rs9594738

This is a regulatory region variant variant.

GWAS Catalog Trait Associations (7)

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

heel bone mineral density

Morris JA et al. An atlas of genetic influences on osteoporosis in humans and mice. Nature Genetics 51(2):258-266 (2019)
Allele C
OR 0.06
p 8.0e-170
N 426,824
Large GWAS
European

dentin matrix acidic phosphoprotein 1 amount

Allele T
OR 0.08
p 1.0e-49
N 47,745
Large GWAS
European

level of collagen alpha-1(V) chain in blood

Allele T
OR 0.07
p 1.0e-35
N 47,745
Large GWAS
European

sclerostin measurement

Allele T
OR 0.06
p 6.0e-35
N 47,745
Large GWAS
European
Allele T
OR 0.06
p 6.0e-14
N 33,961
Meta-analysisLarge GWAS
European

osteoporosis

Allele T
OR 0.14
p 4.0e-16
N 394,626
Large GWAS
European

Drugs affecting bone structure and mineralization use measurement

Allele T
OR 0.13
p 3.0e-15
N 215,668
Major Consortium StudyLarge GWAS
European
Sakaue S et al. A cross-population atlas of genetic associations for 220 human phenotypes. Nature Genetics 53(10):1415-1424 (2021)
Allele T
OR 0.13
p 3.0e-15
N 394,394
Large GWAS
multi-ancestry

bone tissue density

Allele T
OR
β 0.061
p 4.0e-27
N 66,945
Meta-analysisLarge GWAS
multi-ancestry
Styrkarsdottir U et al. Multiple genetic loci for bone mineral density and fractures. The New England Journal of Medicine 358(22):2355-65 (2008)
Allele T
OR 0.10
p 2.0e-8
N 5,861
Large GWAS
European

Research that mentions this SNP (4)

Polymorphisms in genes in the RANKL/RANK/OPG pathway are associated with bone mineral density at different skeletal sites in post-menopausal women
AssociationN=874Tu P. et al.(2015)· Osteoporosis International

A cross-sectional study of 881 postmenopausal Chinese women examined associations between 22 SNPs in the RANKL/RANK/OPG pathway genes (TNFSF11, TNFRSF11A, TNFRSF11B) and bone mineral density (BMD). Two TNFSF11 SNPs (rs2277439 and rs2324851; p=0.014, 0.013) and one TNFRSF11A SNP (rs7239261; p=0.047) were significantly associated with femoral neck BMD. A haplotype in TNFSF11 was a genetic risk factor for lower femoral neck BMD (beta=-0.1473; p=0.011), while another was protective for lumbar spine BMD (beta=0.3923; p=0.049).

Traits studied:Bone mineral density (BMD)Femoral neck bone mineral densityLumbar spine bone mineral density
Analyses of RANK and RANKL in the Post-GWAS Context: Functional Evidence of Vitamin D Stimulation Through a RANKL Distal Region
AssociationN=518Guy Yoskovitz et al.(2013)· Journal of Bone and Mineral Research

This genetic association study examined four SNPs in the RANK/RANKL/OPG signaling pathway in 518 elite athletes (125 with stress fractures, 376 controls). rs3018362 (RANK) and rs1021188 (RANKL) were significantly associated with stress fracture injury (p=0.008 and p=0.024, respectively). rs1021188 homozygotes were 2.93-fold more likely to have stress fractures (OR 2.93, 95% CI 1.18-7.28). In multiple stress fracture analysis, rs4355801 (OPG) carriers showed increased risk (OR 2.05). The RANK/RANKL/OPG pathway appears to contribute to stress fracture susceptibility in elite athletes.

Traits studied:Multiple stress fracturesStress fracture in elite athletesStress fracture injury
Influence of Polymorphisms in the RANKL/RANK/OPG Signaling Pathway on Volumetric Bone Mineral Density and Bone Geometry at the Forearm in Men
AssociationN=589Delnaz Roshandel et al.(2011)· Calcified Tissue International

This association study examined 589 European men to determine whether SNPs in RANKL, RANK, and OPG genes influence volumetric bone mineral density (vBMD) and bone geometry at the radius. The authors identified 12 OPG SNPs associated with vBMD and geometric parameters (e.g., rs10505348 associated with total vBMD β=9.35, P=0.011; rs2073618 associated with cortical vBMD β=-4.30, P=0.015), three RANK SNPs associated with vBMD including rs12956925 associated with trabecular vBMD β=-7.58, P=0.021, and five RANK SNPs associated with geometric parameters including rs8083511 associated with cross-sectional area β=8.90, P=0.029. No significant associations were found with RANKL SNPs, suggesting genetic variation in OPG and RANK influences radius bone density and geometry in men.

Traits studied:Bone geometryCortical thicknessCortical vBMDCross-sectional areaMedullary areaStress strain indexTotal vBMDTrabecular vBMDVolumetric bone mineral density
Genetic variation in the RANKL/RANK/OPG signaling pathway is associated with bone turnover and bone mineral density in men
AssociationN=159Delnaz Roshandel et al.(2010)· Journal of Bone and Mineral Research

This case-control study of 159 Ukrainian individuals (144 born macrosomic, 27 normosomic) investigates genetic associations with deciduous tooth eruption timing. The study identified associations between RANKL rs9594759 (multiplicative model, increased risk of delayed eruption) and IL10 rs1800896 (overdominant model, increased risk of delayed eruption). CYP19A1 rs2414096 G allele and ESR1 rs9340799 -351 A allele were found as risk factors for fetal macrosomia formation. RANKL and IL10 variants showed multidirectional modifying effects on tooth eruption timing in macrosomic individuals.

Traits studied:Bone metabolismDeciduous tooth eruption timing (premature and delayed eruption)Fetal macrosomia

This variant is in our database but has no known associations or PRS memberships yet.

Gene information from NCBI Gene. Variant classifications from ClinVar.

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