open_targets.literature_entity_lut

Python

In [1]:

import bedrock_bio as bb

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

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

Out[1]:

	pmid	pmcid	date	year	month	day	keywordId	relevance	keywordType	version
0	1000336	None	1976-12-01	1976	12	1	ENSG00000152266	0.800000	GP	26.09
1	1000367	None	1976-09-01	1976	9	1	ENSG00000244734	1.288889	GP	26.09
2	1000378	None	1976-01-01	1976	1	1	ENSG00000115263	1.393111	GP	26.09
3	1000479	None	1976-12-01	1976	12	1	MONDO_0005070	1.000000	DS	26.09
4	1000505	None	1976-12-01	1976	12	1	CHEMBL52609	1.000000	CD	26.09

R

In [1]:

library(bedrockbio)

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

head(df)

Out[1]:

Sample output (5 rows, showing 8 of 10 columns)
   pmid    | pmcid | date       | year | month | day | keywordId       | relevance
   ------- | ----- | ---------- | ---- | ----- | --- | --------------- | ------------------
0  1000336 | —     | 1976-12-01 | 1976 | 12    | 1   | ENSG00000152266 | 0.8
1  1000367 | —     | 1976-09-01 | 1976 | 9     | 1   | ENSG00000244734 | 1.2888888888888888
2  1000378 | —     | 1976-01-01 | 1976 | 1     | 1   | ENSG00000115263 | 1.393111111111111
3  1000479 | —     | 1976-12-01 | 1976 | 12    | 1   | MONDO_0005070   | 1
4  1000505 | —     | 1976-12-01 | 1976 | 12    | 1   | CHEMBL52609     | 1

Description

Unique list of entities identified for each literature entry [Literature]

Partitions

Not partitioned.

Schema

Column	Type	Description
pmid	TEXT	Europe PubMed Central identifier (EPMCID) of the literature entry
pmcid	TEXT	PubMed Central ID (PMCID) of the literature entry
date	DATE	Date of publication in YYYY-MM-DD format
year	INT	Year of publication
month	INT	Month of publication
day	INT	Day of publication
keywordId	TEXT	Unique identifier for the keyword associated with the literature entry
relevance	DOUBLE	Relevance score of the keyword within the literature entry
keywordType	TEXT	Type of keyword identified in the literature entry. Values: DS: disease/syndrome, GP: gene/protein, CD: chemical/drug
version	TEXT	Open Targets Platform release version (major.minor), e.g. 26.09. Added during ingest.