Ontology mapping
- Primary identifier
-
CHEBI:32142 - Ontology label
- sodium citrate dihydrate
- kg-microbe node
CHEBI:32142
Physicochemical roles
- Role
- BUFFER
- Confidence
- 1.0
- Evidence
- Reference type
- DATABASE_ENTRY
- Reference text
- Imported from CultureMech pipeline
- Curator note
- Original role text: Buffer
Synonyms (11)
| Synonym | Type | Source | Occurrences |
|---|---|---|---|
| Role: Buffer; Properties: Defined component, Simple component, Organic compound | RAW_TEXT | CultureMech | |
| Role: Buffer; Properties: Organic compound, Defined component, Simple component | RAW_TEXT | CultureMech | |
| Role: Buffer; Properties: Organic compound, Simple component, Defined component | RAW_TEXT | CultureMech | |
| Role: Buffer; Properties: Simple component, Organic compound, Defined component | RAW_TEXT | CultureMech | |
| Citronensaeure,Trinatrium-Salz-Dihydrat | EXACT_SYNONYM | kg_microbe | |
| Na2citrate | EXACT_SYNONYM | kg_microbe | |
| Na3Citrate | EXACT_SYNONYM | kg_microbe | |
| Na3‐citrate | EXACT_SYNONYM | kg_microbe | |
| Sodiumcitrate | EXACT_SYNONYM | kg_microbe | |
| Trisodium citrate dehydrate | EXACT_SYNONYM | kg_microbe | |
| trisodium 2-hydroxypropane-1,2,3-tricarboxylate--water (1/2) | EXACT_SYNONYM | kg_microbe |
Rejected enrichment labels (1)
Provenance-only candidates: these are not synonyms and do not resolve to this record.
| Rejected label | Disposition | Source | Occurrences |
|---|---|---|---|
| trisodium 2-hydroxypropane-1,2,3-tricarboxylate | REJECTED_LABEL | chebi_synonym_review |
Chemical properties
- Cas rn
- 6132-04-3
- Data source
- CultureBotHT compounds_to_cas.csv
- Retrieval date
- 2026-04-05T21:48:45.754074+00:00
- Molecular formula
- C6H5O7.3Na
- Inchi
- InChI=1S/C6H8O7.3Na/c7-3(8)1-6(13,5(11)12)2-4(9)10;;;/h13H,1-2H2,(H,7,8)(H,9,10)(H,11,12);;;/q;3*+1/p-3
- Smiles
- O=C([O-])CC(O)(CC(=O)[O-])C(=O)[O-].[Na+].[Na+].[Na+]
Evidence (2)
DATABASE_MATCH
via CultureMech
Imported from CultureMech pipeline, quality=DIRECT_MATCH
MANUAL_REVIEW
via family_mismatch_fix
fix(family-mismatch): was CHEBI:32142 (sodium citrate dihydrate); generic "Sodium Citrate" name maps to the anhydrous parent CHEBI:53258 (matches sibling MIM:Trisodium_Citrate convention). CAS-RN 6132-04-3 is the dihydrate registry number — kept for synonymy but the canonical ontology mapping is the parent. Hydrate-specific records (Na3-citrate_X_2_H2o, Trisodium_Citrate_X_2_H2o) retain their own mappings.
Occurrence statistics
- Total occurrences
- 0
- Distinct media
- 0
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 |
| 2026-04-05T21:48:45.754075+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:6132-04-3 from CultureBotHT compounds_to_cas.csv (matched: Sodium Citrate) |
| 2026-04-05T21:48:45.756070+00:00 | fetch_cas_rn_from_culturebot_csv | ADDED_CAS_RN | MAPPED | Added CAS-RN:6132-04-3 from CultureBotHT compounds_to_cas.csv (matched: sodium citrate) |
| 2026-04-18T00:00:00+00:00 | cbclaw_kg_microbe_sweep LLM | ADDED_SYNONYMS | MAPPED | Added 7 synonyms from kg-microbe P4.4 enrichment: Citronensaeure,Trinatrium-Salz-Dihydrat, Na2citrate, Na3Citrate, Na3‐citrate, Sodiumcitrate, ... (2 more) |
| 2026-04-19T07:39:23.955331+00:00 | audit_mim_merge | MERGED_FROM_DUPLICATES | MAPPED | Absorbed 1 duplicate MIM record(s) into this one: Sodium_Citrate_3.yaml. Synonyms, curation_history, and occurrence counts were unioned/summed; winner selected by highest occurrence count with preferred_term readability tie-break. |
| 2026-05-01T07:35:36.235927+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (CHEBI primary) | |
| 2026-05-01T08:08:32.324568+00:00 | auto_classify_ingredient_type | AUTO_BACKFILL_CHEBI_CHEMISTRY | molecular_formula=C6H5O7.2H2O.3Na; inchi=InChI=1S/C6H8O7.3Na.2H2O/c7-3(8)1-6(13,5(11)12)2-4; smiles=O.O.O=C([O-])CC(O)(CC(=O)[O-])C(=O)[O-].[Na+].[Na+ | |
| 2026-05-02T03:12:18.346349+00:00 | auto_classify_ingredient_type | AUTO_CLASSIFY_INGREDIENT_TYPE | set ingredient_type=SINGLE_INGREDIENT (chemical structure populated (molecular_formula)) | |
| 2026-05-02T15:00:00+00:00 | family_mismatch_fix | REMAPPED_ONTOLOGY | CHEBI:32142 (sodium citrate dihydrate) → CHEBI:53258 (sodium citrate); generic ingredient name "Sodium Citrate" should use anhydrous parent (matches MIM:Trisodium_Citrate convention). Cleared chemical_properties molecular_formula/inchi/smiles (were dihydrate-specific) and kg_microbe_node_id for re-backfill against the new CHEBI. CAS-RN 6132-04-3 retained as a synonym registry but is technically the dihydrate's registry number. | |
| 2026-05-02T23:59:52.838836+00:00 | auto_classify_ingredient_type | AUTO_BACKFILL_CHEBI_CHEMISTRY | molecular_formula=C6H5O7.3Na; inchi=InChI=1S/C6H8O7.3Na/c7-3(8)1-6(13,5(11)12)2-4(9)10; smiles=O=C([O-])CC(O)(CC(=O)[O-])C(=O)[O-].[Na+].[Na+].[N | |
| 2026-05-29T23:35:36.112812+00:00 | extract_roles_from_synonyms | ANNOTATED | Added media role: BUFFER (confidence: 1.00) | |
| 2026-07-20T00:00:00+00:00 | migrate_media_roles_to_facets | ANNOTATED | Migrated legacy media_roles to role facets (#128): BUFFER -> physicochemical_roles.BUFFER | |
| 2026-08-13T00:00:00+00:00 | reground_cas_specific_form | MERGED_INTO | Merged into CHEBI:32142 'Na3-citrate x 2 H2O'; its CAS 6132-04-3 denotes the dihydrate (#320). Tombstoned REJECTED, SSSOM rows dropped. | |
| 2026-08-15T00:00:00+00:00 | fix_tombstone_pointers | REFRESHED_TOMBSTONE_ONTOLOGY_ID | ontology_id CHEBI:53258 -> CHEBI:32142 (#360). The merge set identifier and status but left ontology_mapping untouched, so this tombstone kept advertising a term it no longer asserts — anything indexing by ontology_id routed through it. Now agrees with the merge target 'Na3-citrate x 2 H2O'. Provenance is unaffected: what the record used to assert is in this history. | |
| 2026-09-09T00:00:00+00:00 | fix_kg_microbe_node_id_drift | CORRECTED | kg_microbe_node_id CHEBI:53258 -> CHEBI:32142 (#554). The compatibility node id lagged a same-prefix identifier correction; the downstream node id must match the curated identifier unless a record intentionally crosses CURIE prefixes. | |
| 2026-09-23T06:21:57.674086+00:00 | claude LLM | REJECTED_WRONG_FORM_SYNONYMS | REJECTED | Retyped REJECTED_LABEL: 'trisodium 2-hydroxypropane-1,2,3-tricarboxylate' (EXACT_SYNONYM): the anhydrous trisodium citrate CHEBI:53258 name on the sodium citrate dihydrate CHEBI:32142 tombstone (#232). The token is kept as provenance only; it must not resolve, be exported, or enter the SSSOM other column. |