rs3803662

minus

Geno	Mag	Summary
(C;C)	0	normal
(C;T)		?
(T;T)	3	1.6x increased risk for breast cancer

Reference

GRCh38 38.1/141

Chromosome

16

Position

52552429

Gene

CASC16

is a	snp
is	mentioned by
dbSNP	rs3803662
dbSNP (classic)	rs3803662
ClinGen	rs3803662
ebi	rs3803662
HLI	rs3803662
Exac	rs3803662
Gnomad	rs3803662
Varsome	rs3803662
LitVar	rs3803662
Map	rs3803662
PheGenI	rs3803662
Biobank	rs3803662
1000 genomes	rs3803662
hgdp	rs3803662
ensembl	rs3803662
geneview	rs3803662
scholar	rs3803662
google	rs3803662
pharmgkb	rs3803662
gwascentral	rs3803662
openSNP	rs3803662
23andMe	rs3803662
SNPshot	rs3803662
SNPdbe	rs3803662
MSV3d	rs3803662
GWAS Ctlg	rs3803662

GMAF

0.4578

Max Magnitude

3

?

(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 17529967 ]

[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 17997823 ]

[PMID 18437204 ] 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

GWAS
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 19330030 ]
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

OMIM	114480
Desc	BREAST CANCER
Variant
Related	also

OMIM	604370
Desc	BREAST-OVARIAN CANCER, FAMILIAL, SUSCEPTIBILITY TO, 1; BROVCA1
Variant
Related	also

OMIM	611416
Desc	TOX HIGH MOBILITY GROUP BOX FAMILY MEMBER 3; TOX3
Variant
Related	also

[PMID 20406955 ] Polymorphisms in the TOX3/LOC643714 Locus and Risk of Breast Cancer in African-American Women

GWAS snp
PMID	[PMID 20453838 ]
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 20699374 ] 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]
Trait
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 21475998 ] 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 21791674 ] Interactions Between Genetic Variants and Breast Cancer Risk Factors in the Breast and Prostate Cancer Cohort Consortium

[PMID 21795501 ] 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 22452962 ] A genome-wide association study identifies a breast cancer risk variant in ERBB4 at 2q34: results from the Seoul Breast Cancer Study

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

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

[PMID 18681954 ] Breast cancer susceptibility loci and mammographic density.

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

[PMID 18772892 ] Can genes for mammographic density inform cancer aetiology?

[PMID 18785201 ] Novel breast cancer risk alleles and endometrial cancer risk.

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

[PMID 19088016 ] Genetic susceptibility loci for breast cancer by estrogen receptor status.

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

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

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

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

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

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

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

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

[PMID 20146796 ] 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 20237344 ] Performance of common genetic variants in breast-cancer risk models.

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

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

[PMID 20605201 ] 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 21596841 ] Low penetrance breast cancer susceptibility loci are associated with specific breast tumor subtypes: findings from the Breast Cancer Association Consortium.

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

[PMID 22045194 ] 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 22532573 ] The role of genetic breast cancer susceptibility variants as prognostic factors.

[PMID 23270421 ] 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 23001122 ]
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 23486537 ] Comparison of genetic variation of breast cancer susceptibility genes in Chinese and German populations

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

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

GWAS snp
PMID	[PMID 23535733 ]
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 23535729 ]
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 22910930 ] Genome-Wide Association Studies (GWAS) breast cancer susceptibility loci in Arabs: susceptibility and prognostic implications in Tunisians.

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

GWAS snp
PMID	[PMID 24143190 ]
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 25139936 ] 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 25881232 ] Associations between breast density and a panel of single nucleotide polymorphisms linked to breast cancer risk: a cohort study with digital mammography

[PMID 26070784 ] 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.

[PMID 28757652 ] Genetic Breast Cancer Susceptibility Variants and Prognosis in the Prospectively Randomized SUCCESS A Study.

[PMID 29683073] Polymorphisms in the TOX3/LOC643714 and risk of breast cancer in south China.

[PMID 30515698] Significant association of TOX3/LOC643714 locus-rs3803662 and breast cancer risk in a cohort of Iranian population.

[PMID 31317673 ] Relationships between SNPs and prognosis of breast cancer and pathogenic mechanism.

[PMID 32366738] Low-penetrance susceptibility variants and postmenopausal oestrogen receptor positive breast cancer.