Lamp1 (mouse) review notes

Session 1 (2026-10-28)

• Fetched P11438 (Lamp1, MGI:96745, GeneID 16783); 124 GOA rows, dominated by
  lysosome/late endosome IDA rows from papers using Lamp1 as a marker (MGI).
• No deep-research API available; manual synthesis in Lamp1-deep-research-manual.md.
• PMID:22147702 was flagged as "key" by the batch task, but it only uses an anti-rat
  LAMP-1 antibody as a lysosomal marker in rat hepatoma cells
  PMID:22147702.
  Cited as LOW relevance background.

Decisions

• Root organelle lysosome rows (IDA/ISO/IEA): ACCEPT per projects/ORGANELLES.md;
  lysosomal membrane is already present as a separate row set (ACCEPT).
• late endosome, endosome, vesicle, cytolytic granule, phagocytic vesicle,
  cytoplasm, membrane: correct but general for a type I membrane protein -> MODIFY to the
  membrane sub-term the gene already carries.
• Core MF: ion channel inhibitor activity (TMEM175) in lysosomal lumen acidification
  PMID:37390818.
  This is human data; mouse carries it by ISS/ISO. Lamp1-/- mice have normal lysosomal pH
  PMID:10212251,
  consistent with LAMP-2 redundancy.
• lysosomal lumen pH elevation ISO (GO:0035752): direction inverted relative to the
  TMEM175-inhibition biology; human source row no longer in GOA. MODIFY to lysosomal lumen
  acidification + source defect.
• proton transmembrane transport ISO: LAMP1 does not transport protons; it inhibits TMEM175.
  MODIFY to GO:0010155 regulation of proton transport (no negative-regulation term exists).
• autophagic cell death ISO from rat (RGD IDA PMID:18690537): rat paper used lamp1 as a
  marker in dying oocytes -> REMOVE + RGD source defect.
• spermatogenesis TAS (PMID:18689890): testis-EST evolution paper, no Lamp1 statement; KO
  fertile -> REMOVE.
• cytosol IEA (GO_REF:0000108 from Golgi-to-lysosome transport): wrong for a luminal/TM
  protein -> REMOVE.
• Bare protein binding (amelogenin, ABCB9) -> REMOVE per policy.
• phagocytic vesicle IMP (PMID:22190682, AgBase): location established by imaging; IMP
  code describes Salmonella/Stx6 perturbations -> WRONG_EVIDENCE_CODE CHECK.