ncbi_gene.omim_gene_relationships

Python

In [1]:

import bedrock_bio as bb

rel = bb.load_table('ncbi_gene.omim_gene_relationships')

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

Out[1]:

	sources	omim_number	gene_id
0	[{'url': 'https://ftp.ncbi.nlm.nih.gov/gene/DA...	100640	216
1	[{'url': 'https://ftp.ncbi.nlm.nih.gov/gene/DA...	100650	217
2	[{'url': 'https://ftp.ncbi.nlm.nih.gov/gene/DA...	100660	218
3	[{'url': 'https://ftp.ncbi.nlm.nih.gov/gene/DA...	100670	219
4	[{'url': 'https://ftp.ncbi.nlm.nih.gov/gene/DA...	100678	39

R

In [1]:

library(bedrockbio)

lf <- load_table("ncbi_gene.omim_gene_relationships")
df <- head(lf, 5) |> collect()

head(df)

Out[1]:

Sample output (5 rows, showing 2 of 3 columns)
   omim_number | gene_id
   ----------- | -------
0  100640      | 216
1  100650      | 217
2  100660      | 218
3  100670      | 219
4  100678      | 39

Description

Curated relationships between OMIM gene entries and NCBI Gene records.

OMIM identifiers are catalog-entry identifiers, not necessarily one-to-one equivalents of NCBI Gene IDs.

These relationships do not include MedGen concepts, association sources, or qualifier comments.

Partitions

Not partitioned.

Schema

Column	Type	Description
sources	STRUCT(url TEXT, filename TEXT, last_modified_at TIMESTAMPTZ, sha256 TEXT)[]	Source provenance for the row.
omim_number	TEXT	Six-digit identifier for an OMIM gene entry.
gene_id	TEXT	NCBI Gene identifier associated with the OMIM gene entry.