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From SNPedia

Geno Mag Summary
(C;C) 0 normal
(C;T)  ?
(T;T) 3 1.6x increased risk for breast cancer
ReferenceGRCh38 38.1/141
is asnp
is mentioned by
1000 genomesrs3803662
23andMe allrs3803662
SNP Nexus

GWAS Ctlgrs3803662
Max Magnitude3
? (C;C) (C;T) (T;T) 28
rs3803662, a SNP associated with the TNRC9 gene, was one of the four strongest associating SNPs found in a genome-wide association study of over 4,000 breast cancer samples.[PMID 17529967OA-icon.png]

[PMID 17529974] rs3803662(T;T) have a 1.64-fold greater risk of estrogen receptor-positive tumors

In a study of 1,267 breast cancer patients, rs3803662 heterozygote carriers and minor allele homozygote carriers were more likely to be diagnosed before the age of 60 years (p = 0.025) relative to major allele homozygote carriers.[PMID 17997823OA-icon.png]

[PMID 18437204OA-icon.png] breast cancer

  • rs2981582, rs3803662, and rs889312) showed weak but significant associations with ER-negative disease, the strongest association being for rs3803662 in TNRC9 (1.14 (1.09-1.21))

[PMID 19005751] rs3803662 confirmed in 988 sporadic breast cancer cases and 1,016 controls from the West of Ireland to be associated with increased risk (odds ratio 1.15, p(allelic) = 5.1 x 10e-2) for breast cancer

SNP rs3803662
PubMedID [PMID 17529974]
Condition Breast cancer
Gene TNRC9
Risk Allele T
pValue 6.00E-019
OR 1.28
95% CI 1.21-1.35

GWAS snp
PMID [PMID 19330030OA-icon.png]
Trait Breast cancer
Title A multistage genome-wide association study in breast cancer identifies two new risk alleles at 1p11.2 and 14q24.1 (RAD51L1)
Risk Allele T
P-val 1E-9
Odds Ratio
[PMID 20406955OA-icon.png] Polymorphisms in the TOX3/LOC643714 Locus and Risk of Breast Cancer in African-American Women
GWAS snp
PMID [PMID 20453838OA-icon.png]
Trait Breast cancer
Title Genome-wide association study identifies five new breast cancer susceptibility loci
Risk Allele A
P-val 3E-15
Odds Ratio 1.30 [1.22-1.39]

[PMID 20664043] Incidence of breast cancer and its subtypes in relation to individual and multiple low-penetrance genetic susceptibility loci

[PMID 20054709] Birth weight, breast cancer susceptibility loci, and breast cancer risk

[PMID 20699374OA-icon.png] Evaluation of Breast Cancer Susceptibility Loci in Chinese Women

[PMID 20703937] Association between polymorphisms of trinucleotide repeat containing 9 gene and breast cancer risk: evidence from 62,005 subjects

GWAS snp
PMID [PMID 20872241]
Title A combined analysis of genome-wide association studies in breast cancer
Risk Allele A
P-val 4E-7
Odds Ratio 1.22 [1.13-1.32]

[PMID 21197568] Risk of genome-wide association study newly identified genetic variants for breast cancer in Chinese women of Heilongjiang Province

[PMID 21415360] Common genetic variants associated with breast cancer in Korean women and differential susceptibility according to intrinsic subtype

[PMID 21445572] Genetic polymorphisms and breast cancer risk: evidence from meta-analyses, pooled analyses, and genome-wide association studies

[PMID 21475998OA-icon.png] Replication of five GWAS-identified loci and breast cancer risk among Hispanic and non-Hispanic white women living in the Southwestern United States

[PMID 21748294] Correlation of breast cancer susceptibility loci with patient characteristics, metastasis-free survival, and mRNA expression of the nearest genes

[PMID 21791674OA-icon.png] Interactions Between Genetic Variants and Breast Cancer Risk Factors in the Breast and Prostate Cancer Cohort Consortium

[PMID 21795501OA-icon.png] Replication of breast cancer GWAS susceptibility loci in the Women's Health Initiative African American SHARe study

[PMID 21996731] Breast cancer genome-wide association studies: there is strength in numbers

[PMID 22452962OA-icon.png] A genome-wide association study identifies a breast cancer risk variant in ERBB4 at 2q34: results from the Seoul Breast Cancer Study

[PMID 18326623OA-icon.png] Genome-wide association study provides evidence for a breast cancer risk locus at 6q22.33.

[PMID 18612136OA-icon.png] Discriminatory accuracy from single-nucleotide polymorphisms in models to predict breast cancer risk.

[PMID 18681954OA-icon.png] Breast cancer susceptibility loci and mammographic density.

[PMID 18708391OA-icon.png] Breast cancer risk polymorphisms and interaction with ionizing radiation among U.S. radiologic technologists.

[PMID 18772892OA-icon.png] Can genes for mammographic density inform cancer aetiology?

[PMID 18785201OA-icon.png] Novel breast cancer risk alleles and endometrial cancer risk.

[PMID 18973230OA-icon.png] Breast cancer susceptibility alleles and ovarian cancer risk in 2 study populations.

[PMID 19088016OA-icon.png] Genetic susceptibility loci for breast cancer by estrogen receptor status.

[PMID 19094228OA-icon.png] The influence of genetic variation in 30 selected genes on the clinical characteristics of early onset breast cancer.

[PMID 19219042OA-icon.png] Genome-wide association study identifies a new breast cancer susceptibility locus at 6q25.1.

[PMID 19232126OA-icon.png] Association between breast cancer susceptibility loci and mammographic density: the Multiethnic Cohort.

[PMID 19304784OA-icon.png] Association between invasive ovarian cancer susceptibility and 11 best candidate SNPs from breast cancer genome-wide association study.

[PMID 19454617OA-icon.png] Genetic variation in the chromosome 17q23 amplicon and breast cancer risk.

[PMID 19567422OA-icon.png] Risk of estrogen receptor-positive and -negative breast cancer and single-nucleotide polymorphism 2q35-rs13387042.

[PMID 19931039OA-icon.png] Using lifetime risk estimates in personal genomic profiles: estimation of uncertainty.

[PMID 20085711OA-icon.png] Leveraging genetic variability across populations for the identification of causal variants.

[PMID 20146796OA-icon.png] Familial relative risks for breast cancer by pathological subtype: a population-based cohort study.

[PMID 20213080] Genetic variants in trinucleotide repeat-containing 9 (TNRC9) are associated with risk of estrogen receptor positive breast cancer in a Chinese population.

[PMID 20237344OA-icon.png] Performance of common genetic variants in breast-cancer risk models.

[PMID 20484103OA-icon.png] Genetic and clinical predictors for breast cancer risk assessment and stratification among Chinese women.

[PMID 20585626OA-icon.png] Identification of a functional genetic variant at 16q12.1 for breast cancer risk: results from the Asia Breast Cancer Consortium.

[PMID 20605201OA-icon.png] Gene-environment interactions in 7610 women with breast cancer: prospective evidence from the Million Women Study.

[PMID 21475997] Association between rs3803662 polymorphism of trinucleotide repeat containing 9 gene and breast cancer risk.

[PMID 21596841OA-icon.png] Low penetrance breast cancer susceptibility loci are associated with specific breast tumor subtypes: findings from the Breast Cancer Association Consortium.

[PMID 21844186OA-icon.png] Common breast cancer susceptibility loci are associated with triple-negative breast cancer.

[PMID 22045194OA-icon.png] Combined effect of low-penetrant SNPs on breast cancer risk.

[PMID 22160591] A genetic risk predictor for breast cancer using a combination of low-penetrance polymorphisms in a Japanese population.

[PMID 22532573OA-icon.png] The role of genetic breast cancer susceptibility variants as prognostic factors.

GET Evidence
impact pathogenic
qualified_impact Insufficiently evaluated pathogenic
overall_frequency 0.53125

[PMID 23270421OA-icon.png] The risk allele of SNP rs3803662 and the mRNA level of its closest genes TOX3 and LOC643714 predict adverse outcome for breast cancer patients

GWAS snp
PMID [PMID 23001122OA-icon.png]
Trait Breast cancer (male)
Title Genome-wide association study identifies a common variant in RAD51B associated with male breast cancer risk.
Risk Allele
P-val 4E-15
Odds Ratio 1.50 [1.35-1.66]

[PMID 23486537OA-icon.png] Comparison of genetic variation of breast cancer susceptibility genes in Chinese and German populations

[PMID 23717390OA-icon.png] Identification of a Breast Cancer Susceptibility Locus at 4q31.22 Using a Genome-Wide Association Study Paradigm

[PMID 24289300OA-icon.png] Effects of lifestyle and single nucleotide polymorphisms on breast cancer risk: a case--control study in Japanese women

GWAS snp
PMID [PMID 23535733OA-icon.png]
Trait Breast cancer
Title Genome-wide association studies identify four ER negative-specific breast cancer risk loci.
Risk Allele T
P-val 6E-13
Odds Ratio 1.14 [1.10-1.18]
GWAS snp
PMID [PMID 23535729OA-icon.png]
Trait Breast cancer
Title Large-scale genotyping identifies 41 new loci associated with breast cancer risk.
Risk Allele A
P-val 2E-114
Odds Ratio 1.24 [1.21-1.27]

[PMID 22910930OA-icon.png] Genome-Wide Association Studies (GWAS) breast cancer susceptibility loci in Arabs: susceptibility and prognostic implications in Tunisians.

[PMID 23577780OA-icon.png] Associations between single-nucleotide polymorphisms and epidural ropivacaine consumption in patients undergoing breast cancer surgery.

GWAS snp
PMID [PMID 24143190OA-icon.png]
Trait Breast cancer
Title Genome-wide association study of breast cancer in the Japanese population.
Risk Allele T
P-val 3E-11
Odds Ratio 1.21 [1.146-1.284]

[PMID 25139936OA-icon.png] Association of Cancer Susceptibility Variants with Risk of Multiple Primary Cancers: the Population Architecture using Genomics and Epidemiology Study

[PMID 24532140] Association of genetic variants at TOX3, 2q35 and 8q24 with the risk of familial and early-onset breast cancer in a South-American population

[PMID 25784121] Associations between breast density and a panel of single nucleotide polymorphisms linked to breast cancer risk: a cohort study with digital mammography

[PMID 25881232OA-icon.png] Associations between breast density and a panel of single nucleotide polymorphisms linked to breast cancer risk: a cohort study with digital mammography

[PMID 26070784OA-icon.png] Genetic risk variants associated with in situ breast cancer

[PMID 26711978] [Associations between TOX3 rs3803662 polymorphisms and immunological markers of breast cancer].

[PMID 26911390] TNRC9 rs12443621 and FGFR2 rs2981582 polymorphisms and breast cancer risk.

[PMID 27572905] Genetic variants in FGFR2 and TNRC9 genes are associated with breast cancer risk in Pakistani women.