PubChem Taxonomies

The taxonomy page presents PubChem data associated with a given taxon (organism). 


More detailed information on PubChem Taxonomy can be found in the following paper:

Kim S, Cheng T, He S, Thiessen PA, Li Q, Gindulyte A, Bolton EE. PubChem Protein, Gene, Pathway, and Taxonomy Data Collections: Bridging Biology and Chemistry through Target-Centric Views of PubChem Data. J Mol Biol. 2022 Feb 25:167514. doi:10.1016/j.jmb.2022.167514. Epub ahead of print. PMID: 35227770.
[PubMed PMID: 35227770] [Free Full Text]


You can access a PubChem taxonomy via a URL of this form:


where TAXON is the name of a taxon.  It can be a common name (e.g., rat or Norway rat) or a scientific name (Rattus norvegicus).  A taxon identifier used in the NCBI Taxonomy database (10116 for norway rat) can also be used as TAXON.  For example, the following URLs lead to the PubChem Taxonomy page for norway rat: rat norvegicus


Programmatic access

The annotation data presented on the Taxonomy page can be downloaded programmatically through PubChem's REST-like interface called PUG-View

The PUG-View request URLs contain an NCBI Taxonomy ID, as shown in the following example:


Was this information helpful?


National Library of Medicine
8600 Rockville Pike
Bethesda, MD 20894


PubChem Help
HHS Vulnerability Disclosure


The page cannot be found

The page you are looking for might have been removed, had its name changed, or is temporarily unavailable. Please make sure you spelled the page name correctly or use the search box.