ARBA00089174 adaptive thermogenesis (GO:1990845)

id: ARBA00089174
description: >-
  Assigns GO:1990845 (adaptive thermogenesis) to Mus proteins that match both CATH FunFams 1.10.287.70:FF:000074
  and 1.25.40.20:FF:000018, which are named for transient receptor potential cation channel subfamily
  V member 1.
status: COMPLETE
rule_type: ARBA
rule:
  rule_id: ARBA00089174
  condition_sets:
  - number: 1
    conditions:
    - condition_type: FUNFAM
      value: 1.10.287.70:FF:000074
      curie: CATH.FunFam:1.10.287.70:FF:000074
      label: Transient receptor potential cation channel subfamily V member 1
      negated: false
    - condition_type: FUNFAM
      value: 1.25.40.20:FF:000018
      curie: CATH.FunFam:1.25.40.20:FF:000018
      label: Transient receptor potential cation channel subfamily V member 1
      negated: false
    - condition_type: TAXON
      value: Mus
      curie: NCBITaxon:10088
      label: Mus
      negated: false
    notes: >-
      Swiss-Prot entries matching the whole conjunction: 2 (UniProtKB query, 2026-11-10); unreviewed entries:
      7. Swiss-Prot matches: Q9EPK8 (Trpv4), Q704Y3 (Trpv1). Experimental annotation to GO:1990845 adaptive
      thermogenesis or an is_a/part_of descendant (QuickGO): Q704Y3 Trpv1 GO:0002024 diet induced thermogenesis
      IMP PMID:12161756 (MGI); Q9EPK8 Trpv4 GO:0002024 diet induced thermogenesis IMP PMID:23021218 (UniProt).
    pairwise_overlap:
    - condition_a: 1.10.287.70:FF:000074
      condition_b: 1.25.40.20:FF:000018
      protein_database: SWISSPROT
      count_a: 10
      count_b: 13
      intersection_count: 10
      a_minus_b_count: 0
      b_minus_a_count: 3
      jaccard_similarity: 0.7692307692307693
      containment_a_in_b: 1.0
      containment_b_in_a: 0.7692307692307693
      interpretation: SUBSET
  go_annotations:
  - go_id: GO:1990845
    go_label: adaptive thermogenesis
    aspect: BP
  entries:
  - id: 1.10.287.70:FF:000074
    type: FUNFAM
    label: Transient receptor potential cation channel subfamily V member 1
    appears_in_condition_sets:
    - 1
    protein_count: 10
    related_entries:
    - relationship: PREDICTS
      target_id: 1.25.40.20:FF:000018
      containment: 1.0
      jaccard_similarity: 0.769
      intersection_count: 10
      exclusive_count: 0
    - relationship: PREDICTS
      target_id: GO:1990845
      containment: 0.7
      jaccard_similarity: 0.051
      intersection_count: 7
      exclusive_count: 3
  - id: 1.25.40.20:FF:000018
    type: FUNFAM
    label: Transient receptor potential cation channel subfamily V member 1
    appears_in_condition_sets:
    - 1
    protein_count: 13
    related_entries:
    - relationship: PREDICTED_BY
      target_id: 1.10.287.70:FF:000074
      containment: 0.769
      jaccard_similarity: 0.769
      intersection_count: 10
      exclusive_count: 3
    - relationship: PREDICTS
      target_id: GO:1990845
      containment: 0.538
      jaccard_similarity: 0.05
      intersection_count: 7
      exclusive_count: 6
  reviewed_protein_count: 0
  unreviewed_protein_count: 0
  created_date: '2025-03-21'
  modified_date: '2026-05-04'
  source_condition_set_count: 1
  retrieved_date: '2026-11-09'
review_summary: >-
  The live rule has one condition set and it was examined. Its Swiss-Prot matches are mouse Trpv1 (Q704Y3)
  and mouse Trpv4 (Q9EPK8); both are annotated by IMP to GO:0002024 diet induced thermogenesis, an is_a/part_of
  descendant of adaptive thermogenesis. Seven unreviewed Mus entries also match. The PM20D1 condition
  set described in the previous version of this review is no longer in the rule.
action: ACCEPT
action_rationale: >-
  The single condition set is restricted to Mus and both reviewed matches carry an experimental annotation
  to a descendant of the rule term. The set matches TRPV4 as well as TRPV1, and both are supported.
annotation_assessments:
- annotation_kind: GO_TERM
  value: GO:1990845
  label: adaptive thermogenesis
  assessment: CORRECT
  correct_examples:
  - Q704Y3
  - Q9EPK8
  notes: >-
    Q704Y3 Trpv1 GO:0002024 diet induced thermogenesis IMP PMID:12161756 (MGI); Q9EPK8 Trpv4 GO:0002024
    IMP PMID:23021218 (UniProt). QuickGO ancestors (is_a, part_of) of GO:0002024 include GO:1990845.
confidence: 0.75
references:
- id: PMID:12161756
  title: Altered urinary bladder function in mice lacking the vanilloid receptor TRPV1.
- id: PMID:23021218
  title: >-
    TRPV4 is a regulator of adipose oxidative metabolism, inflammation, and energy homeostasis.
corrections:
- date: '2026-11-10'
  withdrawn_claim: Replace the term with GO:1990847, positive regulation of adaptive thermogenesis.
  correction: GO:1990847 is an obsolete, unrelated term.
  error_type: WRONG_IDENTIFIER_MEANING
  evidence:
  - >-
    QuickGO GO:1990847: obsolete peptide pheromone transmembrane export involved in positive regulation
    of conjugation with cellular fusion
- date: '2026-11-10'
  withdrawn_claim: >-
    GO:0019233 is sensory perception of temperature and GO:0055080 is cellular response to heat.
  correction: GO:0019233 is sensory perception of pain and GO:0055080 is monoatomic cation homeostasis.
  error_type: WRONG_IDENTIFIER_MEANING
  evidence:
  - 'QuickGO GO:0019233 label: sensory perception of pain'
  - 'QuickGO GO:0055080 label: monoatomic cation homeostasis'
- date: '2026-11-10'
  withdrawn_claim: >-
    The rule has two condition sets, PM20D1 FunFams in Eukaryota and TRPV1 FunFams in Mus, and the Eukaryota
    scope of the PM20D1 set is too broad.
  correction: >-
    The live rule has only the TRPV1 FunFam set restricted to Mus, so the taxonomic criticism no longer
    applies.
  error_type: STALE_RULE_VERSION
  evidence:
  - >-
    https://rest.uniprot.org/arba/ARBA00089174 retrieved 2026-11-09, modifiedDate 2026-05-04, one condition
    set
- date: '2026-11-10'
  withdrawn_claim: >-
    PM20D1 is a direct thermogenic executor for which the term is appropriate, and also both PM20D1 and
    TRPV1 are regulators that need a regulation term.
  correction: >-
    The two statements contradict each other and neither rested on a curated annotation; the reviewed
    matches of the live set are annotated to a descendant of the rule term, not to a regulation term.
  error_type: OTHER
  evidence:
  - UniProtKB:Q704Y3 GO:0002024 IMP PMID:12161756 (MGI)
  - UniProtKB:Q9EPK8 GO:0002024 IMP PMID:23021218 (UniProt)
- date: '2026-11-10'
  withdrawn_claim: Literature support is strong, on the evidence of three AI-generated deep-research reports.
  correction: >-
    Those reports are not literature; the block was removed and the curated annotations are cited instead.
  error_type: UNSUPPORTED_SOURCE
  evidence:
  - >-
    Previous supported_by entries cited only ARBA00089174-deep-research-perplexity.md and ARBA00089174-deep-research-falcon.md
- date: '2026-11-10'
  withdrawn_claim: One of two fully overlapping FunFams should be removed.
  correction: >-
    The overlap was measured on 10 Swiss-Prot proteins only and was not tested on unreviewed entries.
  error_type: SAMPLE_OVERGENERALISED
  evidence:
  - >-
    Previous pairwise_overlap: count_a 10, count_b 10, intersection 10, protein_database SWISSPROT