open_targets.disease_phenotype

Python

In [1]:

import bedrock_bio as bb

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

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

Out[1]:

	disease	phenotype	evidence	version
0	EFO_0010655	HP_0011664	[{'aspect': 'P', 'bioCuration': 'HPO:probinson...	26.09
1	MONDO_0975848	MONDO_0002465	[{'aspect': 'P', 'bioCuration': 'ORCID:0000-00...	26.09
2	MONDO_0011258	HP_0004467	[{'aspect': 'P', 'bioCuration': 'HPO:iea[2009-...	26.09
3	MONDO_0971000	HP_0011462	[{'aspect': 'C', 'bioCuration': 'ORCID:0000-00...	26.09
4	MONDO_0014858	HP_0000294	[{'aspect': 'P', 'bioCuration': 'ORCID:0000-00...	26.09

R

In [1]:

library(bedrockbio)

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

head(df)

Out[1]:

Sample output (5 rows, showing 3 of 4 columns)
   disease       | phenotype     | version
   ------------- | ------------- | -------
0  EFO_0010655   | HP_0011664    | 26.09
1  MONDO_0975848 | MONDO_0002465 | 26.09
2  MONDO_0011258 | HP_0004467    | 26.09
3  MONDO_0971000 | HP_0011462    | 26.09
4  MONDO_0014858 | HP_0000294    | 26.09

Description

Clinical signs and symptoms observed in diseases or phenotypes.

Signs and symptoms are integrated from multiple sources including EFO, MONDO and HPO [Disease]

Partitions

Not partitioned.

Schema

Column	Type	Description
disease	TEXT	Disease identifier
phenotype	TEXT	The phenotype linked to the disease.
evidence	STRUCT(aspect TEXT, bioCuration TEXT, diseaseFromSourceId TEXT, diseaseFromSource TEXT, diseaseName TEXT, evidenceType TEXT, frequency TEXT, modifiers TEXT[], onset TEXT[], qualifier TEXT, qualifierNot BOOLEAN, references TEXT[], sex TEXT, resource TEXT)[]	A container for all evidence-related attributes supporting the disease-phenotype association.
version	TEXT	Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.