variant

Identifier

open_targets.variant

Description

Core variant information for all variants in the Platform.

Variants are included if any phenotypic information is available for the variant, including GWAS or molQTL credible sets, ClinVar, Uniprot or ClinPGx.

The dataset includes variant metadata as well as variant effects derived from Ensembl VEP [Genetics]

Partitions

• release
  • '26.06'

Schema

Column	Type	Description
variantId	TEXT	Unique identifier for the variant following schema: {chromosome}-{position}-{referenceAllele}-{alternateAllele}
chromosome	TEXT	Chromosome on which the variant is located
position	INT	Variant’s position on the chromosome
referenceAllele	TEXT	Reference allele for the variant
alternateAllele	TEXT	Alternate allele for the variant
variantEffect	STRUCT(method TEXT, assessment TEXT, score FLOAT, assessmentFlag TEXT, targetId TEXT, normalisedScore DOUBLE)[]	Predicted or measured effect of the variant based on various methods
mostSevereConsequenceId	TEXT	Sequence ontology identifier of the most severe consequence of the variant based on Ensembl VEP [bioregistry:so]
transcriptConsequences	STRUCT(variantFunctionalConsequenceIds TEXT[], aminoAcidChange TEXT, uniprotAccessions TEXT[], isEnsemblCanonical BOOLEAN, codons TEXT, distanceFromFootprint BIGINT, distanceFromTss BIGINT, appris TEXT, maneSelect TEXT, targetId TEXT, impact TEXT, lofteePrediction TEXT, siftPrediction FLOAT, polyphenPrediction FLOAT, consequenceScore FLOAT, transcriptIndex INT, approvedSymbol TEXT, biotype TEXT, transcriptId TEXT)[]	Predicted consequences on transcript context
rsIds	TEXT[]	RsIds for the variant
hgvsId	TEXT	HGVS identifier of the variant
alleleFrequencies	STRUCT(populationName TEXT, alleleFrequency DOUBLE)[]	Allele frequencies of the variant in different populations
dbXrefs	STRUCT(id TEXT, source TEXT)[]	Cross-references for the variant in different databases
variantDescription	TEXT	Short summary of the variant effect
release	TEXT	Partition column. Open Targets Platform release version (major.minor), e.g. 26.06. [Added during ingest.]