TranslatorSRI Babel issues

TranslatorSRI / Babel

Babel creates cliques of equivalent identifiers across many biomedical vocabularies.

MIT License

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issues

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Get synonyms-per-clique distribution

#301 gaurav opened 23 minutes ago
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Add Mammalian Phenotype Ontology

#300 gaurav opened 16 hours ago
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Some concepts are being assigned to the wrong category

#299 gaurav opened 3 days ago
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Why is `NCBITaxon:family` in Babel?

#298 gaurav opened 6 days ago
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Improve BioMart downloads

#297 gaurav opened 1 week ago
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Fix Reactome mapping

#296 gaurav closed 1 week ago
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Incorporate LOINC into Babel

#295 gaurav opened 1 week ago
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Store alternate type information in addition to Biolink types

#294 gaurav opened 1 week ago
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Golgi apparatus split

#293 gaurav opened 1 week ago
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Add Translator documentation

#292 gaurav opened 1 week ago
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Replace the in-memory glomming code with DuckDB databases

#291 gaurav opened 2 weeks ago
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Load DrugChemical synonyms file into DuckDB

#290 gaurav opened 2 weeks ago
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Glimepiride has a long chemical name despite the alternate label algorithm

#289 gaurav opened 3 weeks ago
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Lots of acetaminophens still not conflated with the main acetaminophen

#288 gaurav opened 3 weeks ago
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Semaglutide is split

#287 gaurav opened 3 weeks ago
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Some RxCUIs aren't properly combined into a true chemical

#286 gaurav opened 3 weeks ago
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Missing deprecated/merged RxCUIs

#285 gaurav opened 4 weeks ago
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Missing chemical with long name

#284 gaurav opened 1 month ago
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Store chemicals in a better way

#283 gaurav opened 1 month ago
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We don't have a label for DRUGBANK:DB12182

#282 gaurav opened 1 month ago
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Develop an RDBMS schema for Babel outputs

#281 gaurav opened 1 month ago
1
Captopril not merging into drug

#280 cbizon opened 1 month ago
2
Babel 1.6

#279 gaurav opened 1 month ago
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Removed special-cased Biolink prefixes

#278 gaurav closed 1 month ago
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Unclear whether CellDevelopmentStep from Reactome are biological processes or pathways

#277 gaurav opened 1 month ago
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An ID can be present in multiple cliques

#276 gaurav opened 1 month ago
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Replace config.json with config.yaml

#275 gaurav opened 1 month ago
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Add manual concords for Disease to improve Opioid and Alcohol Use Disorder

#274 gaurav closed 1 month ago
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Fix EFO labels and misc fixes

#273 gaurav closed 1 month ago
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Generate combined nodes and edges files for KGX export

#272 gaurav opened 2 months ago
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Many EFO terms have `"@e` at the end of their labels

#271 gaurav closed 1 month ago
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EFO:0010702 should be combined with UMLS:C4324621 via MedDRA:10079385

#270 gaurav opened 2 months ago
1
EFO:0009458 being typed as a PhenotypicFeature even though it is a measurement

#269 gaurav opened 2 months ago
1
Create release notes for Babel

#268 gaurav closed 2 months ago
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Consider whether we can improve merging of UMLS terms that end up in the leftover UMLS file

#267 gaurav opened 2 months ago
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Fix DrugChemical conflation typing

#266 gaurav closed 2 months ago
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Special case * Use Disorders ?

#265 cbizon opened 2 months ago
8
Water results in "WATER O 15" (PUBCHEM.COMPOUND:10129877) in NameRes because of a conflation issue

#264 gaurav closed 2 months ago
2
Remove special handling of Polypeptide and ChemicalEntity prefixes

#263 gaurav closed 1 month ago
1
Levothyroxine not being properly conflated via drug-chemical conflation

#262 gaurav opened 2 months ago
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Current NodeNorm Exp with drug conflation conflates all COVID-19 vaccines into a single clique

#261 gaurav opened 2 months ago
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InterPro database CURIEs are not normalizing

#260 beasleyjonm opened 2 months ago
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How to handle obsolete GO terms (or obsolote terms in general)

#259 beasleyjonm opened 2 months ago
2
UMLS-only synonyms file is missing `clique_identifier_count`

#258 gaurav opened 2 months ago
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UMLS Semantic Type T045 ("Genetic Function") is not mapped to a Biolink Class

#257 gaurav opened 2 months ago
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liver regeneration factor 1 being cliqued into potassium cation (CHEBI:29103)

#256 gaurav opened 2 months ago
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What should the type for "Dopamine secreting" be? ( NCIT:C103871 )

#255 cbizon opened 2 months ago
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Add PathWhiz identifiers to Babel

#254 gaurav opened 3 months ago
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Minor fixes

#253 gaurav closed 3 months ago
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Oxidane should be recognized as a synonym of water

#252 gaurav opened 3 months ago
0