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[bioontology-support] Updated BioPortal Ontologies

Jennifer Leigh Vendetti vendetti at stanford.edu
Mon May 24 11:22:31 PDT 2021


Hello Bushra,


On May 21, 2021, at 4:45 PM, Samad, Bushra <Bushra.Samad at ucsf.edu<mailto:Bushra.Samad at ucsf.edu>> wrote:

Hi,
I am not sure who to contact I wanted to check when the COVID vaccine data  (https://www.nlm.nih.gov/research/umls/rxnorm/covid19vaccines.html<https://urldefense.com/v3/__https:/www.nlm.nih.gov/research/umls/rxnorm/covid19vaccines.html__;!!LQC6Cpwp!4hhJSaSQISPFQPnDDWtDnM4UEZMt_cATRLbMTn8OskzIoS5UcUogRAmYeInSShRNNmY$>) will be available in RxNorm in BioPortal. I did not see it in REDcap and the UCSF REDcap administrator said they have no control over the updates of the BioPortal Ontologies available on REDcap.
I contacted NLM support and they directed me to contact you.


We ingest RxNorm from the UMLS Metathesaurus [1]. They do releases twice per year, and we just finished importing the 2021AA release [2]. According to their documentation, the 2021AA release contains RxNorm version 20AA_210301F [3].

I ran a couple of test searches and did find some of the content you asked about has been pulled in, e.g.:

RXCUI 2470234 (Moderna COVID-19 Vaccine):

 https://bioportal.bioontology.org/ontologies/RXNORM?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F2470234<https://bioportal.bioontology.org/ontologies/RXNORM?p=classes&conceptid=http://purl.bioontology.org/ontology/RXNORM/2470234>

RXCUI 2468235 (Pfizer-BioNTech COVID-19 Vaccine):

https://bioportal.bioontology.org/ontologies/RXNORM?p=classes&conceptid=http%3A%2F%2Fpurl.bioontology.org%2Fontology%2FRXNORM%2F2468235<https://bioportal.bioontology.org/ontologies/RXNORM?p=classes&conceptid=http://purl.bioontology.org/ontology/RXNORM/2468235>

However, there are other RXCUIs that don’t appear to be part of this RxNorm release, e.g., the Janssen vaccine (RXCUI 2479835).

Apologies, but I’m not aware of any plans to ingest a new version of RxNorm until the UMLS Metathesaurus 2021AB release in November of this year.

Kind regards,
Jennifer

[1] https://www.nlm.nih.gov/research/umls/knowledge_sources/metathesaurus/index.html
[2] https://www.nlm.nih.gov/research/umls/knowledge_sources/metathesaurus/release/index.html
[3] https://www.nlm.nih.gov/research/umls/sourcereleasedocs/current/RXNORM/metadata.html


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