Gene Lookup Schema
Description of properties returned when querying the API for a gene
GET /lookup/schema/genes?format=api
{
"title": "Gene Lookup Schema",
"description": "Description of properties returned when querying the API for a gene",
"type": "object",
"properties": {
"gene_id": {
"type": "integer",
"required": true,
"read_only": false,
"label": "Gene id"
},
"symbol": {
"type": "string",
"required": true,
"read_only": false,
"label": "Gene symbol"
},
"description": {
"type": "string",
"required": true,
"read_only": false,
"label": "Description"
},
"synonyms": {
"type": "list",
"required": false,
"read_only": false,
"label": "Synonyms",
"items": {
"type": "field"
}
},
"dgi": {
"type": "object",
"title": "Drug Gene Interaction Database (DGI)",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"items": {
"type": "array",
"title": "Details",
"items": {
"type": "object",
"properties": {
"drug_name_primary": {
"type": "string",
"required": false,
"read_only": false,
"label": "Drug name primary"
},
"drug_chembl_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "CHEMBL ID"
},
"drug_immunotherapy": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "Immunotherapy"
},
"drug_anti_neoplastic": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "Antineoplastic"
},
"disease": {
"type": "list",
"required": false,
"read_only": false,
"label": "Disease",
"items": {
"type": "field"
}
},
"gene_symbol": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gene symbol"
},
"interaction_type": {
"type": "list",
"required": false,
"read_only": false,
"label": "Interaction type",
"items": {
"type": "field"
}
},
"drug_fda_approved": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "Drug approved"
},
"attributes": {
"type": "list",
"required": false,
"read_only": false,
"label": "Attributes",
"items": {
"type": "nested object"
}
},
"id": {
"type": "string",
"required": false,
"read_only": false,
"label": "ID"
},
"gene_entrez": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Gene Entrez"
},
"interaction_claims": {
"type": "list",
"required": false,
"read_only": false,
"label": "Interaction claims",
"items": {
"type": "field"
}
}
}
}
}
}
},
"cgd": {
"type": "object",
"title": "Clinical Genomic Database (CGD)",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"pub_med_references": {
"type": "list",
"required": false,
"read_only": false,
"label": "PUBMED References",
"items": {
"type": "field"
}
},
"condition": {
"type": "string",
"required": false,
"read_only": false,
"label": "Condition"
},
"inheritance": {
"type": "string",
"required": false,
"read_only": false,
"label": "Inheritance"
},
"age_group": {
"type": "string",
"required": false,
"read_only": false,
"label": "Age Group"
},
"intervention_categories": {
"type": "list",
"required": false,
"read_only": false,
"label": "Intervention Categories",
"items": {
"type": "string"
}
},
"comments": {
"type": "string",
"required": false,
"read_only": false,
"label": "Comments"
},
"intervention": {
"type": "string",
"required": false,
"read_only": false,
"label": "Intervention"
}
}
},
"civic": {
"type": "object",
"title": "CIViC",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"items": {
"type": "array",
"title": "Details",
"items": {
"type": "object",
"properties": {
"asco_entry": {
"type": "object",
"title": "ASCO entry",
"properties": {
"asco_citation_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "ASCO citation id"
},
"asco_abstract_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "ASCO absctract id"
}
}
},
"clinical_significance": {
"type": "string",
"required": false,
"read_only": false,
"label": "Clinical significance"
},
"disease": {
"type": "string",
"required": false,
"read_only": false,
"label": "Disease"
},
"doid": {
"type": "string",
"required": false,
"read_only": false,
"label": "DOID"
},
"drug_interaction_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Drug interaction type"
},
"drugs": {
"type": "list",
"required": false,
"read_only": false,
"label": "Drugs",
"items": {
"type": "string"
}
},
"entrez_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "Entrez ID"
},
"evidence_civic_url": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence CIViC URL"
},
"evidence_direction": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence direction"
},
"evidence_level": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence level"
},
"evidence_statement": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence statement"
},
"evidence_status": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence status"
},
"evidence_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Evidence type"
},
"gene": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gene"
},
"gene_civic_url": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gene CIViC URL"
},
"last_review_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Last review date"
},
"nct_ids": {
"type": "list",
"required": false,
"read_only": false,
"label": "NCT ids",
"items": {
"type": "string"
}
},
"normalized_drug": {
"type": "list",
"required": false,
"read_only": false,
"label": "Drugs",
"items": {
"type": "string"
}
},
"phenotypes": {
"type": "list",
"required": false,
"read_only": false,
"label": "Phenotypes",
"items": {
"type": "string"
}
},
"pub_med_references": {
"type": "list",
"required": false,
"read_only": false,
"label": "PubMed References",
"items": {
"type": "integer"
}
},
"rating": {
"type": "string",
"required": false,
"read_only": false,
"label": "Rating"
},
"representative_transcript": {
"type": "string",
"required": false,
"read_only": false,
"label": "Representative transcript"
},
"transcripts": {
"type": "list",
"required": false,
"read_only": false,
"label": "Transcripts",
"items": {
"type": "field"
}
},
"variant": {
"type": "string",
"required": false,
"read_only": false,
"label": "Variant"
},
"variant_civic_url": {
"type": "string",
"required": false,
"read_only": false,
"label": "Variant CIViC URL"
},
"variant_origin": {
"type": "string",
"required": false,
"read_only": false,
"label": "Variant origin"
},
"variant_summary": {
"type": "string",
"required": false,
"read_only": false,
"label": "Variant summary"
},
"gene_description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gene description"
}
}
}
}
}
},
"aact": {
"type": "object",
"title": "Aggregate Analysis of Clinical Trials (CTTI AACT)",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"items": {
"type": "array",
"title": "Details",
"items": {
"type": "object",
"properties": {
"calculated_values": {
"type": "array",
"title": "Calculated values",
"items": {
"type": "object",
"properties": {
"number_of_nsae_subjects": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Number of NSAE subjects"
},
"number_of_sae_subjects": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Number of SAE subjects"
},
"minumum_age": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Minimum Age"
},
"maximum_age": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Maximum Age"
},
"actual_duration": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Actual duration"
}
}
}
},
"completion_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Completion Date"
},
"conditions": {
"type": "list",
"required": false,
"read_only": false,
"label": "Conditions",
"items": {
"type": "field"
}
},
"designs": {
"type": "array",
"title": "Designs",
"items": {
"type": "object",
"properties": {
"primary_purpose": {
"type": "string",
"required": false,
"read_only": false,
"label": "Primary purpose"
},
"allocation": {
"type": "string",
"required": false,
"read_only": false,
"label": "Allocation"
},
"intervention_model": {
"type": "string",
"required": false,
"read_only": false,
"label": "Intervention model"
},
"intervention_model_descr": {
"type": "string",
"required": false,
"read_only": false,
"label": "Intervention model description"
},
"time_perspective": {
"type": "string",
"required": false,
"read_only": false,
"label": "Time perspective"
},
"observational_model": {
"type": "string",
"required": false,
"read_only": false,
"label": "Observational model"
}
}
}
},
"eligibilities": {
"type": "array",
"title": "Eligibility",
"items": {
"type": "object",
"properties": {
"gender_based": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "Gender based"
},
"criteria": {
"type": "string",
"required": false,
"read_only": false,
"label": "Criteria"
},
"healthy_volunteers": {
"type": "string",
"required": false,
"read_only": false,
"label": "Healthy volunteers"
},
"maximum_age": {
"type": "string",
"required": false,
"read_only": false,
"label": "Maximum Age"
},
"minimum_age": {
"type": "string",
"required": false,
"read_only": false,
"label": "Minimum Age"
},
"gender": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gender"
},
"gender_description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gender description"
},
"sampling_method": {
"type": "string",
"required": false,
"read_only": false,
"label": "Sampling method"
},
"population": {
"type": "string",
"required": false,
"read_only": false,
"label": "Population"
}
}
}
},
"facilities": {
"type": "array",
"title": "Facilities",
"items": {
"type": "object",
"properties": {
"city": {
"type": "string",
"required": false,
"read_only": false,
"label": "City"
},
"name": {
"type": "string",
"required": false,
"read_only": false,
"label": "Name"
},
"country": {
"type": "string",
"required": false,
"read_only": false,
"label": "Country"
},
"state": {
"type": "string",
"required": false,
"read_only": false,
"label": "State"
},
"status": {
"type": "string",
"required": false,
"read_only": false,
"label": "Status"
}
}
}
},
"genes": {
"type": "list",
"required": false,
"read_only": false,
"label": "Genes",
"items": {
"type": "field"
}
},
"interventions": {
"type": "array",
"title": "Interventions",
"items": {
"type": "object",
"properties": {
"type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Type"
},
"description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Description"
},
"name": {
"type": "string",
"required": false,
"read_only": false,
"label": "Name"
},
"drug": {
"type": "string",
"required": false,
"read_only": false,
"label": "Drug"
}
}
}
},
"is_fda_drug": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "Is FDA drug"
},
"last_update_posted_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Last Update Posted Date"
},
"links": {
"type": "array",
"title": "Links",
"items": {
"type": "object",
"properties": {
"url": {
"type": "string",
"required": false,
"read_only": false,
"label": "Url"
},
"description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Description"
}
}
}
},
"nct_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "NCT Id"
},
"outcomes": {
"type": "array",
"title": "Outcomes",
"items": {
"type": "object",
"properties": {
"description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Description"
},
"dispersion_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Dispersion type"
},
"time_frame": {
"type": "string",
"required": false,
"read_only": false,
"label": "Time frame"
},
"title": {
"type": "string",
"required": false,
"read_only": false,
"label": "Title"
},
"outcome_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Outcome type"
},
"units": {
"type": "string",
"required": false,
"read_only": false,
"label": "Units"
},
"units_analyzed": {
"type": "string",
"required": false,
"read_only": false,
"label": "Units analyzed"
},
"population": {
"type": "string",
"required": false,
"read_only": false,
"label": "Population"
},
"param_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Param type"
}
}
}
},
"overall_officials": {
"type": "array",
"title": "Overall officials",
"items": {
"type": "object",
"properties": {
"name": {
"type": "string",
"required": false,
"read_only": false,
"label": "Name"
},
"role": {
"type": "string",
"required": false,
"read_only": false,
"label": "Role"
},
"affiliation": {
"type": "string",
"required": false,
"read_only": false,
"label": "Affiliation"
}
}
}
},
"phenotypes": {
"type": "list",
"required": false,
"read_only": false,
"label": "Phenotypes",
"items": {
"type": "field"
}
},
"primary_completion_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Primary Completion Date"
},
"population": {
"type": "string",
"required": false,
"read_only": false,
"label": "Population"
},
"pub_med_references": {
"type": "list",
"required": false,
"read_only": false,
"label": "PUBMED References",
"items": {
"type": "field"
}
},
"source": {
"type": "string",
"required": false,
"read_only": false,
"label": "Source"
},
"sponsors": {
"type": "array",
"title": "Sponsors",
"items": {
"type": "object",
"properties": {
"lead_or_collaborator": {
"type": "string",
"required": false,
"read_only": false,
"label": "Lead or collaborator"
},
"agency_class": {
"type": "string",
"required": false,
"read_only": false,
"label": "Agency class"
},
"name": {
"type": "string",
"required": false,
"read_only": false,
"label": "Name"
}
}
}
},
"start_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Start Date"
},
"status": {
"type": "string",
"required": false,
"read_only": false,
"label": "Status"
},
"study_first_posted_date": {
"type": "string",
"required": false,
"read_only": false,
"label": "Study First Posted Date"
},
"study_type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Study Type"
},
"title": {
"type": "string",
"required": false,
"read_only": false,
"label": "Title"
},
"unidentified_keywords": {
"type": "list",
"required": false,
"read_only": false,
"label": "Unidentified keywords",
"items": {
"type": "field"
}
}
}
}
}
}
},
"dbnsfp_genes": {
"type": "object",
"title": "dbNSFP genes",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"items": {
"type": "array",
"title": "Details",
"items": {
"type": "object",
"properties": {
"kegg": {
"type": "object",
"title": "KEGG",
"properties": {
"id": {
"type": "list",
"required": true,
"read_only": false,
"label": "id",
"items": {
"type": "field"
}
},
"full": {
"type": "list",
"required": true,
"read_only": false,
"label": "full",
"items": {
"type": "field"
}
}
}
},
"expressions_rpkm": {
"type": "nested object",
"required": false,
"read_only": false,
"label": "RPKM"
},
"gene_symbol": {
"type": "string",
"required": true,
"read_only": false,
"label": "gene symbol"
},
"p_hi": {
"type": "float",
"required": false,
"read_only": false,
"label": "Probability of haploinsufficiency"
},
"gdi": {
"type": "float",
"required": false,
"read_only": false,
"label": "GDI"
},
"gdi_phred": {
"type": "float",
"required": false,
"read_only": false,
"label": "GDI Phred"
},
"loftool_score": {
"type": "float",
"required": false,
"read_only": false,
"label": "LoFtool Score"
},
"hipred": {
"type": "boolean",
"required": false,
"read_only": false,
"label": "HIPred"
},
"hipred_score": {
"type": "float",
"required": false,
"read_only": false,
"label": "HIPred Score"
},
"ghis": {
"type": "float",
"required": false,
"read_only": false,
"label": "GHIS"
},
"p_rec": {
"type": "float",
"required": false,
"read_only": false,
"label": "Recessive probability"
},
"rvis_evs": {
"type": "float",
"required": false,
"read_only": false,
"label": "Residual Variation Intolerance Score"
},
"rvis_evs_percentile": {
"type": "string",
"required": false,
"read_only": false,
"label": "Residual Variation Intolerance Score percentile"
},
"essential_gene": {
"type": "string",
"required": false,
"read_only": false,
"label": "Essential Gene"
},
"essential_crispr": {
"type": "string",
"required": false,
"read_only": false,
"label": "Essential CRISPR"
},
"essential_crispr2": {
"type": "string",
"required": false,
"read_only": false,
"label": "Essential CRISPR2"
},
"essential_mutagenesis": {
"type": "string",
"required": false,
"read_only": false,
"label": "Essential Mutagenesis"
},
"known_recessive_info": {
"type": "string",
"required": false,
"read_only": false,
"label": "Known Recessive Info"
},
"indispensability_score": {
"type": "float",
"required": false,
"read_only": false,
"label": "Indispensability Score"
},
"indispensability_pred": {
"type": "string",
"required": false,
"read_only": false,
"label": "Indispensability Prediction"
},
"go": {
"type": "nested object",
"required": false,
"read_only": false,
"label": "GO"
},
"pathway_biocarta": {
"type": "list",
"required": false,
"read_only": false,
"label": "BioCarta Pathway",
"items": {
"type": "field"
}
},
"pathway_consensuspathdb": {
"type": "list",
"required": false,
"read_only": false,
"label": "ConsensusPathDB Pathway",
"items": {
"type": "field"
}
},
"expression_gnf_atlas": {
"type": "list",
"required": false,
"read_only": false,
"label": "Expression GNF Atlas",
"items": {
"type": "field"
}
},
"expression_egenetics": {
"type": "list",
"required": false,
"read_only": false,
"label": "Expression egenetics",
"items": {
"type": "field"
}
},
"pathway_uniprot": {
"type": "list",
"required": false,
"read_only": false,
"label": "UniProt Pathway",
"items": {
"type": "field"
}
},
"function_description": {
"type": "string",
"required": false,
"read_only": false,
"label": "Function description"
},
"disease_description": {
"type": "list",
"required": false,
"read_only": false,
"label": "Disease description",
"items": {
"type": "field"
}
},
"gene_damage_prediction": {
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"read_only": false,
"label": "Verdict"
},
"expert_panel": {
"type": "string",
"required": true,
"read_only": false,
"label": "Expert Panel"
}
}
}
}
}
},
"omim": {
"type": "object",
"title": "JHU OMIM",
"properties": {
"version": {
"type": "string",
"required": true,
"read_only": false,
"label": "Version"
},
"items": {
"type": "array",
"title": "OMIM entries",
"items": {
"type": "object",
"properties": {
"omim_id": {
"type": "integer",
"required": false,
"read_only": false,
"label": "OMIM ID"
},
"date_updated": {
"type": "string",
"required": false,
"read_only": false,
"label": "Date entry last updated"
},
"prefix": {
"type": "string",
"required": false,
"read_only": false,
"label": "Entry prefix"
},
"title": {
"type": "string",
"required": false,
"read_only": false,
"label": "Gene name"
},
"type": {
"type": "string",
"required": false,
"read_only": false,
"label": "Entry type"
},
"cyto_location": {
"type": "string",
"required": false,
"read_only": false,
"label": "Cyto location"
},
"computed_cyto_location": {
"type": "string",
"required": false,
"read_only": false,
"label": "Computed cyto location"
},
"chromosome_symbol": {
"type": "string",
"required": false,
"read_only": false,
"label": "Chromosome symbol"
},
"chromosome_sort": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Chromosome sort"
},
"mouse_gene_symbol": {
"type": "string",
"required": false,
"read_only": false,
"label": "Mouse gene symbol"
},
"mouse_gene_id": {
"type": "string",
"required": false,
"read_only": false,
"label": "Mouse gene ID"
},
"transcript": {
"type": "string",
"required": false,
"read_only": false,
"label": "Transcript"
},
"texts": {
"type": "array",
"title": "Texts",
"items": {
"type": "object",
"properties": {
"title": {
"type": "string",
"required": false,
"read_only": false,
"label": "Title"
},
"content": {
"type": "string",
"required": false,
"read_only": false,
"label": "Content"
}
}
}
},
"references": {
"type": "array",
"title": "References",
"items": {
"type": "object",
"properties": {
"pub_med_references": {
"type": "list",
"required": false,
"read_only": false,
"label": "PubMedIds",
"items": {
"type": "integer"
}
},
"reference_number": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Reference number in texts"
},
"title": {
"type": "string",
"required": false,
"read_only": false,
"label": "Reference title"
},
"source": {
"type": "string",
"required": false,
"read_only": false,
"label": "Reference source"
},
"authors": {
"type": "string",
"required": false,
"read_only": false,
"label": "Reference authors"
}
}
}
},
"phenotypes": {
"type": "array",
"title": "Phenotypes",
"items": {
"type": "object",
"properties": {
"phenotype_name": {
"type": "string",
"required": false,
"read_only": false,
"label": "Phenotype name"
},
"phenotype_mapping_key": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Mapping key, see OMIM FAQ"
},
"omim_id": {
"type": "integer",
"required": false,
"read_only": false,
"label": "Phenotype OMIM ID"
},
"phenotypic_series": {
"type": "string",
"required": false,
"read_only": false,
"label": "Phenotypic series"
},
"mode_of_inheritance": {
"type": "list",
"required": false,
"read_only": false,
"label": "Mode of inheritance",
"items": {
"type": "string"
}
}
}
}
}
}
}
}
}
}
}
}