Ontology mapping
- Primary identifier
-
CHEBI:17833 - Ontology label
- gentamycin
Synonyms (1)
| Synonym | Type | Source | Occurrences |
|---|---|---|---|
| gentamicin (if needed) | RAW_TEXT | culturemech:output/ingredient_occurrences.tsv |
Evidence (2)
DATABASE_MATCH
via MIM curation (#213)
Gentamicin/gentamycin is a spelling variant of the same aminoglycoside; CHEBI:17833's canonical label is 'gentamycin'. The record previously carried CHEBI:759884, which does not resolve in CHEBI at all (one of the #249 non-existent identifiers) while its status was UNMAPPED (#213).
MANUAL_CURATION
via MIM curation (#249)
CHEBI:759884 "gentamicin" is live in ChEBI but absent from the local semsql build; this record holds the validatable variant CHEBI:17833 "gentamycin" in the meantime.
Occurrence statistics
- Total occurrences
- 2
- Distinct media
- 2
- Source occurrences
- Source
- microbedecoder
- Count
- 638
- Source columns
- BacDive_Antibiotic_resistance|BacDive_Antibiotic_sensitivity|BacDive_Metabolite_production
Curation history
| Timestamp | Curator | Action | New status | Changes |
|---|---|---|---|---|
| 2026-08-04T02:54:09.684805+00:00 | audit_import_ingredients[microbedecoder] | CREATED_FROM_INGREDIENT_IMPORT | MAPPED | Imported from microbedecoder via ols-label-exact-chebi. source_id=kgmicrobe.trait:gentamicin; |
| 2026-08-04T03:02:12.084870+00:00 | microbedecoder-import-review LLM | DEMOTED_TO_UNMAPPED | removed ontology_mapping CHEBI:759884 | |
| 2026-08-06T00:00:00+00:00 | promote_resolved_unmapped | PROMOTED_TO_MAPPED | MAPPED | Promoted CHEBI:759884 -> CHEBI:17833 "gentamycin" (SYNONYM_MATCH); mapping_status UNMAPPED -> MAPPED, SSSOM row added. |
| 2026-08-06T00:00:00+00:00 | issue_213_premise_correction LLM | CORRECTED | MAPPED | Correction to the preceding entry: it stated CHEBI:759884 "does not resolve in CHEBI at all". That is FALSE -- CHEBI:759884 is live and labelled "gentamicin", verified against OLS4. It is absent from the local semsql build only (#197/#207/#210). The CHEBI:17833 gentamycin grounding stands as the term this repo can validate, and is the same aminoglycoside, but CHEBI:759884 is the exact term and this record should move back to it once the build carries it (#249, #213). |
| 2026-08-07T00:00:00+00:00 | curator_ruling_2026_08_07 | CURATOR_RULING | MAPPED | Ruling recorded; no mapping changed. Supersedes the deferred intent recorded by `issue_213_premise_correction`, which said this record 'should move back to [CHEBI:759884] once the build carries it'. It should not. CHEBI:17833 'gentamycin' resolves, is the same aminoglycoside (an orthographic variant, hence SYNONYM_MATCH), and CHEBI already outranks NCIT in this repo's source preference (curie.py::PREFIX_RANK), so the ordinary rule selects it. |
| 2026-08-27T03:16:39.518192+00:00 | refresh_occurrence_statistics | CORRECTED | occurrence_statistics 0/0 -> 2/2 (media_count/total_occurrences), derived from distinct CultureMech recipe ids in the #337 occurrence table. The prior values came from the importer retired in #453, whose media_count counted a list truncated to 50 examples (#449). [source=ingredient_occurrences.tsv culturemech_rev=15a4da5c08 rows=194137 distinct_recipes=15257] | |
| 2026-08-30T04:48:06.233536+00:00 | claude_culturemech_alias_backfill | ADDED_SYNONYMS | Added 1 CultureMech recipe surface form(s) that folded onto this record's published label but were absent from MIM's label index, so CultureMech could not resolve them: 'gentamicin (if needed)' (x1 CultureMech mentions). Source: culturemech:output/ingredient_occurrences.tsv. |