OmniPath Utils provides ID translation, taxonomy resolution, and reference lists for molecular biology. It translates between 97 identifier types across UniProt, Ensembl, HGNC, Entrez, ChEBI, HMDB and more. Available as a Python library and as this HTTP API with interactive documentation.

• ID translation — translate between gene symbols, UniProt, Ensembl, Entrez, and 90+ other identifier types
• Taxonomy — resolve organism names across NCBI, Ensembl, KEGG, OMA and miRBase naming systems
• Reference lists — complete sets of identifiers, e.g. all human SwissProt IDs

Example queries

Translate gene symbols to UniProt:

Translate Entrez Gene IDs to UniProt:

Resolve an organism:

More endpoints:

• /mapping/id-types — all 97 supported identifier types
• /taxonomy/organisms — all 22 organisms with name forms
• /reflists/list-names — available reference lists
• /schema/swagger — interactive API documentation
• /schema/openapi.json — OpenAPI schema
• /health — service status and database statistics

Python

from omnipath_utils.mapping import map_name
from omnipath_utils.taxonomy import ensure_ncbi_tax_id
from omnipath_utils.reflists import is_swissprot

map_name('TP53', 'genesymbol', 'uniprot')    # {'P04637', ...}
ensure_ncbi_tax_id('human')                   # 9606
is_swissprot('P04637')                        # True

Install: pip install omnipath-utils · Read the docs