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Hi @edeutsch,
Perhaps this might be another issue for NodeSynonymizer. So I tried to check the node source distribution of `biolink:Metabolite` in today's kg2.5.2c. As you can see below, most of th…
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OT internally uses ChEMBL IDs, we are currently reporting CHEBI. We should confirm what type of IDs we should report and who should do the translation.
For example, we could actually use PGKB's int…
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We need to assign OSM codes to inherited compounds that currently only have MMV codes, since compounds in the project need to have their data collected together. I just did the first:
http://malaria.…
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Hi,
I'm currently working on upgrading my [parser](https://github.com/Midnighter/BRENDA-Parser) for the BRENDA flat file download. I've implemented a few SQLAlchemy models that seemed fitting for t…
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Currently we don't differentiate between genes and proteins, we just lump them all under gene. However, most go annotation is at the protein level. When we have a go annotation, and we ask quickgo …
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When ingesting PharmGKB data, EVA team uses OLS to map drug labels to ChEBI molecule ontology. They have been using OLS to map disease labels to EFO before, so the applicable drug ontology makes sense…
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As part of testing for #291, I found that `extract-unichem.sh` fails. Here's the log file:
```
+ set -o nounset -o pipefail -o errexit
+ [[ '' == \-\-\h\e\l\p ]]
+ [[ '' == \-\h ]]
+ echo '======…
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Inspired by https://github.com/RTXteam/RTX-KG2/issues/291#issuecomment-1604448179 and @acevedol's observation that the conversion scripts also fail, it seems like it is also important to look at the s…
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Several of the extraction scripts are not able to run all the way through (see #290, #232, #230). I assumed this was related to #262, but it seems to be far more widespread than that. I am creating th…
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In KG2.8.0.1 I was looking at the highest degree nodes, and the 5th largest was `PUBCHEM.COMPOUND:6816`:
`[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxyoxolan-2-yl]methoxy-hydroxyphos…