-
# Unlocking UMLS | Biopragmatics
The Unified Medical Language System (UMLS) is a widely used biomedical and clinical vocabulary maintained by the United States National Library of Medicine. However, …
-
# Biosemantics vs. Biopragmatics | Biopragmatics
In language, semantics describe the names and meanings of words. The bioinformatics community has aptly adopted biosemantics as a concept that encompa…
-
Per meeting with Charlie Hoyt, Bioregistry has an issue tracker specifically for merging two resources:
https://github.com/biopragmatics/bioregistry/issues/new/choose
![image](https://github.com/g…
-
# Making DrugBank Reproducible | Biopragmatics
If you’re reading my blog, there’s a pretty high chance you’ve used DrugBank, a database of drug-target interations, drug-drug interactions, and other h…
-
# Curating Publications on Wikidata | Biopragmatics
This blog post is a tutorial on how to curate the links between a researcher and scholarly works (e.g., pre-prints, publications, presentations) on…
-
# Pythagorean Mean Rank Metrics | Biopragmatics
The mean rank (MR) and mean reciprocal rank (MRR) are among the most popular metrics reported for the evaluation of knowledge graph embedding models in…
-
I recently ran into a timeout when testing one of the frontend apps at discovery.indra.bio and saw on the backend that the issue was that there were new files being downloaded for pyobo. To resolve th…
-
# Discussions and Follow-ups from Biocuration 2024 | Biopragmatics
I’ve just returned from the 17th Annual International Biocuration Conference at the Indian Biological Data Centre (IBDC) in Faridaba…
-
I feel like I've noticed this in the past but my recent auto-generated PR for a new prefix was force pushed to by Github actions, making the original commit disappear and the PR be closed: https://git…
-
# Inspector Javert’s Xref Database | Biopragmatics
On top the issue of resolving identifiers to their names, the bioinformatics community has a hard time figuring out when two identifiers from differ…