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bedrock.bio

open_targets.disease

import bedrock_bio as bb

rel = bb.load_table('open_targets.disease')

df = rel.limit(5).pl()  # Polars
df = rel.limit(5).df()  # Pandas
df.head()
id code name description dbXRefs parents exactSynonyms relatedSynonyms narrowSynonyms broadSynonyms obsoleteTerms obsoleteXRefs children ancestors therapeuticAreas descendants ontology synonyms version
0 GO_0000050 http://purl.obolibrary.org/obo/GO_0000050 urea cycle The sequence of reactions by which arginine is... [Reactome:R-HSA-70635, Wikipedia:Urea_cycle] [GO_0009058] [ornithine cycle, urea biosynthesis, urea bios... [] [] [] [] [] [] [GO_0009058, GO_0008152, GO_0009987, GO_0008150] [GO_0008150] [] {'isTherapeuticArea': False, 'leaf': False, 's... {'hasExactSynonym': ['ornithine cycle', 'urea ... 26.09
1 GO_0000096 http://purl.obolibrary.org/obo/GO_0000096 sulfur amino acid metabolic process The chemical reactions and pathways involving ... [Reactome:R-HSA-1614635] [GO_0006790] [sulfur amino acid metabolism, sulphur amino a... [] [] [] [] [] [GO_0009087, GO_0050667] [GO_0006790, GO_0008152, GO_0009987, GO_0008150] [GO_0008150] [GO_0009087, GO_0050667] {'isTherapeuticArea': False, 'leaf': False, 's... {'hasExactSynonym': ['sulfur amino acid metabo... 26.09
2 GO_0000226 http://purl.obolibrary.org/obo/GO_0000226 microtubule cytoskeleton organization A process that is carried out at the cellular ... [] [GO_0006996] [microtubule cytoskeleton organisation] [microtubule cytoskeleton organization and bio... [] [] [] [] [GO_0007051] [GO_0006996, GO_0016043, GO_0009987, GO_0008150] [GO_0008150] [GO_0007051, GO_0007052] {'isTherapeuticArea': False, 'leaf': False, 's... {'hasExactSynonym': ['microtubule cytoskeleton... 26.09
3 GO_0000278 http://purl.obolibrary.org/obo/GO_0000278 mitotic cell cycle Progression through the phases of the mitotic ... [Reactome:R-HSA-69278, Wikipedia:Mitosis] [GO_0007049] [] [mitosis] [] [] [] [] [] [GO_0007049, GO_0009987, GO_0008150] [GO_0008150] [] {'isTherapeuticArea': False, 'leaf': False, 's... {'hasExactSynonym': [], 'hasRelatedSynonym': [... 26.09
4 GO_0001503 http://purl.obolibrary.org/obo/GO_0001503 ossification The formation of bone or of a bony substance, ... [Wikipedia:Ossification] [GO_0032501] [bone biosynthesis, bone formation, osteogenesis] [] [] [] [] [] [] [GO_0032501, GO_0008150] [GO_0008150] [] {'isTherapeuticArea': False, 'leaf': False, 's... {'hasExactSynonym': ['bone biosynthesis', 'bon... 26.09

Description

Section titled “Description”

Core annotation for diseases or phenotypes.

A disease or phenotype in the Platform is understood as any disease, phenotype, biological process or measurement that might have any type of causality relationship with a human target.

The EMBL-EBI Experimental Factor Ontology (EFO) (slim version) is used as scaffold for the disease or phenotype entity [Disease]

Partitions

Section titled “Partitions”

Not partitioned.

Schema

Section titled “Schema”
Column Type Description
id TEXT Open Targets disease identifier
code TEXT Disease reference URL
name TEXT Name of the disease
description TEXT Description of the disease
dbXRefs TEXT[] Cross-references in other disease ontologies
parents TEXT[] List of parent disease terms
exactSynonyms TEXT[] List of exact synonyms
relatedSynonyms TEXT[] List of related synonyms
narrowSynonyms TEXT[] List of closely related sysnonyms
broadSynonyms TEXT[] List of broadly related sysnonyms
obsoleteTerms TEXT[] List of obsoleted terms
obsoleteXRefs TEXT[] List of obsoleted cross references
children TEXT[] List of children disease terms
ancestors TEXT[] List of all ancestral disease terms
therapeuticAreas TEXT[] List of major therapeutic areas the disease belongs to
descendants TEXT[] List of all descendant terms
ontology STRUCT(isTherapeuticArea BOOLEAN, leaf BOOLEAN, sources STRUCT(url TEXT, name TEXT)) Description of the disease’s place in the ontology tree
synonyms STRUCT(hasExactSynonym TEXT[], hasRelatedSynonym TEXT[], hasNarrowSynonym TEXT[], hasBroadSynonym TEXT[]) List of synonymous disease labels
version TEXT Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.