Ontology mapping
- Primary identifier
-
CHEBI:18222 - Ontology label
- xylose
- kg-microbe node
CHEBI:18222
Nutritional roles
- Role
- CARBON_SOURCE
- Confidence
- 1.0
- Evidence
- Reference type
- DATABASE_ENTRY
- Reference text
- Imported from CultureMech pipeline
- Curator note
- Original role text: Carbon Source
- Role
- ENERGY_SOURCE
- Confidence
- 0.7
- Evidence
- Reference type
- COMPUTATIONAL_PREDICTION
- Reference text
- Canonical energy substrate (catabolised for energy)
- Curator note
- Provisional ENERGY_SOURCE added alongside CARBON_SOURCE; review recommended.
Synonyms (9)
| Synonym | Type | Source | Occurrences |
|---|---|---|---|
| Role: Carbon source; Properties: Defined component, Simple component, Organic compound | RAW_TEXT | CultureMech | |
| Role: Carbon source; Properties: Organic compound, Defined component, Simple component | RAW_TEXT | CultureMech | |
| Role: Carbon source; Properties: Organic compound, Simple component, Defined component | RAW_TEXT | CultureMech | |
| Role: Carbon source; Properties: Simple component, Defined component, Organic compound | RAW_TEXT | CultureMech | |
| DL-xylose | EXACT_SYNONYM | kg_microbe | |
| Xyl | EXACT_SYNONYM | kg_microbe | |
| xylo-pentose | EXACT_SYNONYM | kg_microbe | |
| Role: Carbon source | RAW_TEXT | CultureMech | |
| Role: Carbon source; Properties: Simple component, Organic compound, Defined component | RAW_TEXT | CultureMech |
Chemical properties
- Data source
- PubChem API
- Retrieval date
- 2026-04-05T19:54:16.204401+00:00
- Molecular formula
- C5H10O5
Evidence (1)
DATABASE_MATCH
via CultureMech
Imported from CultureMech pipeline, quality=DIRECT_MATCH
Occurrence statistics
- Total occurrences
- 23
- Distinct media
- 23
Curation history
| Timestamp | Curator | Action | New status | Changes |
|---|---|---|---|---|
| 2026-03-09T06:54:18.022301+00:00 | import_from_culturemech | IMPORTED | MAPPED | Initial import from CultureMech pipeline |
| 2026-04-05T19:54:16.204459+00:00 | fetch_cas_rn_from_pubchem | ADDED_CAS_RN | MAPPED | Added CAS-RN:200-400-7 from PubChem API via name lookup (Xylose) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 3 synonyms from kg-microbe P4.4 enrichment: DL-xylose, Xyl, xylo-pentose |
| 2026-04-19T07:39:23.955331+00:00 | audit_mim_merge | MERGED_FROM_DUPLICATES | MAPPED | Absorbed 1 duplicate MIM record(s) into this one: Xylose_2.yaml. Synonyms, curation_history, and occurrence counts were unioned/summed; winner selected by highest occurrence count with preferred_term readability tie-break. |
| 2026-05-01T07:35:36.928808+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (CHEBI primary) | |
| 2026-05-01T08:08:33.019048+00:00 | auto_classify_ingredient_type | AUTO_BACKFILL_CHEBI_CHEMISTRY | molecular_formula=C5H10O5 | |
| 2026-05-02T03:12:19.293613+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (chemical structure populated (molecular_formula)) | |
| 2026-05-29T23:35:36.113386+00:00 | extract_roles_from_synonyms | ANNOTATED | Added media role: CARBON_SOURCE (confidence: 1.00) | |
| 2026-06-04T05:38:59.201432+00:00 | infer_energy_source | ANNOTATED | Added media role: ENERGY_SOURCE (confidence: 0.70) | |
| 2026-06-09T05:23:46.851257+00:00 | correct_stale_ontology_labels.py | CORRECTED | ontology_label 'Xylose' -> 'xylose': synced to canonical CHEBI label (preferred_term 'Xylose' unchanged). | |
| 2026-07-20T00:00:00+00:00 | migrate_media_roles_to_facets | ANNOTATED | Migrated legacy media_roles to role facets (#128): CARBON_SOURCE -> nutritional_roles.CARBON_SOURCE; ENERGY_SOURCE -> nutritional_roles.ENERGY_SOURCE | |
| 2026-08-27T03:16:39.520166+00:00 | refresh_occurrence_statistics | CORRECTED | occurrence_statistics 17/17 -> 23/23 (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] |