rs909253
| Orientation | minus |
| Stabilized | minus |
| Make rs909253(C;C) |
| Make rs909253(C;T) |
| Make rs909253(T;T) |
| Reference | GRCh38 38.1/141 |
| Chromosome | 6 |
| Position | 31572536 |
| Gene | LOC100287329, LTA |
| is a | snp |
| is | mentioned by |
| dbSNP | rs909253 |
| dbSNP (classic) | rs909253 |
| ClinGen | rs909253 |
| ebi | rs909253 |
| HLI | rs909253 |
| Exac | rs909253 |
| Gnomad | rs909253 |
| Varsome | rs909253 |
| LitVar | rs909253 |
| Map | rs909253 |
| PheGenI | rs909253 |
| Biobank | rs909253 |
| 1000 genomes | rs909253 |
| hgdp | rs909253 |
| ensembl | rs909253 |
| geneview | rs909253 |
| scholar | rs909253 |
| rs909253 | |
| pharmgkb | rs909253 |
| gwascentral | rs909253 |
| openSNP | rs909253 |
| 23andMe | rs909253 |
| SNPshot | rs909253 |
| SNPdbe | rs909253 |
| MSV3d | rs909253 |
| GWAS Ctlg | rs909253 |
| GMAF | 0.3985 |
| Max Magnitude | 0 |
| ? | (C;C) (C;T) (T;T) | 28 |
|---|---|---|
|
| ||
[PMID 19654554
] The Major Histocompatibility Complex Conserved Extended Haplotype 8.1 in AIDS-Related Non-Hodgkin Lymphoma
[PMID 19167443] Family-based analysis of tumor necrosis factor and lymphotoxin-alpha tag polymorphisms with type 1 diabetes in the population of South Croatia
A US study [PMID 17018637] of 1,172 lymphoma patients and 982 controls looked at 57 SNPs in 36 immune function genes. Five SNPs in two cytokine genes, tumor necrosis factor-alpha and lymphotoxin-alpha, were associated with a 1.31x increase in non-Hodgkin lymphoma (OR, 1.31; 95% CI, 1.06-1.63; P = 0.01) and with a 1.64x increase in the subtype known as diffuse large B cell lymphoma (OR, 1.64; 95% CI, 1.23-2.19; P = 0.0007). The other four SNPS are listed below. The cytokine genes affect inflammatory and innate immune responses.
[PMID 20459604] Large-scale association analysis of TNF/LTA gene region polymorphisms in type 2 diabetes
[PMID 22615793] Investigation of Host Candidate Malaria-Associated Risk/Protective SNPs in a Brazilian Amazonian Population
[PMID 22294627] Association between genetic variants in the tumour necrosis factor/lymphotoxin α/lymphotoxin β locus and primary Sjogren's syndrome in Scandinavian samples
[PMID 15726497] Gene-environment interaction effects on the development of immune responses in the 1st year of life.
[PMID 16449530] Cytokine polymorphisms in the Th1/Th2 pathway and susceptibility to non-Hodgkin lymphoma.
[PMID 16839190] Lymphotoxin-alpha gene and risk of myocardial infarction in 6,928 cases and 2,712 controls in the ISIS case-control study.
[PMID 17174749] Linkage disequilibrium with predisposing DR3 haplotypes accounts for apparent effects of tumor necrosis factor and lymphotoxin-alpha polymorphisms on type 1 diabetes susceptibility.
[PMID 17216494] Genetic variation in tumor necrosis factor and lymphotoxin-alpha (TNF-LTA) and breast cancer risk.
[PMID 17327408] Prognostic significance of host immune gene polymorphisms in follicular lymphoma survival.
[PMID 17450233] Parental smoking modifies the relation between genetic variation in tumor necrosis factor-alpha (TNF) and childhood asthma.
[PMID 17517687] Association of variants in the BAT1-NFKBIL1-LTA genomic region with protection against myocardial infarction in Europeans.
[PMID 17701899] Flexible design for following up positive findings.
[PMID 17705862] Optimization of candidate-gene SNP-genotyping by flexible oligonucleotide microarrays; analyzing variations in immune regulator genes of hay-fever samples.
[PMID 18423522] Estimating odds ratios in genome scans: an approximate conditional likelihood approach.
[PMID 18633131] Host immune gene polymorphisms in combination with clinical and demographic factors predict late survival in diffuse large B-cell lymphoma patients in the pre-rituximab era.
[PMID 18687755] Genetic variants in T helper cell type 1, 2 and 3 pathways and gastric cancer risk in a Polish population.
[PMID 18704761] Molecular genetics of myocardial infarction.
[PMID 18805939] Functional genetic polymorphisms and female reproductive disorders: part II--endometriosis.
[PMID 18811622] Association of TNF-alpha with severe respiratory syncytial virus infection and bronchial asthma.
[PMID 18990758] Genetic variation in tumor necrosis factor and the nuclear factor-kappaB canonical pathway and risk of non-Hodgkin's lymphoma.
[PMID 19066394] Organochlorine exposure, immune gene variation, and risk of non-Hodgkin lymphoma.
[PMID 19131662] A meta-analysis of candidate gene polymorphisms and ischemic stroke in 6 study populations: association of lymphotoxin-alpha in nonhypertensive patients.
[PMID 19225544] Variation in the lymphotoxin-alpha/tumor necrosis factor locus modifies risk of erythema nodosum in sarcoidosis.
[PMID 19263529] Genetic risk factors in recurrent venous thromboembolism: A multilocus, population-based, prospective approach.
[PMID 19281305] Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations.
[PMID 19330901] Association of 77 polymorphisms in 52 candidate genes with blood pressure progression and incident hypertension: the Women's Genome Health Study.
[PMID 19356949] Cytokine SNPs: Comparison of allele frequencies by race and implications for future studies.
[PMID 19409079] Association of MICA with rheumatoid arthritis independent of known HLA-DRB1 risk alleles in a family-based and a case control study.
[PMID 19559392] A candidate gene association study of 77 polymorphisms in migraine.
[PMID 19615068] The role of TNF genetic variants and the interaction with cigarette smoking for gastric cancer risk: a nested case-control study.
[PMID 19700502] Synopsis and synthesis of candidate-gene association studies in chronic lymphocytic leukemia: the CUMAGAS-CLL information system.
[PMID 20031567] An evaluation of candidate genes of inflammation and thrombosis in relation to the risk of venous thromboembolism: The Women's Genome Health Study.
[PMID 20047977] Tumor necrosis factor (TNF) and lymphotoxin-alpha (LTA) polymorphisms and risk of non-Hodgkin lymphoma in the InterLymph Consortium.
[PMID 20049212] Traffic-related air pollution, oxidative stress genes, and asthma (ECHRS).
[PMID 20878356] Role of ethnic variations in TNF-alpha and TNF-beta polymorphisms and risk of breast cancer in India.
[PMID 23050158] Lymphotoxin-Alpha Gene Polymorphism +252A/G (rs909253, A/G) Is Associated with Susceptibility to Chronic Periodontitis: A Pilot Study
[PMID 23086128] Profiles of gene polymorphisms in cytokines and Toll-like receptors with higher risk for gastric cancer
[PMID 22748850] A functional polymorphism of lymphotoxin-alpha (LTA) gene rs909253 is associated with gastric cancer risk in an Asian population.
[PMID 22749237] Tumor necrosis factor -308 polymorphism (rs1800629) is associated with mortality and ventilator duration in 1057 Caucasian patients.
[PMID 22882567] The +252A/G polymorphism in the lymphotoxin-alpha gene increases the risk of asthma: a meta-analysis.
[PMID 23029430] Prognostic role of host cyclooxygenase and cytokine genotypes in a Caucasian cohort of patients with gastric adenocarcinoma.
[PMID 23071570] Gene-gene interaction and functional impact of polymorphisms on innate immune genes in controlling Plasmodium falciparum blood infection level.
[PMID 23159874] Pro-inflammatory cytokine gene polymorphisms and threat for coronary heart disease in a North Indian Agrawal population.
[PMID 23294973] Association of TNF-alpha polymorphism rs1800629 with multisomatoform disorder in a group of German patients and healthy controls: an explorative study.
[PMID 23360674] Genetic variation may modify ovarian reserve in female childhood cancer survivors.
[PMID 23391141] Influence of polymorphisms in genes encoding immunoregulatory proteins and metabolizing enzymes on susceptibility and outcome in patients with diffuse large B-cell lymphoma treated with rituximab.
[PMID 24959879] Effects of Tumor Necrosis Factor-β (TNF-β) 252A>G Polymorphism on the Development of Migraine: A Meta-Analysis
[PMID 25063351] Tumor necrosis factor beta NcoI polymorphism (rs909253) is associated with inflammatory and metabolic markers in acute ischemic stroke
[PMID 25735143] [Combinations of cytokine gene network polymorphic markers as potential predictors of myocardial infarction]
| ClinVar | |
|---|---|
| Risk | rs909253(C;C) |
| Alt | rs909253(C;C) |
| Reference | rs909253(T;T) |
| Significance | Other |
| Disease | Myocardial infarction Psoriatic arthritis |
| Variation | info |
| Gene | LTA |
| CLNDBN | Myocardial infarction Psoriatic arthritis, susceptibility to |
| Reversed | 1 |
| HGVS | NC_000006.11:g.31540313A>G |
| CLNSRC | OMIM Allelic Variant |
| CLNACC | RCV000015456.3, RCV000015457.3, |
[PMID 26399644] Immune-Inflammatory and Oxidative and Nitrosative Stress Biomarkers of Depression Symptoms in Subjects with Multiple Sclerosis: Increased Peripheral Inflammation but Less Acute Neuroinflammation
[PMID 24896147] Role of TNF block genetic variants in HIV-associated sensory neuropathy in black Southern Africans
[PMID 26554163] Genetic Variation of BCL2 (rs2279115), NEIL2 (rs804270), LTA (rs909253), PSCA (rs2294008) and PLCE1 (rs3765524, rs10509670) Genes and Their Correlation to Gastric Cancer Risk Based on Universal Tagged Arrays and Fe3O4 Magnetic Nanoparticles
[PMID 28740106] Environment Changes Genetic Effects on Respiratory Conditions and Allergic Phenotypes.
[PMID 28739396] Genetic association of pro-inflammatory cytokine gene polymorphisms with coronary artery disease (CAD) in a North Indian population.
[PMID 29497291] TNF promoter polymorphisms are associated with genetic susceptibility in COPD secondary to tobacco smoking and biomass burning.
[PMID 31071243] Assessment of melanoma candidate genes in a meta-analysis of 16,534 melanoma cases.
[PMID 32415894] Association of Lymphotoxin-Alpha Gene Polymorphisms (rs909253, rs1800683, and rs2229094) and Risk of Large-Artery Atherosclerosis Stroke in Iranian Population.
[PMID 32420584] The effect of LTA gene polymorphisms on cancer risk: An updated systematic review and meta-analysis.
