|
|
793
|
+
}
|
|
794
|
+
}
|
|
795
|
+
},
|
|
796
|
+
"query_schema": "\n query diseaseTherapeuticAreas($efoId: String!) {\n disease(efoId: $efoId) {\n id\n name\n therapeuticAreas {\n id\n name\n }\n }\n }\n ",
|
|
797
|
+
"label": [
|
|
798
|
+
"OpenTarget",
|
|
799
|
+
"Disease",
|
|
800
|
+
"TherapeuticArea",
|
|
801
|
+
"GraphQL"
|
|
802
|
+
],
|
|
803
|
+
"type": "OpenTarget"
|
|
804
|
+
},
|
|
805
|
+
{
|
|
806
|
+
"name": "get_drug_adverse_events_by_chemblId",
|
|
807
|
+
"description": "Retrieve significant adverse events reported for a specific drug chemblId.",
|
|
808
|
+
"parameter": {
|
|
809
|
+
"type": "object",
|
|
810
|
+
"properties": {
|
|
811
|
+
"chemblId": {
|
|
812
|
+
"type": "string",
|
|
813
|
+
"description": "The ChEMBL ID of the drug.",
|
|
814
|
+
"required": true
|
|
815
|
+
},
|
|
816
|
+
"page": {
|
|
817
|
+
"type": "object",
|
|
818
|
+
"properties": {
|
|
819
|
+
"index": {
|
|
820
|
+
"type": "integer",
|
|
821
|
+
"description": "Index of the page to fetch, starting from 0.",
|
|
822
|
+
"required": true
|
|
823
|
+
},
|
|
824
|
+
"size": {
|
|
825
|
+
"type": "integer",
|
|
826
|
+
"description": "Number of entries per page.",
|
|
827
|
+
"required": true
|
|
828
|
+
}
|
|
829
|
+
},
|
|
830
|
+
"description": "Pagination settings.",
|
|
831
|
+
"required": false
|
|
832
|
+
}
|
|
833
|
+
}
|
|
834
|
+
},
|
|
835
|
+
"query_schema": "\n query drugAdverseEvents($chemblId: String!, $page: Pagination!) {\n drug(chemblId: $chemblId) {\n id\n name\n adverseEvents(page: $page) {\n count\n criticalValue\n rows {\n name\n meddraCode\n count\n logLR\n }\n }\n }\n }\n ",
|
|
836
|
+
"label": [
|
|
837
|
+
"Drug",
|
|
838
|
+
"AdverseEvents",
|
|
839
|
+
"Safety",
|
|
840
|
+
"Reporting",
|
|
841
|
+
"Pagination",
|
|
842
|
+
"OpenTarget",
|
|
843
|
+
"GraphQL",
|
|
844
|
+
"AdverseEvents"
|
|
845
|
+
],
|
|
846
|
+
"type": "OpenTarget"
|
|
847
|
+
},
|
|
848
|
+
{
|
|
849
|
+
"name": "get_known_drugs_by_drug_chemblId",
|
|
850
|
+
"description": "Get a list of known drugs and associated information using the specified chemblId.",
|
|
851
|
+
"parameter": {
|
|
852
|
+
"type": "object",
|
|
853
|
+
"properties": {
|
|
854
|
+
"chemblId": {
|
|
855
|
+
"type": "string",
|
|
856
|
+
"description": "The ChEMBL ID of the drug.",
|
|
857
|
+
"required": true
|
|
858
|
+
}
|
|
859
|
+
}
|
|
860
|
+
},
|
|
861
|
+
"query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n knownDrugs {\n uniqueDrugs\n uniqueDiseases\n uniqueTargets\n count\n cursor\n rows {\n approvedSymbol\n approvedName\n label\n prefName\n drugType\n targetId\n diseaseId\n drugId\n phase\n mechanismOfAction\n status\n targetClass\n references {\n source\n ids\n urls\n }\n ctIds\n urls {\n url\n name\n }\n disease {\n id\n name\n }\n target {\n id\n approvedSymbol\n }\n drug {\n id\n name\n }\n }\n }\n }\n }\n ",
|
|
862
|
+
"label": [
|
|
863
|
+
"OpenTarget",
|
|
864
|
+
"Drug",
|
|
865
|
+
"Drug Information",
|
|
866
|
+
"GraphQL"
|
|
867
|
+
],
|
|
868
|
+
"type": "OpenTarget"
|
|
869
|
+
},
|
|
870
|
+
{
|
|
871
|
+
"name": "get_parent_child_molecules_by_drug_chembl_ID",
|
|
872
|
+
"description": "Get parent and child molecules of specified drug chemblId.",
|
|
873
|
+
"parameter": {
|
|
874
|
+
"type": "object",
|
|
875
|
+
"properties": {
|
|
876
|
+
"chemblId": {
|
|
877
|
+
"type": "string",
|
|
878
|
+
"description": "The ChEMBL ID of the drug.",
|
|
879
|
+
"required": true
|
|
880
|
+
}
|
|
881
|
+
}
|
|
882
|
+
},
|
|
883
|
+
"query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n parentMolecule {\n id\n name\n }\n childMolecules {\n id\n name\n }\n }\n }\n ",
|
|
884
|
+
"label": [
|
|
885
|
+
"OpenTarget",
|
|
886
|
+
"Drug",
|
|
887
|
+
"Drug Information",
|
|
888
|
+
"GraphQL"
|
|
889
|
+
],
|
|
890
|
+
"type": "OpenTarget"
|
|
891
|
+
},
|
|
892
|
+
{
|
|
893
|
+
"name": "get_approved_indications_by_drug_chemblId",
|
|
894
|
+
"description": "Retrieve detailed information about multiple drugs using a list of ChEMBL IDs.",
|
|
895
|
+
"parameter": {
|
|
896
|
+
"type": "object",
|
|
897
|
+
"properties": {
|
|
898
|
+
"chemblId": {
|
|
899
|
+
"type": "string",
|
|
900
|
+
"description": "The ChEMBL ID of the drug.",
|
|
901
|
+
"required": true
|
|
902
|
+
}
|
|
903
|
+
}
|
|
904
|
+
},
|
|
905
|
+
"query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n approvedIndications\n }\n }\n ",
|
|
906
|
+
"label": [
|
|
907
|
+
"OpenTarget",
|
|
908
|
+
"Drug",
|
|
909
|
+
"Drug Information",
|
|
910
|
+
"GraphQL"
|
|
911
|
+
],
|
|
912
|
+
"type": "OpenTarget"
|
|
913
|
+
},
|
|
914
|
+
{
|
|
915
|
+
"name": "get_drug_description_by_chemblId",
|
|
916
|
+
"description": "Get drug name, year of first approval, type, cross references, and max clinical trial phase based on specified chemblId.",
|
|
917
|
+
"parameter": {
|
|
918
|
+
"type": "object",
|
|
919
|
+
"properties": {
|
|
920
|
+
"chemblId": {
|
|
921
|
+
"type": "string",
|
|
922
|
+
"description": "The ChEMBL ID of the drug.",
|
|
923
|
+
"required": true
|
|
924
|
+
}
|
|
925
|
+
}
|
|
926
|
+
},
|
|
927
|
+
"query_schema": "\n query retrieveMultipleDrugsInfo($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n yearOfFirstApproval\n drugType\n crossReferences {\n source\n reference\n }\n maximumClinicalTrialPhase\n }\n }\n ",
|
|
928
|
+
"label": [
|
|
929
|
+
"OpenTarget",
|
|
930
|
+
"Drug",
|
|
931
|
+
"Drug Information",
|
|
932
|
+
"GraphQL"
|
|
933
|
+
],
|
|
934
|
+
"type": "OpenTarget"
|
|
935
|
+
},
|
|
936
|
+
{
|
|
937
|
+
"name": "get_drug_synonyms_by_chemblId",
|
|
938
|
+
"description": "Retrieve the synonyms associated with a specific drug chemblId.",
|
|
939
|
+
"parameter": {
|
|
940
|
+
"type": "object",
|
|
941
|
+
"properties": {
|
|
942
|
+
"chemblId": {
|
|
943
|
+
"type": "string",
|
|
944
|
+
"description": "The ChEMBL ID of the drug.",
|
|
945
|
+
"required": true
|
|
946
|
+
}
|
|
947
|
+
}
|
|
948
|
+
},
|
|
949
|
+
"query_schema": "\n query drugSynonyms($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n synonyms\n }\n }\n ",
|
|
950
|
+
"label": [
|
|
951
|
+
"OpenTarget",
|
|
952
|
+
"Drug Information",
|
|
953
|
+
"Drug",
|
|
954
|
+
"GraphQL"
|
|
955
|
+
],
|
|
956
|
+
"type": "OpenTarget"
|
|
957
|
+
},
|
|
958
|
+
{
|
|
959
|
+
"name": "get_drug_trade_names_by_chemblId",
|
|
960
|
+
"description": "Retrieve the trade names associated with a specific drug chemblId.",
|
|
961
|
+
"parameter": {
|
|
962
|
+
"type": "object",
|
|
963
|
+
"properties": {
|
|
964
|
+
"chemblId": {
|
|
965
|
+
"type": "string",
|
|
966
|
+
"description": "The ChEMBL ID of the drug.",
|
|
967
|
+
"required": true
|
|
968
|
+
}
|
|
969
|
+
}
|
|
970
|
+
},
|
|
971
|
+
"query_schema": "\n query drugTradeNames($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n tradeNames\n }\n }\n ",
|
|
972
|
+
"label": [
|
|
973
|
+
"Drug",
|
|
974
|
+
"OpenTarget",
|
|
975
|
+
"Drug Information",
|
|
976
|
+
"GraphQL"
|
|
977
|
+
],
|
|
978
|
+
"type": "OpenTarget"
|
|
979
|
+
},
|
|
980
|
+
{
|
|
981
|
+
"name": "get_drug_approval_status_by_chemblId",
|
|
982
|
+
"description": "Retrieve the approval status of a specific drug chemblId.",
|
|
983
|
+
"parameter": {
|
|
984
|
+
"type": "object",
|
|
985
|
+
"properties": {
|
|
986
|
+
"chemblId": {
|
|
987
|
+
"type": "string",
|
|
988
|
+
"description": "The ChEMBL ID of the drug.",
|
|
989
|
+
"required": true
|
|
990
|
+
}
|
|
991
|
+
}
|
|
992
|
+
},
|
|
993
|
+
"query_schema": "\n query drugApprovalStatus($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n isApproved\n }\n }\n ",
|
|
994
|
+
"label": [
|
|
995
|
+
"Drug",
|
|
996
|
+
"Drug Information",
|
|
997
|
+
"GraphQL",
|
|
998
|
+
"OpenTarget"
|
|
999
|
+
],
|
|
1000
|
+
"type": "OpenTarget"
|
|
1001
|
+
},
|
|
1002
|
+
{
|
|
1003
|
+
"name": "get_chemical_probes_by_target_ensemblID",
|
|
1004
|
+
"description": "Retrieve chemical probes associated with a specific target using its ensemblID.",
|
|
1005
|
+
"parameter": {
|
|
1006
|
+
"type": "object",
|
|
1007
|
+
"properties": {
|
|
1008
|
+
"ensemblId": {
|
|
1009
|
+
"type": "string",
|
|
1010
|
+
"description": "The Ensembl ID of the target for which to retrieve chemical probes.",
|
|
1011
|
+
"required": true
|
|
1012
|
+
}
|
|
1013
|
+
}
|
|
1014
|
+
},
|
|
1015
|
+
"query_schema": "\n query getTargetChemicalProbes($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n chemicalProbes {\n id\n control\n drugId\n mechanismOfAction\n isHighQuality\n origin\n probeMinerScore\n probesDrugsScore\n scoreInCells\n scoreInOrganisms\n targetFromSourceId\n urls {\n niceName\n url\n }\n }\n }\n }\n ",
|
|
1016
|
+
"label": [
|
|
1017
|
+
"OpenTarget",
|
|
1018
|
+
"Drug Information",
|
|
1019
|
+
"ChemicalProbe",
|
|
1020
|
+
"GraphQL"
|
|
1021
|
+
],
|
|
1022
|
+
"type": "OpenTarget"
|
|
1023
|
+
},
|
|
1024
|
+
{
|
|
1025
|
+
"name": "drug_pharmacogenomics_data",
|
|
1026
|
+
"description": "Retrieve pharmacogenomics data for a specific drug, including evidence levels and genotype annotations.",
|
|
1027
|
+
"label": [
|
|
1028
|
+
"Drug",
|
|
1029
|
+
"Pharmacogenomics",
|
|
1030
|
+
"Evidence",
|
|
1031
|
+
"Genotype",
|
|
1032
|
+
"Pagination",
|
|
1033
|
+
"OpenTarget",
|
|
1034
|
+
"GraphQL"
|
|
1035
|
+
],
|
|
1036
|
+
"parameter": {
|
|
1037
|
+
"type": "object",
|
|
1038
|
+
"properties": {
|
|
1039
|
+
"chemblId": {
|
|
1040
|
+
"type": "string",
|
|
1041
|
+
"description": "The ChEMBL ID of the drug.",
|
|
1042
|
+
"required": true
|
|
1043
|
+
},
|
|
1044
|
+
"page": {
|
|
1045
|
+
"type": "object",
|
|
1046
|
+
"description": "Pagination options.",
|
|
1047
|
+
"properties": {
|
|
1048
|
+
"index": {
|
|
1049
|
+
"type": "integer",
|
|
1050
|
+
"description": "Pagination index.",
|
|
1051
|
+
"required": true
|
|
1052
|
+
},
|
|
1053
|
+
"size": {
|
|
1054
|
+
"type": "integer",
|
|
1055
|
+
"description": "Number of records to fetch per page.",
|
|
1056
|
+
"required": true
|
|
1057
|
+
}
|
|
1058
|
+
},
|
|
1059
|
+
"required": false
|
|
1060
|
+
}
|
|
1061
|
+
}
|
|
1062
|
+
},
|
|
1063
|
+
"query_schema": "\n query drugPharmacogenomicsData($chemblId: String!, $page: Pagination!) {\n drug(chemblId: $chemblId) {\n id\n name\n pharmacogenomics(page: $page) {\n datasourceId\n datatypeId\n genotype\n evidenceLevel\n genotypeAnnotationText\n genotypeId\n haplotypeFromSourceId\n haplotypeId\n literature\n pgxCategory\n phenotypeFromSourceId\n phenotypeText\n studyId\n targetFromSourceId\n variantFunctionalConsequenceId\n variantRsId\n isDirectTarget\n variantFunctionalConsequence {\n id\n label\n }\n drugs {\n drugId\n drug {\n name\n }\n }\n target {\n id\n approvedSymbol\n }\n }\n }\n }\n ",
|
|
1064
|
+
"type": "OpenTarget"
|
|
1065
|
+
},
|
|
1066
|
+
{
|
|
1067
|
+
"name": "get_associated_drugs_by_target_ensemblID",
|
|
1068
|
+
"description": "Get known drugs associated with a specific target ensemblID, including clinical trial phase and mechanism of action of the drugs.",
|
|
1069
|
+
"parameter": {
|
|
1070
|
+
"type": "object",
|
|
1071
|
+
"properties": {
|
|
1072
|
+
"ensemblId": {
|
|
1073
|
+
"type": "string",
|
|
1074
|
+
"description": "The Ensembl ID of the target.",
|
|
1075
|
+
"required": true
|
|
1076
|
+
},
|
|
1077
|
+
"size": {
|
|
1078
|
+
"type": "integer",
|
|
1079
|
+
"description": "Number of entries to fetch.",
|
|
1080
|
+
"required": true
|
|
1081
|
+
},
|
|
1082
|
+
"cursor": {
|
|
1083
|
+
"type": "string",
|
|
1084
|
+
"description": "Cursor for pagination.",
|
|
1085
|
+
"required": false
|
|
1086
|
+
}
|
|
1087
|
+
}
|
|
1088
|
+
},
|
|
1089
|
+
"query_schema": "\n query targetKnownDrugs($ensemblId: String!, $size: Int!, $cursor: String) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n knownDrugs(size: $size, cursor: $cursor) {\n count\n rows {\n drug {\n id\n name\n tradeNames\n maximumClinicalTrialPhase\n isApproved\n hasBeenWithdrawn\n }\n phase\n status\n mechanismOfAction\n disease {\n id\n name\n }\n }\n }\n }\n }\n ",
|
|
1090
|
+
"label": [
|
|
1091
|
+
"Target",
|
|
1092
|
+
"Drug",
|
|
1093
|
+
"MechanismsOfAction",
|
|
1094
|
+
"Pagination",
|
|
1095
|
+
"OpenTarget",
|
|
1096
|
+
"GraphQL"
|
|
1097
|
+
],
|
|
1098
|
+
"type": "OpenTarget"
|
|
1099
|
+
},
|
|
1100
|
+
{
|
|
1101
|
+
"name": "get_associated_diseases_by_drug_chemblId",
|
|
1102
|
+
"description": "Retrieve the list of diseases associated with a specific drug chemblId based on clinical trial data or post-marketed drugs.",
|
|
1103
|
+
"parameter": {
|
|
1104
|
+
"type": "object",
|
|
1105
|
+
"properties": {
|
|
1106
|
+
"chemblId": {
|
|
1107
|
+
"type": "string",
|
|
1108
|
+
"description": "The ChEMBL ID of the drug.",
|
|
1109
|
+
"required": true
|
|
1110
|
+
}
|
|
1111
|
+
}
|
|
1112
|
+
},
|
|
1113
|
+
"query_schema": "\n query fetchLinkedDiseasesForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedDiseases {\n count\n rows {\n id\n name\n description\n }\n }\n }\n }\n ",
|
|
1114
|
+
"label": [
|
|
1115
|
+
"Drug",
|
|
1116
|
+
"Disease",
|
|
1117
|
+
"OpenTarget",
|
|
1118
|
+
"Drug Information",
|
|
1119
|
+
"GraphQL"
|
|
1120
|
+
],
|
|
1121
|
+
"type": "OpenTarget"
|
|
1122
|
+
},
|
|
1123
|
+
{
|
|
1124
|
+
"name": "get_associated_targets_by_drug_chemblId",
|
|
1125
|
+
"description": "Retrieve the list of targets linked to a specific drug chemblId based on its mechanism of action.",
|
|
1126
|
+
"parameter": {
|
|
1127
|
+
"type": "object",
|
|
1128
|
+
"properties": {
|
|
1129
|
+
"chemblId": {
|
|
1130
|
+
"type": "string",
|
|
1131
|
+
"description": "The ChEMBL ID of the drug.",
|
|
1132
|
+
"required": true
|
|
1133
|
+
}
|
|
1134
|
+
}
|
|
1135
|
+
},
|
|
1136
|
+
"query_schema": "\n query fetchLinkedTargetsForDrug($chemblId: String!) {\n drug(chemblId: $chemblId) {\n id\n name\n linkedTargets {\n count\n rows {\n id\n approvedSymbol\n approvedName\n }\n }\n }\n }\n ",
|
|
1137
|
+
"label": [
|
|
1138
|
+
"Drug",
|
|
1139
|
+
"Target",
|
|
1140
|
+
"MechanismsOfAction",
|
|
1141
|
+
"OpenTarget",
|
|
1142
|
+
"GraphQL"
|
|
1143
|
+
],
|
|
1144
|
+
"type": "OpenTarget"
|
|
1145
|
+
},
|
|
1146
|
+
{
|
|
1147
|
+
"name": "multi_entity_search_by_query_string",
|
|
1148
|
+
"description": "Perform a multi-entity search based on a query string, filtering by entity names and pagination settings.",
|
|
1149
|
+
"parameter": {
|
|
1150
|
+
"type": "object",
|
|
1151
|
+
"properties": {
|
|
1152
|
+
"queryString": {
|
|
1153
|
+
"type": "string",
|
|
1154
|
+
"description": "The search string for querying information.",
|
|
1155
|
+
"required": true
|
|
1156
|
+
},
|
|
1157
|
+
"entityNames": {
|
|
1158
|
+
"type": "array",
|
|
1159
|
+
"items": {
|
|
1160
|
+
"type": "string"
|
|
1161
|
+
},
|
|
1162
|
+
"description": "List of entity names to search for (e.g., target, disease, drug).",
|
|
1163
|
+
"required": false
|
|
1164
|
+
},
|
|
1165
|
+
"page": {
|
|
1166
|
+
"type": "object",
|
|
1167
|
+
"properties": {
|
|
1168
|
+
"index": {
|
|
1169
|
+
"type": "integer",
|
|
1170
|
+
"description": "Pagination index.",
|
|
1171
|
+
"required": "True"
|
|
1172
|
+
},
|
|
1173
|
+
"size": {
|
|
1174
|
+
"type": "integer",
|
|
1175
|
+
"description": "Pagination size.",
|
|
1176
|
+
"required": "True"
|
|
1177
|
+
}
|
|
1178
|
+
},
|
|
1179
|
+
"description": "Pagination settings with index and size.",
|
|
1180
|
+
"required": false
|
|
1181
|
+
}
|
|
1182
|
+
}
|
|
1183
|
+
},
|
|
1184
|
+
"query_schema": "\n query multiEntitySearch($queryString: String!, $entityNames: [String!], $page: Pagination) {\n search(queryString: $queryString, entityNames: $entityNames, page: $page) {\n total\n hits {\n id\n entity\n description\n name\n score\n }\n }\n }\n ",
|
|
1185
|
+
"label": [
|
|
1186
|
+
"Search and Mapping Functions",
|
|
1187
|
+
"MultiEntitySearch",
|
|
1188
|
+
"Pagination",
|
|
1189
|
+
"OpenTarget",
|
|
1190
|
+
"GraphQL"
|
|
1191
|
+
],
|
|
1192
|
+
"type": "OpenTarget"
|
|
1193
|
+
},
|
|
1194
|
+
{
|
|
1195
|
+
"name": "get_gene_ontology_terms_by_goID",
|
|
1196
|
+
"description": "Retrieve Gene Ontology terms based on a list of GO IDs.",
|
|
1197
|
+
"parameter": {
|
|
1198
|
+
"type": "object",
|
|
1199
|
+
"properties": {
|
|
1200
|
+
"goIds": {
|
|
1201
|
+
"type": "array",
|
|
1202
|
+
"items": {
|
|
1203
|
+
"type": "string"
|
|
1204
|
+
},
|
|
1205
|
+
"description": "A list of Gene Ontology (GO) IDs to fetch the corresponding terms.",
|
|
1206
|
+
"required": true
|
|
1207
|
+
}
|
|
1208
|
+
}
|
|
1209
|
+
},
|
|
1210
|
+
"query_schema": "\n query fetchGeneOntologyTerms($goIds: [String!]!) {\n geneOntologyTerms(goIds: $goIds) {\n id\n name\n }\n }\n ",
|
|
1211
|
+
"label": [
|
|
1212
|
+
"GeneOntology",
|
|
1213
|
+
"Data Retrieval and Aggregation",
|
|
1214
|
+
"OpenTarget",
|
|
1215
|
+
"GraphQL"
|
|
1216
|
+
],
|
|
1217
|
+
"type": "OpenTarget"
|
|
1218
|
+
},
|
|
1219
|
+
{
|
|
1220
|
+
"name": "get_target_constraint_info_by_ensemblID",
|
|
1221
|
+
"description": "Retrieve genetic constraint information for a specific target ensemblID, including expected and observed values, and scores.",
|
|
1222
|
+
"parameter": {
|
|
1223
|
+
"type": "object",
|
|
1224
|
+
"properties": {
|
|
1225
|
+
"ensemblId": {
|
|
1226
|
+
"type": "string",
|
|
1227
|
+
"description": "The Ensembl ID of the target.",
|
|
1228
|
+
"required": true
|
|
1229
|
+
}
|
|
1230
|
+
}
|
|
1231
|
+
},
|
|
1232
|
+
"query_schema": "\n query targetConstraintInfo($ensemblId: String!) {\n target(ensemblId: $ensemblId) {\n id\n approvedSymbol\n geneticConstraint {\n constraintType\n exp\n obs\n oe\n oeLower\n oeUpper\n score\n upperBin\n upperBin6\n upperRank\n }\n }\n }\n ",
|
|
1233
|
+
"label": [
|
|
1234
|
+
"Target",
|
|
1235
|
+
"Constraint",
|
|
1236
|
+
"Data Retrieval and Aggregation",
|
|
1237
|
+
"OpenTarget",
|
|
1238
|
+
"GraphQL"
|
|
1239
|
+
],
|
|
1240
|
+
"type": "OpenTarget"
|
|
1241
|
+
},
|
|
1242
|
+
{
|
|
1243
|
+
"name": "get_publications_by_disease_efoId",
|
|
1244
|
+
"description": "Retrieve publications related to a disease efoId, including PubMed IDs and publication dates.",
|
|
1245
|
+
"parameter": {
|
|
1246
|
+
"type": "object",
|
|
1247
|
+
"properties": {
|
|
1248
|
+
"entityId": {
|
|
1249
|
+
"type": "string",
|
|
1250
|
+
"description": "The ID of the entity (efoId).",
|
|
1251
|
+
"required": true
|
|
1252
|
+
},
|
|
1253
|
+
"additionalIds": {
|
|
1254
|
+
"type": "array",
|
|
1255
|
+
"items": {
|
|
1256
|
+
"type": "string"
|
|
1257
|
+
},
|
|
1258
|
+
"description": "List of additional IDs to include in the search.",
|
|
1259
|
+
"required": false
|
|
1260
|
+
},
|
|
1261
|
+
"startYear": {
|
|
1262
|
+
"type": "integer",
|
|
1263
|
+
"description": "Year at the lower end of the filter.",
|
|
1264
|
+
"required": false
|
|
1265
|
+
},
|
|
1266
|
+
"startMonth": {
|
|
1267
|
+
"type": "integer",
|
|
1268
|
+
"description": "Month at the lower end of the filter.",
|
|
1269
|
+
"required": false
|
|
1270
|
+
},
|
|
1271
|
+
"endYear": {
|
|
1272
|
+
"type": "integer",
|
|
1273
|
+
"description": "Year at the higher end of the filter.",
|
|
1274
|
+
"required": false
|
|
1275
|
+
},
|
|
1276
|
+
"endMonth": {
|
|
1277
|
+
"type": "integer",
|
|
1278
|
+
"description": "Month at the higher end of the filter.",
|
|
1279
|
+
"required": false
|
|
1280
|
+
}
|
|
1281
|
+
}
|
|
1282
|
+
},
|
|
1283
|
+
"query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n disease(efoId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
|
|
1284
|
+
"label": [
|
|
1285
|
+
"Publications",
|
|
1286
|
+
"Data Retrieval and Aggregation",
|
|
1287
|
+
"GraphQL",
|
|
1288
|
+
"OpenTarget"
|
|
1289
|
+
],
|
|
1290
|
+
"type": "OpenTarget"
|
|
1291
|
+
},
|
|
1292
|
+
{
|
|
1293
|
+
"name": "get_publications_by_target_ensemblID",
|
|
1294
|
+
"description": "Retrieve publications related to a target ensemblID, including PubMed IDs and publication dates.",
|
|
1295
|
+
"parameter": {
|
|
1296
|
+
"type": "object",
|
|
1297
|
+
"properties": {
|
|
1298
|
+
"entityId": {
|
|
1299
|
+
"type": "string",
|
|
1300
|
+
"description": "The ID of the entity (ensemblID).",
|
|
1301
|
+
"required": true
|
|
1302
|
+
},
|
|
1303
|
+
"additionalIds": {
|
|
1304
|
+
"type": "array",
|
|
1305
|
+
"items": {
|
|
1306
|
+
"type": "string"
|
|
1307
|
+
},
|
|
1308
|
+
"description": "List of additional IDs to include in the search.",
|
|
1309
|
+
"required": false
|
|
1310
|
+
},
|
|
1311
|
+
"startYear": {
|
|
1312
|
+
"type": "integer",
|
|
1313
|
+
"description": "Year at the lower end of the filter.",
|
|
1314
|
+
"required": false
|
|
1315
|
+
},
|
|
1316
|
+
"startMonth": {
|
|
1317
|
+
"type": "integer",
|
|
1318
|
+
"description": "Month at the lower end of the filter.",
|
|
1319
|
+
"required": false
|
|
1320
|
+
},
|
|
1321
|
+
"endYear": {
|
|
1322
|
+
"type": "integer",
|
|
1323
|
+
"description": "Year at the higher end of the filter.",
|
|
1324
|
+
"required": false
|
|
1325
|
+
},
|
|
1326
|
+
"endMonth": {
|
|
1327
|
+
"type": "integer",
|
|
1328
|
+
"description": "Month at the higher end of the filter.",
|
|
1329
|
+
"required": false
|
|
1330
|
+
}
|
|
1331
|
+
}
|
|
1332
|
+
},
|
|
1333
|
+
"query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n target(ensemblId: $entityId) {\n id\n approvedSymbol\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
|
|
1334
|
+
"label": [
|
|
1335
|
+
"Publications",
|
|
1336
|
+
"Data Retrieval and Aggregation",
|
|
1337
|
+
"GraphQL",
|
|
1338
|
+
"OpenTarget"
|
|
1339
|
+
],
|
|
1340
|
+
"type": "OpenTarget"
|
|
1341
|
+
},
|
|
1342
|
+
{
|
|
1343
|
+
"name": "get_publications_by_drug_chemblId",
|
|
1344
|
+
"description": "Retrieve publications related to a drug chemblId, including PubMed IDs and publication dates.",
|
|
1345
|
+
"parameter": {
|
|
1346
|
+
"type": "object",
|
|
1347
|
+
"properties": {
|
|
1348
|
+
"entityId": {
|
|
1349
|
+
"type": "string",
|
|
1350
|
+
"description": "The ID of the entity (chemblId).",
|
|
1351
|
+
"required": true
|
|
1352
|
+
},
|
|
1353
|
+
"additionalIds": {
|
|
1354
|
+
"type": "array",
|
|
1355
|
+
"items": {
|
|
1356
|
+
"type": "string"
|
|
1357
|
+
},
|
|
1358
|
+
"description": "List of additional IDs to include in the search.",
|
|
1359
|
+
"required": false
|
|
1360
|
+
},
|
|
1361
|
+
"startYear": {
|
|
1362
|
+
"type": "integer",
|
|
1363
|
+
"description": "Year at the lower end of the filter.",
|
|
1364
|
+
"required": false
|
|
1365
|
+
},
|
|
1366
|
+
"startMonth": {
|
|
1367
|
+
"type": "integer",
|
|
1368
|
+
"description": "Month at the lower end of the filter.",
|
|
1369
|
+
"required": false
|
|
1370
|
+
},
|
|
1371
|
+
"endYear": {
|
|
1372
|
+
"type": "integer",
|
|
1373
|
+
"description": "Year at the higher end of the filter.",
|
|
1374
|
+
"required": false
|
|
1375
|
+
},
|
|
1376
|
+
"endMonth": {
|
|
1377
|
+
"type": "integer",
|
|
1378
|
+
"description": "Month at the higher end of the filter.",
|
|
1379
|
+
"required": false
|
|
1380
|
+
}
|
|
1381
|
+
}
|
|
1382
|
+
},
|
|
1383
|
+
"query_schema": "\n query entityPublications($entityId: String!, $additionalIds: [String!], $startYear: Int, $startMonth: Int, $endYear: Int, $endMonth: Int) {\n drug(chemblId: $entityId) {\n id\n name\n literatureOcurrences(additionalIds: $additionalIds, startYear: $startYear, startMonth: $startMonth, endYear: $endYear, endMonth: $endMonth) {\n count\n filteredCount\n earliestPubYear\n rows {\n pmid\n pmcid\n publicationDate\n sentences {\n section\n matches {\n mappedId\n matchedLabel\n sectionStart\n sectionEnd\n startInSentence\n endInSentence\n matchedType\n }\n }\n }\n }\n }\n }\n ",
|
|
1384
|
+
"label": [
|
|
1385
|
+
"Publications",
|
|
1386
|
+
"Data Retrieval and Aggregation",
|
|
1387
|
+
"GraphQL",
|
|
1388
|
+
"OpenTarget"
|
|
1389
|
+
],
|
|
1390
|
+
"type": "OpenTarget"
|
|
1391
|
+
},
|
|
1392
|
+
{
|
|
1393
|
+
"name": "get_target_id_description_by_name",
|
|
1394
|
+
"description": "Get the ensemblId and description based on the target name.",
|
|
1395
|
+
"parameter": {
|
|
1396
|
+
"type": "object",
|
|
1397
|
+
"properties": {
|
|
1398
|
+
"targetName": {
|
|
1399
|
+
"type": "string",
|
|
1400
|
+
"description": "The name of the target for which the ID is required.",
|
|
1401
|
+
"required": true
|
|
1402
|
+
}
|
|
1403
|
+
}
|
|
1404
|
+
},
|
|
1405
|
+
"query_schema": "\n query getTargetIdByName($targetName: String!) {\n search(queryString: $targetName, entityNames: [\"target\"]) {\n hits {\n id\n name\n description\n }\n }\n }\n ",
|
|
1406
|
+
"label": [
|
|
1407
|
+
"Search",
|
|
1408
|
+
"Name",
|
|
1409
|
+
"Target",
|
|
1410
|
+
"OpenTarget",
|
|
1411
|
+
"GraphQL"
|
|
1412
|
+
],
|
|
1413
|
+
"type": "OpenTarget"
|
|
1414
|
+
}
|
|
1415
|
+
]
|