Registry NCBI PubChem database of bioassay records

PubChem provides information on the biological activities of small molecules. It is a component of NIH's Molecular Libraries Roadmap Initiative. PubChem bioassay archives active compounds and bioassay results.

Prefix: pubchem.bioassay
Alternative Prefixes: pubchem.assay pubchem.aid
Keywords: small molecule
Links: Homepage
Contact: Kim Dixon Pruitt 0000-0001-7950-1374
Pattern for Local Unique Identifiers: Local identifiers in NCBI PubChem database of bioassay records should match this regular expression:
^\d+$
Example Local Unique Identifier: 1018 Resolve
Pattern for CURIES: Compact URIs (CURIEs) constructed from NCBI PubChem database of bioassay records should match this regular expression:
^pubchem\.bioassay:\d+$
Example CURIE: pubchem.bioassay:1018
Publications: 2006 Database resources of the National Center for Biotechnology Information

Metaregistry NCBI PubChem database of bioassay records

The metaregistry provides mappings between the Semantic Farm and other registries. There are 7 mappings to external registries for this resource with 4 unique external prefixes.

Registry Name	Registry Metaprefix	External Prefix
BioContext	`biocontext`	`PUBCHEM.BIOASSAY`
EDAM	`edam`	`2638`
GO	`go`	`PubChem_BioAssay`
Integbio	`integbio`	`nbdc00640`
Identifiers.org	`miriam`	`pubchem.bioassay`
N2T	`n2t`	`pubchem.bioassay`
Prefix Commons	`prefixcommons`	`pubchem.bioassay`

Providers

Suggest

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier 1018 is used to demonstrate the providers available for NCBI PubChem database of bioassay records. Some providers may use a different example, which is displayed in the table below. A guide for curating additional providers can be found here.

Name	Metaprefix	URI
NCBI PubChem database of bioassay records	`pubchem.bioassay`	https://pubchem.ncbi.nlm.nih.gov/bioassay/1018
Bioregistry	`bioregistry`	https://bioregistry.io/pubchem.bioassay:1018
Identifiers.org	`miriam`	https://identifiers.org/pubchem.bioassay:1018
Name-to-Thing	`n2t`	https://n2t.net/pubchem.bioassay:1018

Extra Providers

Additional providers curated in the Semantic Farm are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.

Code	Name	URL
`bio2rdf`	Bio2RDF	http://bio2rdf.org/pubchem.bioassay:1018

Normalize prefixes. This can be any capitalization or punctuation variant of the synonyms listed below.

>>> import bioregistry as br
>>> br.normalize_prefix("pubchem.assay")
'pubchem.bioassay'

Get all synonyms:

>>> import bioregistry as br
>>> br.get_synonyms("pubchem.bioassay")
{'pubchem.assay', 'pubchem.aid'}

This name annotation was originally annotated in Gene Ontology Registry and is redistributed under the CC BY 4.0 license.

Get the name:

>>> import bioregistry as br
>>> br.get_name("pubchem.bioassay")
'NCBI PubChem database of bioassay records'

Get the homepage:

>>> import bioregistry as br
>>> br.get_homepage("pubchem.bioassay")
'https://www.ncbi.nlm.nih.gov/sites/entrez?db=pcassay'

Get the contact's name:

>>> import bioregistry as br
>>> br.get_contact_name("pubchem.bioassay")
'Kim Dixon Pruitt'

Get the contact's email:

>>> import bioregistry as br
>>> br.get_contact_email("pubchem.bioassay")
'pruitt@ncbi.nlm.nih.gov'

Get the contact's ORCiD identifier:

>>> import bioregistry as br
>>> br.get_contact_orcid("pubchem.bioassay")
'0000-0001-7950-1374'