rs3131296

This is a regulatory region variant variant in the NOTCH4 gene.

GWAS Catalog Trait Associations (2)

Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.

lean body mass

Harris BHL et al. New role of fat-free mass in cancer risk linked with genetic predisposition. Scientific Reports 14(1):7270 (2024)
Allele T
OR 0.02
p 1.0e-35
N 337,739
Large GWAS
European

schizophrenia

Stefansson H et al. Common variants conferring risk of schizophrenia. Nature 460(7256):744-7 (2009)
Allele G
OR 1.19
p 2.0e-10
N 16,161
Large GWAS
European

Research that mentions this SNP (6)

Search for schizophrenia susceptibility variants at the HLA-DRB1 locus among a British population
AssociationN=487Lorna Halley et al.(2013)· Immunogenetics

A candidate gene association study of HLA-DRB1 tagging SNPs in schizophrenia among 332 British cases (219 male, 113 female; mean age 32-36 years) and 155 controls (mean age 40-42 years) recruited through family-based (132 trios, 92 duos) and case-control designs. The DRB1*1303 allele showed marginal protective association (OR=0.42, 95% CI 0.27-0.66, χ²=4.138, P=0.042), and rs424232 showed significant protective association with schizophrenia (OR=0.69, 95% CI 0.54-0.88, χ²=9.404, P=0.002). The authors failed to confirm association of candidate DRB1 risk alleles but noted the association signal may extend beyond the HLA locus toward the NOTCH4 gene.

Traits studied:Schizophrenia
Functional genetic variation at the NRGN gene and schizophrenia: Evidence from a gene‐based case–control study and gene expression analysis
AssociationN=4,598Kazutaka Ohi et al.(2012)· American Journal of Medical Genetics Part B: Neuropsychiatric Genetics

A case-control study of 2,019 schizophrenia patients and 2,579 Japanese controls found the rs12807809-rs12278912 haplotype in the NRGN gene (chromosome 11q24.2) significantly associated with schizophrenia (global P = 0.0042). The TG haplotype was associated with increased risk (OR = 1.14, P = 0.0019), while the TA haplotype was protective (OR = 0.85, P = 0.0053). Gene expression analysis demonstrated the high-risk TG haplotype had significantly lower NRGN expression than the protective TA haplotype (P = 0.007 in HapMap samples, P = 0.002 in combined case-control samples).

Traits studied:Schizophrenia
Association of RANBP1 haplotype with smooth pursuit eye movement abnormality
ReviewHyun Sub Cheong et al.(2011)· American Journal of Medical Genetics Part B: Neuropsychiatric Genetics

This comprehensive review examines the genomics of schizophrenia and pharmacogenomics of antipsychotic drugs, synthesizing evidence on over 200 genes associated with psychotic disorders. The authors discuss five categories of genes relevant to antipsychotic response: disease-associated genes, mechanism-of-action genes, drug metabolism genes (particularly CYP2D6, CYP2C19, CYP2C9, CYP3A4), drug transporter genes, and pleiotropic genes. The review details pharmacogenomic profiles of 20+ antipsychotic drugs and demonstrates significant ethnic and interindividual variation in drug metabolism phenotypes, with examples including CYP2D6 extensive metabolizers (55.71% of population), intermediate metabolizers (34.7%), poor metabolizers (2.28%), and ultra-rapid metabolizers (7.31%).

Traits studied:Alzheimer diseaseAntipsychotic drug responseAntipsychotic drug side effectsAnxiety disordersBipolar disorderCNS disordersDepressive disorderParkinson's diseasePsychotic disordersSchizoaffective disorderSchizophreniaTardive dyskinesiaVascular dementia
Association analysis of ANK3 gene variants in nordic bipolar disorder and schizophrenia case–control samples
ReviewMartin Tesli et al.(2011)· American Journal of Medical Genetics Part B: Neuropsychiatric Genetics

This review comprehensively summarizes the latest genetic studies on schizophrenia, including family studies (heritability ~80%), genome-wide association studies, epigenetic mechanisms, candidate gene investigations, and next-generation sequencing findings. Key GWAS findings identified 108 schizophrenia-associated loci including variants in MIR137 (rs1625579), TCF4 (rs12966547), CSMD1 (rs10503253), CACNA1C (rs4765905), ANK3 (rs10761482), and MHC region variants, with evidence for polygenetic inheritance involving both common SNPs and rare copy number variations.

Traits studied:Auditory steady-state responseAutism spectrum disorderBipolar disorderCognitive impairmentMental retardationSchizophreniaSchizophrenia endophenotypesSchizophrenia with general psychopathologic symptomsSchizophrenia with negative symptomsSchizophrenia with positive symptomsSensory processing disorderTreatment-resistant schizophreniaUnipolar depression
Influence of neurexin 1 (NRXN1) polymorphisms in clozapine response
ReviewRenan P. Souza et al.(2010)· Human Psychopharmacology: Clinical and Experimental

This systematic review of 98 studies examined biological predictors of clozapine response in treatment-resistant schizophrenia patients. Of 379 different gene variants investigated across 70 genetic studies, only three variants (DRD3 Ser9Gly rs6280, HTR2A His452Tyr, and GNB3 C825T) achieved independent replication. Non-genetic predictors included higher prefrontal cortical volumes and lower HVA:5-HIAA ratio in cerebrospinal fluid.

Traits studied:Clozapine responseSchizophreniaTreatment-resistant schizophrenia
Lack of association of GPX1 and MnSOD genes with symptom severity and response to clozapine treatment in schizophrenia subjects
ReviewRenan P. Souza et al.(2009)· Human Psychopharmacology: Clinical and Experimental

A systematic review of 98 studies investigating biological predictors of clozapine response in treatment-resistant schizophrenia. Of 70 genetic studies examining 379 variants, only three genetic variants have independently replicated findings: DRD3 Ser9Gly (rs6280), HTR2A His452Tyr, and GNB3 C825T (rs5442/rs5443). Non-genetic predictors include higher prefrontal cortical structural integrity and activity, and lower HVA:5-HIAA ratio in cerebrospinal fluid.

Traits studied:Clozapine responseSchizophreniaTreatment-resistant schizophrenia

About NOTCH4

This gene encodes a member of the NOTCH family of proteins. Members of this Type I transmembrane protein family share structural characteristics including an extracellular domain consisting of multiple epidermal growth factor-like (EGF) repeats, and an intracellular domain consisting of multiple different domain types. Notch signaling is an evolutionarily conserved intercellular signaling pathway that regulates interactions between physically adjacent cells through binding of Notch family receptors to their cognate ligands. The encoded preproprotein is proteolytically processed in the trans-Golgi network to generate two polypeptide chains that heterodimerize to form the mature cell-surface receptor. This receptor may play a role in vascular, renal and hepatic development. Mutations in this gene may be associated with schizophrenia. Alternative splicing results in multiple transcript variants, at least one of which encodes an isoform that is proteolytically processed. [provided by RefSeq, Jan 2016]

View all NOTCH4 variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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