rs2523946

This variant is located in the HCG9 gene.

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GWAS Catalog Trait Associations (1)

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

IGA glomerulonephritis

Yu XQ et al. “A genome-wide association study in Han Chinese identifies multiple susceptibility loci for IgA nephropathy.” Nature Genetics 44(2):178-82 (2011)
Allele C
OR 1.21
p 2.0e-11
N 5,704
Large GWAS
East Asian
Li M et al. “Genome-Wide Meta-Analysis Identifies Three Novel Susceptibility Loci and Reveals Ethnic Heterogeneity of Genetic Susceptibility for IgA Nephropathy.” Journal of the American Society of Nephrology : Jasn 31(12):2949-2963 (2020)
Allele C
OR 1.22
p 2.0e-8
N 14,191
Meta-analysisLarge GWAS
multi-ancestry
Li M et al. “Identification of new susceptibility loci for IgA nephropathy in Han Chinese.” Nature Communications 6:7270 (2015)
Allele C
OR 1.32
p 5.0e-11
N 12,095
Large GWAS
East Asian
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Research that mentions this SNP (1)

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Hierarchical modeling identifies novel lung cancer susceptibility variants in inflammation pathways among 10,140 cases and 11,012 controls
AssociationN=21,152Darren R. Brenner et al.(2013)· Human Genetics

Two-stage GWAS of 10,140 lung cancer cases and 11,012 controls in inflammation pathways using hierarchical modeling identified one novel locus at rs2741354 in EPHX2 (p=7.4×10⁻⁶), and confirmed associations with TERT (rs2736100) and HLA region variants. Hierarchical modeling incorporating prior biological knowledge identified 32 replicated variants not captured by conventional maximum likelihood analysis.

Traits studied:Lung cancer
PubMedDOIMetascience Observatory

About HCG9

This gene lies within the MHC class I region on chromosome 6p21.3. This gene is believed to be non-coding, but its function has not been determined. [provided by RefSeq, Jul 2009]

View all HCG9 variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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