open_targets.go

Python

In [1]:

import bedrock_bio as bb

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

df = rel.limit(5).pl()  # Polars
df = rel.limit(5).df()  # Pandas
df.head()

Out[1]:

	id	label	namespace	altIds	isA	partOf	regulates	negativelyRegulates	positivelyRegulates	isObsolete	ancestors	descendants	version
0	GO:0000001	mitochondrion inheritance	biological_process	[]	[GO:0048308, GO:0048311]	[]	[]	[]	[]	False	[GO:0006996, GO:0008150, GO:0009987, GO:001604...	[]	26.09
1	GO:0000002	obsolete mitochondrial genome maintenance	biological_process	[]	[]	[]	[]	[]	[]	True	[]	[]	26.09
2	GO:0000003	obsolete reproduction	biological_process	[]	[]	[]	[]	[]	[]	True	[]	[]	26.09
3	GO:0000005	obsolete ribosomal chaperone activity	molecular_function	[]	[]	[]	[]	[]	[]	True	[]	[]	26.09
4	GO:0000006	high-affinity zinc transmembrane transporter a...	molecular_function	[]	[GO:0005385]	[]	[]	[]	[]	False	[GO:0000041, GO:0003674, GO:0005215, GO:000538...	[]	26.09

R

In [1]:

library(bedrockbio)

lf <- load_table("open_targets.go")
df <- head(lf, 5) |> collect()

head(df)

Out[1]:

Sample output (5 rows, showing 5 of 13 columns)
   id         | label                    | namespace          | isObsolete | version
   ---------- | ------------------------ | ------------------ | ---------- | -------
0  GO:0000001 | mitochondrion inheritan… | biological_process | false      | 26.09
1  GO:0000002 | obsolete mitochondrial … | biological_process | true       | 26.09
2  GO:0000003 | obsolete reproduction    | biological_process | true       | 26.09
3  GO:0000005 | obsolete ribosomal chap… | molecular_function | true       | 26.09
4  GO:0000006 | high-affinity zinc tran… | molecular_function | false      | 26.09

Description

This dataset contains the mapping between Gene Ontology (GO) identifiers and their terms, including hierarchy, relationships, and metadata [Ontology]

Partitions

Not partitioned.

Schema

Column	Type	Description
id	TEXT	Primary Gene Ontology term identifier [bioregistry:go]
label	TEXT	Human-readable name of the GO term
namespace	TEXT	Ontology branch the term belongs to: biological_process, molecular_function, or cellular_component
altIds	TEXT[]	List of alternative/secondary GO IDs that are synonyms for this term
isA	TEXT[]	List of parent GO term IDs representing direct ‘is a’ hierarchical relationships
partOf	TEXT[]	List of GO term IDs to which this term has a ‘part of’ relationship
regulates	TEXT[]	List of GO term IDs that this term regulates (generic regulatory relationship)
negativelyRegulates	TEXT[]	List of GO term IDs that this term negatively regulates (inhibitory relationship)
positivelyRegulates	TEXT[]	List of GO term IDs that this term positively regulates (activating relationship)
isObsolete	BOOLEAN	Boolean flag indicating whether the GO term has been deprecated and is no longer in active use
ancestors	TEXT[]	List of ancestor GO terms
descendants	TEXT[]	List of descendant GO terms
version	TEXT	Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.