Fix boric acid mapping: consolidate CHEBI:33134 → CHEBI:33118 (#574)

* Fix boric-acid row: chebi_id/culturemech_term_id CHEBI:33134 → CHEBI:33118

mappings/culturebotai_reviewed_ingredients.tsv row 141 ("Boric Acid", 168
occurrences) carried CHEBI:33134 in chebi_id and culturemech_term_id.
CHEBI:33134 is "1H-phosphole", not boric acid; the correct term is CHEBI:33118
(boric acid, cas:10043-35-3) — already present in the row's cas_rn /
kg_microbe_node_id / mim_id columns.

This source (priority=10 in scripts/consolidate_chemical_mappings.py) is what
injected the spurious "CHEBI:33134 = Boric Acid" entity — and its whole synonym
cluster — into kgmicrobe_unified_entity_mappings.sssom.tsv.gz. Regenerating the
unified SSSOM from this corrected source removes it (separate commit).

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>

* unified SSSOM: remove spurious CHEBI:33134 "Boric Acid" entity (17 rows)

CHEBI:33134 is "1H-phosphole", not boric acid. The corrected source
(culturebotai_reviewed_ingredients.tsv, prior commit) no longer injects it, but
the consolidator seeds from its own previous output and unions synonyms, so the
stale entity survives a re-run — it must be removed directly. Removed 17 rows:

  13  object_id == CHEBI:33134  (the bad "Boric Acid" entity): the backwards
      CHEBI:33118 -> skos:exactMatch -> CHEBI:33134 row, cas:10043-35-3 -> 33134,
      and 11 kgm.name:* -> 33134 synonym rows.
   1  subject_id == CHEBI:33134  (CHEBI:33134 -> CHEBI:33118 forward row):
      dropped rather than kept as a deprecated alias — 33134 is a real, distinct
      chemical (phosphole), so asserting it exactMatches boric acid is false.
   3  phosphole names cross-contaminated onto boric acid CHEBI:33118:
      kgm.name:{phosphole,1h-phosphole,1h-phospholeaindene} -> CHEBI:33118.
      These are 33134's real ChEBI synonyms, dragged in by the id collision;
      phosphole is not a boric-acid synonym.

CHEBI:33134 now appears nowhere in the unified mappings. Boric acid CHEBI:33118
retains its 8 genuine kgm.name synonyms (h3bo3, boh3, boric_acid, h3bo,
boron_trihydroxide, orthoboric_acid, trihydroxidoboron, h3bo3baker_0084) and 15
xref rows. Row count 598244 -> 598227.

Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>

---------

Co-authored-by: Claude Fable 5 <noreply@anthropic.com>

Author: realmarcin

mappings/culturebotai_reviewed_ingredients.tsv

@@ -138,7 +138,7 @@ Methanol	173	CHEBI:17790	67-56-1	CHEBI:17790	CHEBI:17790	CHEBI:17790	MAPPED	Cult
 Iron (II) sulfate heptahydrate	173	CHEBI:75836	7782-63-0		CHEBI:75836	CHEBI:75836	MAPPED	CultureMech:015457; CultureMech:015458; CultureMech:015459
 Bacto Yeast Extract (Difco)	172		8013-01-2		FOODON:03315426		MAPPED	CultureMech:008724; CultureMech:009578; CultureMech:008519
 L-Glutamine	172	CHEBI:18050	56-85-9	CHEBI:18050	CHEBI:18050	CHEBI:18050	MAPPED	CultureMech:003664; CultureMech:003729; CultureMech:005218
-Boric Acid	168	CHEBI:33134	10043-35-3	CHEBI:33118	CHEBI:33118	CHEBI:33134	MAPPED	CultureMech:015450; CultureMech:015451; CultureMech:015452
+Boric Acid	168	CHEBI:33118	10043-35-3	CHEBI:33118	CHEBI:33118	CHEBI:33118	MAPPED	CultureMech:015450; CultureMech:015451; CultureMech:015452
 Bromothymol blue	168	CHEBI:86155	76-59-5		CHEBI:86155	CHEBI:86155	MAPPED	CultureMech:004155; CultureMech:004261; CultureMech:005068
 Pyridoxine HCl	168	CHEBI:131531	5103-96-8		CHEBI:131531	CHEBI:131531	MAPPED	CultureMech:007317; CultureMech:007318; CultureMech:007319
 Magnesium Sulfate Heptahydrate	166	CHEBI:86463	10043-67-1		CHEBI:86463	CHEBI:86463	MAPPED	CultureMech:015450; CultureMech:015451; CultureMech:015452