rs9909104

This is a intron variant variant in the SHMT1 gene.

Research that mentions this SNP (3)

Consortium analysis of gene and gene–folate interactions in purine and pyrimidine metabolism pathways with ovarian carcinoma risk
AssociationN=36,045Linda E. Kelemen et al.(2014)· Molecular Nutrition & Food Research

Consortium analysis of 13,410 ovarian cancer cases and 22,635 controls examining 446 genetic variants in folate metabolism and purine/pyrimidine pathways. The strongest associations were DPYD rs11587873 (OR=0.92, p=6×10⁻⁵) and rs828054 (OR=1.06, p=1×10⁻⁴). While 13 pyrimidine metabolism variants showed significant folate intake interactions, they explained only 0.2% of ovarian carcinoma risk, suggesting limited clinical utility for folate-stratified risk modification.

Traits studied:Clear cell ovarian cancerEndometrioid ovarian cancerHigh-grade serous ovarian cancerLow-grade serous ovarian cancerMucinous ovarian cancerOvarian carcinoma
Gene variants in the folate‐mediated one‐carbon metabolism (FOCM) pathway as risk factors for conotruncal heart defects
AssociationN=1,236Huiping Zhu et al.(2012)· American Journal of Medical Genetics Part A

This case-control study examined 29 polymorphisms in four folate-mediated one-carbon metabolism pathway genes (MTHFD1, SHMT1, MTHFR, DHFR) in Hispanic and non-Hispanic white populations to assess their association with conotruncal heart defects. MTHFD1 rs11627387 was associated with a 1.7-fold increased risk in both Hispanic mothers (OR=1.7, 95% CI=1.1-2.5) and Hispanic infants (OR=1.7, 95% CI=1.2-2.3). MTHFR rs1801133 (C677T) showed a 2.8-fold increased risk among Hispanic mothers with low dietary folate intake, while rs1801131 (A1298C) showed a 2.0-fold increased risk among those with higher folate intake. Gene-folate interactions were observed, suggesting maternal multivitamin use and dietary folate intake may modify conotruncal heart defect risk.

Traits studied:Conotruncal heart defectsD-transposition of the great arteries (dTGA)Tetralogy of Fallot (TOF)
Maternal and infant gene–folate interactions and the risk of neural tube defects
AssociationN=676Analee J. Etheredge et al.(2012)· American Journal of Medical Genetics Part A

Case-control study (222 cases, 454 controls) examining gene-folate interactions in five folate-related genes (MTHFD1, MTHFR, SHMT1, DHFR, TYMS) and neural tube defect risk. Maternal MTHFR SNPs rs1476413, rs1801131, and rs1801133 showed decreased NTD risk with low folate intake (OR=0.55-0.69, 80% CI); infant MTHFD1 SNPs rs2236224, rs2236225, and rs11627387 showed increased risk (OR=1.53-4.25, 80% CI); maternal SHMT1 rs669340 showed protective gene-only effect (OR=0.69, 95% CI: 0.49-0.96).

Traits studied:AnencephalyNeural tube defectsSpina bifida

About SHMT1

This gene encodes the cytosolic form of serine hydroxymethyltransferase, a pyridoxal phosphate-containing enzyme that catalyzes the reversible conversion of serine and tetrahydrofolate to glycine and 5,10-methylene tetrahydrofolate. This reaction provides one-carbon units for synthesis of methionine, thymidylate, and purines in the cytoplasm. This gene is located within the Smith-Magenis syndrome region on chromosome 17. A pseudogene of this gene is located on the short arm of chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2013]

View all SHMT1 variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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