open_targets.reactome

Python

In [1]:

import bedrock_bio as bb

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

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

Out[1]:

	id	label	ancestors	descendants	children	parents	path	version
0	R-HSA-164843	2-LTR circle formation	[R-HSA-162587, R-HSA-162592, R-HSA-162594, R-H...	[]	[]	[R-HSA-162592]	[[R-HSA-1643685, R-HSA-5663205, R-HSA-9824446,...	26.09
1	R-HSA-9909438	3-Methylcrotonyl-CoA carboxylase deficiency	[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118]	[]	[]	[R-HSA-9865118]	[[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118,...	26.09
2	R-HSA-9916722	3-hydroxyisobutyryl-CoA hydrolase deficiency	[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118]	[]	[]	[R-HSA-9865118]	[[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118,...	26.09
3	R-HSA-9914274	3-methylglutaconic aciduria	[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118]	[]	[]	[R-HSA-9865118]	[[R-HSA-1643685, R-HSA-5668914, R-HSA-9865118,...	26.09
4	R-HSA-73843	5-Phosphoribose 1-diphosphate biosynthesis	[R-HSA-1430728, R-HSA-71336, R-HSA-71387]	[]	[]	[R-HSA-71336]	[[R-HSA-1430728, R-HSA-71387, R-HSA-71336, R-H...	26.09

R

In [1]:

library(bedrockbio)

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

head(df)

Out[1]:

Sample output (5 rows, showing 3 of 8 columns)
   id            | label                    | version
   ------------- | ------------------------ | -------
0  R-HSA-164843  | 2-LTR circle formation   | 26.09
1  R-HSA-9909438 | 3-Methylcrotonyl-CoA ca… | 26.09
2  R-HSA-9916722 | 3-hydroxyisobutyryl-CoA… | 26.09
3  R-HSA-9914274 | 3-methylglutaconic acid… | 26.09
4  R-HSA-73843   | 5-Phosphoribose 1-dipho… | 26.09

Description

Pathway metadata from Reactome pathway database [Ontology]

Partitions

Not partitioned.

Schema

Column	Type	Description
id	TEXT	Unique identifier for the Reactome pathway [bioregistry:reactome]
label	TEXT	Name or label of the pathway
ancestors	TEXT[]	List of ancestor pathways in the ontology
descendants	TEXT[]	List of descendant pathways in the ontology
children	TEXT[]	Direct child pathways of the current pathway
parents	TEXT[]	Direct parent pathways of the current pathway
path	TEXT[][]	Hierarchical path representing the position of the pathway in Reactome
version	TEXT	Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.