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GeneE
10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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MS4A4E
membrane spanning 4-domains A4E
Chromosome 11 · 11q12.2
NCBI Gene: 643680Ensembl: ENSG00000214787.11HGNC: HGNC:14284UniProt: A0A494C1L8
8PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
DATA QUALITY
✓ Swiss-Prot Reviewed
membraneAlzheimer diseasedementiaIschemic strokelate-onset Alzheimers disease
✦AI Summary

MS4A4E encodes a membrane-spanning protein with four transmembrane domains and is primarily recognized for its role in Alzheimer's disease (AD) susceptibility. As a member of the MS4A gene cluster, MS4A4E was identified as a novel AD risk locus through genome-wide association studies 1. The gene demonstrates functional relevance in immune response pathways; transcriptomic analysis shows MS4A4E expression is downregulated during monocyte-to-macrophage differentiation, clustering with genes associated with cell cycle and DNA replication processes 2. MS4A4E exhibits age-dependent genetic effects on AD risk, with stronger associations in younger-onset AD (60-79 years) 3, and shows genetic interactions with CLU and CD33 variants that significantly modulate AD susceptibility independent of APOE ε4 status 4. The CLU-MS4A4E interaction shows a combined odds ratio of 2.45 and population attributable fraction of 8%, representing one of the strongest non-APOE/APP/TREM2 associations in AD 4. Additionally, MS4A4E expression shows age-dependent variance changes in brain tissue, suggesting differential regulation across the lifespan 5. Recent evidence implicates MS4A4E in early-onset AD through shared genetic architecture with lipid metabolism pathways 6, and associations have been validated across diverse populations including Han Chinese 7.

Sources cited
1
MS4A4E identified as new Alzheimer's disease susceptibility locus through GWAS meta-analysis
PMID: 21460840
2
MS4A4E expression downregulated during PMA-induced monocyte-to-macrophage differentiation, associated with cell cycle processes
PMID: 37459313
3
MS4A4E shows age-dependent genetic effects with larger effects at younger AD onset (60-79 years)
PMID: 30979435
4
CLU-MS4A4E interaction modulates AD risk with synergy factor 2.23, OR 2.45, and 8% population attributable fraction
PMID: 26449541
5
MS4A4E expression shows differential dispersion by aging in brain tissue across age groups
PMID: 27536236
6
MS4A4E implicated in early-onset AD through genetic covariance with lipid traits
PMID: 40096060
7
MS4A4E variants (rs670139) associated with late-onset AD in Han Chinese populations
PMID: 25452228
8
CD33-MS4A4E and CLU-MS4A4E interactions identified with synergy factors improving AD prediction performance
PMID: 23954108
Disease Associationsⓘ20
Alzheimer diseaseOpen Targets
0.35Weak
dementiaOpen Targets
0.33Weak
Ischemic strokeOpen Targets
0.28Weak
late-onset Alzheimers diseaseOpen Targets
0.22Weak
deep vein thrombosisOpen Targets
0.07Suggestive
hypertriglyceridemia 2Open Targets
0.06Suggestive
familial hypercholesterolemiaOpen Targets
0.06Suggestive
neurodegenerative diseaseOpen Targets
0.05Suggestive
thyroid hormone metabolism, abnormal, 2Open Targets
0.05Suggestive
Combined hyperlipidemiaOpen Targets
0.05Suggestive
sitosterolemia 2Open Targets
0.05Suggestive
homozygous familial hypercholesterolemiaOpen Targets
0.04Suggestive
hypoparathyroidism, familial isolated, 2Open Targets
0.04Suggestive
central nervous system cancerOpen Targets
0.04Suggestive
venous thromboembolismOpen Targets
0.04Suggestive
hypercholesterolemia, autosomal dominant, 3Open Targets
0.04Suggestive
pseudohypoparathyroidism type 2Open Targets
0.04Suggestive
hyperlipidemia due to hepatic triglyceride lipase deficiencyOpen Targets
0.04Suggestive
pancreatic triacylglycerol lipase deficiencyOpen Targets
0.04Suggestive
neutropenia, severe congenital, 1, autosomal dominantOpen Targets
0.04Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
MS4A8Protein interaction98%MS4A10Protein interaction98%MS4A12Protein interaction92%MS4A6EProtein interaction92%BIN1Protein interaction82%CLUProtein interaction82%
Tissue Expression6 tissues
Liver
100%
Bone Marrow
47%
Lung
25%
Ovary
18%
Heart
6%
Brain
4%
Gene Interaction Network
Click a node to explore
MS4A4EMS4A8MS4A10MS4A12MS4A6EBIN1CLU
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted · UniProt B4DT89
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
1.86LoF Tolerant
pLIⓘ
0.01Tolerant
Observed/Expected LoF1.11 [0.56–1.86]
RankingsWhere MS4A4E stands among ~20K protein-coding genes
  • #17,653of 20,598
    Most Researched8
  • #16,920of 17,882
    Most Constrained (LOEUF)1.86
Genes detectedMS4A4E
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Optimization of differentiation and transcriptomic profile of THP-1 cells into macrophage by PMA.
PMID: 37459313
PLoS One · 2023
1.00
2
Interaction between variants in CLU and MS4A4E modulates Alzheimer's disease risk.
PMID: 26449541
Alzheimers Dement · 2016
0.90
3
Aging Shapes the Population-Mean and -Dispersion of Gene Expression in Human Brains.
PMID: 27536236
Front Aging Neurosci · 2016
0.80
4
Population-based analysis of Alzheimer's disease risk alleles implicates genetic interactions.
PMID: 23954108
Biol Psychiatry · 2014
0.70
5
Local genetic covariance analysis with lipid traits identifies novel loci for early-onset Alzheimer's Disease.
PMID: 40096060
PLoS Genet · 2025
0.60