APP — 605 ClinVar variants

All ClinVar germline APP variants across every classification, each assembled from ClinVar, gnomAD, AlphaMissense, conservation and more. 234 flagged for review →

17 Pathogenic · 1 Pathogenic/Likely pathogenic · 9 Likely pathogenic · 32 Conflicting · 69 Benign · 20 Benign/Likely benign · 190 Likely benign · 267 Uncertain significance

Full APP gene report on Sugi Atlas → Gene function, pathways, protein structure, constraint & interactions

⚑ Evidence disagreements 234

Variants where the independent computational evidence doesn't line up with the clinical picture — a QC signal for a second look, not a reclassification.

Predictors vs ClinVar 9

ClinVar calls these pathogenic, but the computational predictors lean tolerated — the highest-value review flag.

Predictors agree, ClinVar conflicts 14

ClinVar submitters conflict, but the independent predictors unanimously agree — a QC review flag, not a reclassification.

Predictors lean, ClinVar uncertain 125

ClinVar classifies these uncertain (VUS), but the independent predictors unanimously lean one way — a triage signal for review, not a reclassification.

Predictors split 86

The independent predictors disagree with each other — read with care.

All APP variants

Pathogenic 17

Pathogenic/Likely pathogenic 1

Likely pathogenic 9

Conflicting classifications of pathogenicity 32

Benign 69

Benign/Likely benign 20

  • c.1224+16C>A Multiple submitters Alzheimer disease
  • c.1458+18C>T Multiple submitters cerebral amyloid angiopathy, APP-related
  • c.225+14G>A Multiple submitters Alzheimer disease
  • c.225+7C>A Multiple submitters Alzheimer disease
  • c.355+9G>A Multiple submitters Alzheimer disease
  • c.663-7T>C Multiple submitters Alzheimer disease
  • c.865+11A>G Multiple submitters Alzheimer disease
  • p.Ala673Thr Multiple submitters Alzheimer disease
  • p.Asn590= Multiple submitters Alzheimer disease
  • p.Asp247= Multiple submitters Alzheimer disease
  • p.Asp739= Multiple submitters Alzheimer disease
  • p.Glu599Lys Multiple submitters Alzheimer disease ⚠
  • p.Gly708= Multiple submitters cerebral amyloid angiopathy, APP-related
  • p.Phe435= Multiple submitters Alzheimer disease
  • p.Ser614Gly Multiple submitters cerebral amyloid angiopathy, APP-related
  • p.Thr14= Multiple submitters
  • p.Thr603= Multiple submitters Alzheimer disease
  • p.Tyr262= Multiple submitters Alzheimer disease
  • p.Val711= Multiple submitters Alzheimer disease
  • p.Val76Ile Multiple submitters Alzheimer disease

Likely benign 190

Uncertain significance 267