# NO_DATA re-action decisions (projects/NO_DATA.md), consumed by
# projects/NO_DATA/scripts/apply_acceptance_rule.py.
#
# One entry per ND row the pass changed. decision STALE keeps the earlier
# REMOVE/MODIFY and adds nd_case STALE: the review cites literature on this
# gene product, in this species, that identifies a function in the aspect.
# A STALE entry may set action (when the earlier action is not usable on an ND
# row), quotes (the literature that makes the ND stale, added to supported_by)
# and note (appended to the reason).
# decision ACCEPT keeps the ND row: the review's evidence for the aspect is
# inferred or from other species. Decisions were made by reading each row
# and the review's other rows in the aspect, not by a new literature search.
# new_row: the earlier MODIFY proposed a term the review carries nowhere else;
# the term is kept as its own NEW row with the earlier quotes. Where the term
# already has a row, the earlier quotes stay with that row and are dropped here.
decisions:
- gene: ARATH/MLO2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: ARATH/PGLP1
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: ARATH/PLGG1
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: ARATH/Q1G3K8
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: CANAL/ATG8
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the C. albicans paper cited in core_functions (PMID:31284951) is on Atg11 and does not assay Atg8 lipid binding.'
- gene: CANAL/CBR1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions (PMID:27694803, PMID:34154323) are on S. cerevisiae Cbr1/Dph3.'
- gene: CANAL/CEK1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the C. albicans Cek1 papers cited in core_functions (PMID:9596738, PMID:19563901) report signalling and cell-wall phenotypes, not a localization.'
- gene: CANAL/CHS7
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the C. albicans chs7 study cited in core_functions (PMID:16079341) reports a chitin phenotype, not the chaperone activity.'
- gene: CANAL/ERG2
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/ERG8
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:11243736) is a comparative study of phosphomevalonate kinases, not a C. albicans localization.'
- gene: CANAL/ERG9
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the azole study cited in core_functions (PMID:39060235) does not assay squalene synthase activity.'
- gene: CANAL/HSP78
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/HSP78
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/LPL1
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/LPL1
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/LPL1
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: CANAL/MCR1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
- gene: CANAL/MCR1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: CANAL/MON1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the GEF papers cited in core_functions (PMID:14662743, PMID:24413168) are on S. cerevisiae Mon1-Ccz1.'
- gene: CANAL/MON1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions (PMID:14662743, PMID:24413168) are on S. cerevisiae Mon1-Ccz1.'
- gene: CANAL/RIM9
  term: GO:0005575
  aspect: CC
  earlier_action: TOO_GENERAL
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the plasma-membrane statement in PMID:37888991 is background on the Rim pathway, and PMID:19230847 reports a C. albicans signalling requirement, not a localization.'
- gene: CANAL/SEC11
  term: GO:0008150
  aspect: BP
  earlier_action: TOO_GENERAL
  decision: ACCEPT
  note: PMID:32102426 is a review of Candida secretory pathways that describes signal peptidase in general
    terms.
- gene: CANAL/TVP18
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: The TVP18 knockout study cited (PMID:33263222) reports a Golgi phenotype, not a molecular activity.
- gene: CANAL/TVP18
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the Golgi-stacking knockout study cited in core_functions (PMID:33263222) is in Pichia pastoris.'
- gene: CANAL/VMA8
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:7797485) is on S. cerevisiae VMA8.'
- gene: CANAL/VMA8
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:7797485) is on S. cerevisiae VMA8.'
- gene: CANAL/VMA8
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:7797485) is on S. cerevisiae VMA8.'
- gene: CANAL/YTM1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions are on S. cerevisiae and human preribosome assembly.'
- gene: CANAL/YTM1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions are on S. cerevisiae and human preribosome assembly.'
- gene: DANRE/elna
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: DANRE/elna
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: DANRE/elnb
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: DANRE/elnb
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: DANRE/lhfpl5b
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: The zebrafish data (PMID:32009898) show lhfpl5b is required for lateral-line transduction, which
    is necessity, not a molecular activity; the accessory-subunit activity rests on mouse LHFPL5.
- gene: DICDI/drkA
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the DrkA study cited in core_functions (PMID:31002205) assays kinase activity, not localization.'
- gene: DICDI/pufA
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:10375515, cited in core_functions, shows PufA translational regulation, not a localization.'
- gene: DROME/CG14662
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISM
    qualifier: located_in
- gene: DROME/CG31606
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISM
    qualifier: located_in
- gene: DROME/CG42404
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:8630060) is on mammalian SEZ-12.'
- gene: DROME/CG42763
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISM
    qualifier: located_in
- gene: DROME/CG43124
  term: GO:0005575
  aspect: CC
  earlier_action: TOO_GENERAL
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:30367934, cited in core_functions, is a computational survey of serine protease-related proteins.'
- gene: DROME/CG43124
  term: GO:0008150
  aspect: BP
  earlier_action: TOO_GENERAL
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:30367934, cited in core_functions, is a computational survey of serine protease-related proteins.'
- gene: DROME/CG43742
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:30367934, cited in core_functions, is a computational survey of serine protease-related proteins.'
- gene: DROME/CG43742
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:30367934, cited in core_functions, is a computational survey of serine protease-related proteins.'
- gene: DROME/CG43742
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:30367934, cited in core_functions, is a computational survey of serine protease-related proteins.'
- gene: DROME/Dph1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
- gene: DROME/Dph2
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
- gene: DROME/GatC
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: DROME/Kpc1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: DROME/Kpc2
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: DROME/Mo25
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: DROME/Tango5
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: enables
  note: 'Re-checked 2026-10-31: the scramblase assays cited in core_functions are on human VMP1 (PMID:33929485); the Drosophila study (PMID:34019822) is genetic and does not assay the activity.'
- gene: DROME/Tango5__Q9W2S1
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the scramblase assays cited in core_functions are on human VMP1 (PMID:33929485); the Drosophila study (PMID:34019822) is genetic and does not assay the activity.'
- gene: DROME/Tcs6
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the KEOPS papers cited in core_functions (PMID:25629598, PMID:34614169) are reviews across other species.'
- gene: DROME/Tcs6
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: STALE
- gene: DROME/Tcs6
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: DROME/Vps50
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: contributes_to
  note: 'Re-checked 2026-10-31: the tethering papers cited in core_functions are on human EARP and a Rab-effector map (PMID:25799061, PMID:25453831).'
- gene: DROME/Vps51
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: contributes_to
  note: 'Re-checked 2026-10-31: the tethering papers cited in core_functions are on human GARP/EARP and a Rab-effector map (PMID:25795912, PMID:25799061, PMID:25453831).'
- gene: DROME/Vps53
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: contributes_to
  note: 'Re-checked 2026-10-31: the tethering papers cited in core_functions are on human GARP/EARP and a Rab-effector map (PMID:25795912, PMID:25799061, PMID:25453831).'
- gene: DROME/cGlr1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:34261127, cited in core_functions, characterizes cGLR1''s RNA sensing and product, not its localization.'
- gene: DROME/hbt
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: DROME/skl
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: DROME/unc79
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: SCHPO/SPCC16C4.02c
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
- gene: SCHPO/SPCC16C4.02c
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: SCHPO/ahk1
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: SCHPO/apc2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: The S. pombe papers cited (PMID:20924356, PMID:15060174) state the Apc2 scaffold role as background;
    the biochemistry behind it is on human and budding-yeast APC/C.
  new_row:
    evidence_type: ISS
    qualifier: enables
- gene: SCHPO/atg5
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
- gene: SCHPO/fmc1
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the paper cited in core_functions (PMID:11096112) is on S. cerevisiae FMC1.'
- gene: SCHPO/knh4
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: SCHPO/mmf2
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: SCHPO/mtl3
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: SCHPO/mtl3
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: SCHPO/tvp18
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: SCHPO/vms1
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: enables
  note: 'Re-checked 2026-10-31: the papers cited in core_functions (PMID:31011209, PMID:31189955) are on S. cerevisiae Vms1.'
- gene: SCHPO/ytm1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: core_functions cites S. cerevisiae papers and an Mdn1 interaction study (PMID:27667686); an interaction identifies no activity.'
- gene: human/AARSD1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/AARSD1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: human/ADISSP
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the secretion data cited in core_functions (PMID:36496438) are on mouse Adissp.'
- gene: human/AMDHD1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
- gene: human/AMTN
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/ANKRD40
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/ANKRD40
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: STALE
- gene: human/ARL15
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/ARL15
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: human/ASNSD1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
  note: The review refines the human high-throughput IPIs (PMID:36115835) to PDZ domain binding, an informative
    activity from literature on this gene product.
- gene: human/BBS9
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: human/CCDC40
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: human/CHCHD10
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/COX16
  term: GO:0003674
  aspect: MF
  earlier_action: MARK_AS_OVER_ANNOTATED
  decision: ACCEPT
- gene: human/HSCB
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: human/TAT
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: STALE
- gene: human/TIMM21
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
- gene: mouse/Capsl
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: mouse/Sdhaf2__Q8C6I2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISO
    qualifier: enables
  note: 'Re-checked 2026-10-31: the chaperone activity rests on human and yeast SDHAF2/SDH5 (PMID:32887801, PMID:19628817); the mouse study cited (PMID:38569044) shows a role in complex II assembly, not the activity.'
- gene: mouse/Shld2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  new_row:
    evidence_type: ISS
    qualifier: enables
  note: 'Re-checked 2026-10-31: the ssDNA-binding and adaptor assays cited in core_functions are on human SHLD2; the mouse study (PMID:32558186) is on class switch recombination, a process.'
- gene: rat/Aga
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: rat/Aoc1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: rat/Cyb5r3
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: rat/Sdsl
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: worm/bbs-1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:22922713, cited in core_functions, shows BBSome control of IFT in C. elegans, not a molecular activity of BBS-1.'
- gene: worm/che-13
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the C. elegans papers cited in core_functions (PMID:12651157, PMID:2428682) identify CHE-13 as an IFT component with a cilia phenotype, not a molecular activity.'
- gene: worm/mut-16
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: worm/nlp-29
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: worm/osm-5
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: The MF rows for this gene are inferred (IBA kinesin binding); none rests on C. elegans experiments.
- gene: yeast/AMD2
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/AMD2
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/AMD2
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/APS1
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/AVT2
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:11274162, cited in core_functions, groups AVT2 with the family by sequence; its transport assays are on other AVT proteins.'
- gene: yeast/AVT2
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/CAF120
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/COQ4
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: The decarboxylase paper cited (PMID:38295803) characterises COQ4 by complementation in E. coli and C. glutamicum, not in yeast; the activity rests on the IBA/IEA GO:0120539 rows.
- gene: yeast/COQ9
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the yeast Coq9 papers cited in core_functions (PMID:17391640, PMID:26008578) show complex membership and a deamination phenotype, not lipid binding.'
- gene: yeast/CRT10
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/DAK2
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  note: The genome-wide GFP study cited (PMID:14562095) gave DAK2 no localization row in GOA; the cytosol
    row is an IBA.
- gene: yeast/DPH1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/DPH2
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/ECM30
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions are a phylogeny (PMID:40899782) and a complex census (PMID:20620961).'
- gene: yeast/ESL1
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/ESL1
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/FSH3
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
  note: Re-checked 2026-10-31 against core_functions; activity-based protein profiling in S. cerevisiae (PMID:14645503) detects FSH3 as a catalytically active serine hydrolase.
  quotes:
  - reference_id: PMID:14645503
    supporting_text: Three of the previously uncharacterized proteins are members of a eukaryotic serine hydrolase family
- gene: yeast/FSH3
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/GAT2
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/KDX1
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE
  note: Re-checked 2026-10-31 against core_functions; in S. cerevisiae, Mlp1 is detected with activated Mpk1 in the Swi4/Swi6 complex at the FKS2 promoter (PMID:18268013), placing it in the cell integrity MAPK cascade.
  quotes:
  - reference_id: PMID:18268013
    supporting_text: Activated (phosphorylated) Mpk1 and Mlp1 were detected in a complex with Swi4 and Swi6 at the FKS2 promoter.
- gene: yeast/KDX1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: STALE
  note: Re-checked 2026-10-31 against core_functions; Mlp1 is detected at the FKS2 promoter in S. cerevisiae (PMID:18268013), which places it in the nucleus.
  quotes:
  - reference_id: PMID:18268013
    supporting_text: Activated (phosphorylated) Mpk1 and Mlp1 were detected in a complex with Swi4 and Swi6 at the FKS2 promoter.
- gene: yeast/LPX2
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/LPX2
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/MAD2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/MAD3
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/MCH2
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:11536335, cited in core_functions, found no monocarboxylate transport for the MCH proteins; the transporter activity is family-level.'
- gene: yeast/MCH2
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/MCO14
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:28658629, cited in core_functions, is a mitochondrial proteome and does not assay the dehydratase.'
- gene: yeast/MCO14
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/MDM10
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/MNN14
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/MNN14
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the Mnn14 papers cited in core_functions (PMID:33144549, PMID:28101612) assay its activity, not its localization.'
- gene: yeast/MNT4
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions are on Mnn1-family paralogs (PMID:10521541, PMID:9653120).'
- gene: yeast/MPS3
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/MTC7
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/NIP7
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/PTM1
  term: GO:0005575
  aspect: CC
  earlier_action: MARK_AS_OVER_ANNOTATED
  decision: STALE
  action: REMOVE
  note: Re-checked 2026-10-31 against core_functions; immunoisolation of S. cerevisiae Golgi compartments (PMID:16107716) localizes PTM1. The earlier MARK_AS_OVER_ANNOTATED is not used on an ND row, so the stale ND is removed.
  quotes:
  - reference_id: PMID:16107716
    supporting_text: we immunoisolated vesicles carrying either of the SNAREs Sed5 or Tlg2, the markers of the early and late Golgi compartments, respectively, and analyzed the membrane proteins
  - reference_id: file:yeast/PTM1/PTM1-uniprot.txt
    supporting_text: 'SUBCELLULAR LOCATION: Golgi apparatus membrane {ECO:0000269|PubMed:16107716}'
- gene: yeast/PTM1
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/SDD3
  term: GO:0008150
  aspect: BP
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/SMX2
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/SMX2
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/SNO2
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the papers cited in core_functions are on N. crassa and A. nidulans orthologs (PMID:11238395, PMID:10438537).'
- gene: yeast/SNO2
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/SPH1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: yeast/TDA5
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/THI11
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
  note: PMID:12777485 shows in S. cerevisiae that THI11 alone supports HMP formation.
- gene: yeast/THI12
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
  note: PMID:12777485 shows in S. cerevisiae that THI12 alone supports HMP formation.
- gene: yeast/THI5
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: STALE
- gene: yeast/TVP18
  term: GO:0003674
  aspect: MF
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
- gene: yeast/YET2
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: ACCEPT
- gene: yeast/YFH7
  term: GO:0005575
  aspect: CC
  earlier_action: KEEP_AS_NON_CORE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: PMID:18004758, cited in core_functions, is structural and enzymatic and does not localize YFH7.'
- gene: yeast/YTM1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the yeast Ytm1 papers cited in core_functions show complex membership with Nop7 and Erb1; an interaction identifies no activity.'
- gene: yeast/ZDS2
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: CANAL/LYS1
  term: GO:0005575
  aspect: CC
  earlier_action: REMOVE
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the C. albicans LYS1 papers cited in core_functions (PMID:16292576, PMID:1429460) are on enzyme mutants, not localization.'
- gene: mouse/Rtl1
  term: GO:0003674
  aspect: MF
  earlier_action: REMOVE
  decision: STALE
- gene: mouse/Rtl3
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: PMID:27446912 mentions the CCHC motif only as background in its introduction.
- gene: mouse/Rtl3
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: ACCEPT
  note: PMID:27446912 calls Zcchc5 nuclear only as background in its introduction; the nucleus row is
    IEA.
- gene: mouse/Rtl3
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl4
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: 'Re-checked 2026-10-31: the mouse Rtl4 papers cited in core_functions (PMID:26402067, PMID:39769499) report behaviour and secretion, not nucleic acid binding.'
- gene: mouse/Rtl4
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl5
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl5
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl6
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl6
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl8c
  term: GO:0003674
  aspect: MF
  earlier_action: MODIFY
  decision: ACCEPT
  note: The mouse in vivo UBQLN2-RTL8 interaction (PMID:35247097) cannot be assigned to Rtl8a, Rtl8b or
    Rtl8c, so it is not literature on this gene product; the adaptor activity rests on human RTL8.
  new_row:
    evidence_type: ISO
    qualifier: enables
- gene: mouse/Rtl8c
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: ACCEPT
  note: The process rests on human RTL8 (PMID:40680123); no paralog-resolved mouse data exist.
  new_row:
    evidence_type: ISO
    qualifier: involved_in
- gene: mouse/Rtl9
  term: GO:0005575
  aspect: CC
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Rtl9
  term: GO:0008150
  aspect: BP
  earlier_action: MODIFY
  decision: STALE
- gene: mouse/Scgb3a2
  term: GO:0008150
  aspect: BP
  earlier_action: REMOVE
  decision: STALE