{{Rsnum
|rsid=1799964
|Gene=LTA
|Chromosome=6
|position=31574531
|Orientation=plus
|GMAF=0.2002
|Gene_s=LTA,TNF
|Assembly=GRCh38
|GenomeBuild=38.1
|dbSNPBuild=141
|geno1=(C;C)
|geno2=(C;T)
|geno3=(T;T)
}}{{ population diversity
| geno1=(C;C)
| geno2=(C;T)
| geno3=(T;T)
| CEU | 2.7 | 37.2 | 60.2
| HCB | 6.6 | 27.0 | 66.4
| JPT | 0.9 | 23.9 | 75.2
| YRI | 1.4 | 21.1 | 77.6
| ASW | 3.5 | 22.8 | 73.7
| CHB | 6.6 | 27.0 | 66.4
| CHD | 3.7 | 35.8 | 60.6
| GIH | 12.9 | 51.5 | 35.6
| LWK | 5.5 | 31.8 | 62.7
| MEX | 10.3 | 29.3 | 60.3
| MKK | 1.9 | 39.7 | 58.3
| TSI | 7.8 | 32.4 | 59.8
| HapMapRevision=28
}}

Associated with at least one "mortality outcome" in a study of ~10,000 individuals.{{PMID|18263601}}

Separately, a meta-analysis of 10 case-control studies, including over 2,200 [[Graves' disease]] cases, concluded that [[rs1799964]](C) carriers were associated with the disease.{{PMID|18472000}}

{{ neighbor
| rsid = 1799724
| distance = 174
}}

{{ neighbor
| rsid = 1800630
| distance = 168
}}

{{PMID Auto
|PMID=19818126
|Title=Single nucleotide polymorphisms in obesity-related genes and all-cause and cause-specific mortality: a prospective cohort study
|OA=1
}}

{{PharmGKB
|RSID=rs1799964
|Name_s=TNF:?1031 T/C
|Gene_s=LTA, TNF
|Feature=
|Evidence=PubMed ID:17450233
|Annotation=Haplotype tagging SNP.
|Drugs=
|Drug Classes=
|Diseases=
|Curation Level=Curated
|PharmGKB Accession ID=PA161145122
}}

{{PharmGKB
|RSID=rs1799964
|Name_s=TNF: -1031 T/C
|Gene_s=LTA, TNF
|Feature=
|Evidence=PubMed ID:17450233
|Annotation=haplotype tagging SNP
|Drugs=
|Drug Classes=
|Diseases=
|Curation Level=Curated
|PharmGKB Accession ID=PA161149182
}}

{{PMID Auto
|PMID=20887379
|Title=Tumour necrosis factor haplotypes associated with sensory neuropathy in Asian and Caucasian human immunodeficiency virus patients
}}

{{PMID Auto
|PMID=21995493
|Title=TNFRSF1B +676 T&gt;G polymorphism predicts survival of non-Small cell lung cancer patients treated with chemoradiotherapy
|OA=1
}}

{{PMID Auto
|PMID=22666399
|Title=Tumor Necrosis Factor-α Induced Protein 8 Polymorphism and Risk of Non-Hodgkin's Lymphoma in a Chinese Population: A Case-Control Study
|OA=1
}}

{{PMID Auto
|PMID=12509789
|Title=Identification of I kappa BL as the second major histocompatibility complex-linked susceptibility locus for rheumatoid arthritis.
|OA=1
}}

{{PMID Auto
|PMID=17216494
|Title=Genetic variation in tumor necrosis factor and lymphotoxin-alpha (TNF-LTA) and breast cancer risk.
}}

{{PMID Auto
|PMID=17493155
|Title=Significant association between TNF-alpha (TNF) promoter allele (-1031C, -863C, and -857C) and cerebral malaria in Thailand.
}}

{{PMID Auto
|PMID=18194515
|Title=Polymorphisms of TNF-enhancer and gene for FcgammaRIIa correlate with the severity of falciparum malaria in the ethnically diverse Indian population.
|OA=1
}}

{{PMID Auto
|PMID=18196539
|Title=TNF polymorphisms and prostate cancer risk.
}}

{{PMID Auto
|PMID=18620570
|Title=The TNFalpha gene relates to clinical phenotype in alpha-1-antitrypsin deficiency.
|OA=1
}}

{{PMID Auto
|PMID=18635873
|Title=TNF promoter polymorphisms associated with muscle phenotypes in humans.
|OA=1
}}

{{PMID Auto
|PMID=18676870
|Title=Variants in inflammation genes and the risk of biliary tract cancers and stones: a population-based study in China.
|OA=1
}}

{{PMID Auto
|PMID=18709160
|Title=Interactions between glutathione S-transferase P1, tumor necrosis factor, and traffic-related air pollution for development of childhood allergic disease.
|OA=1
}}

{{PMID Auto
|PMID=18715339
|Title=Associations between cytokine/cytokine receptor single nucleotide polymorphisms and humoral immunity to measles, mumps and rubella in a Somali population.
|OA=1
}}

{{PMID Auto
|PMID=18805939
|Title=Functional genetic polymorphisms and female reproductive disorders: part II--endometriosis.
|OA=1
}}

{{PMID Auto
|PMID=18811622
|Title=Association of TNF-alpha with severe respiratory syncytial virus infection and bronchial asthma.
}}

{{PMID Auto
|PMID=19167443
|Title=Family-based analysis of tumor necrosis factor and lymphotoxin-alpha tag polymorphisms with type 1 diabetes in the population of South Croatia.
|OA=1
}}

{{PMID Auto
|PMID=19281305
|Title=Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations.
|OA=1
}}

{{PMID Auto
|PMID=19356949
|Title=Cytokine SNPs: Comparison of allele frequencies by race and implications for future studies.
|OA=1
}}

{{PMID Auto
|PMID=19409079
|Title=Association of MICA with rheumatoid arthritis independent of known HLA-DRB1 risk alleles in a family-based and a case control study.
|OA=1
}}

{{PMID Auto
|PMID=19615068
|Title=The role of TNF genetic variants and the interaction with cigarette smoking for gastric cancer risk: a nested case-control study.
|OA=1
}}

{{PMID Auto
|PMID=19661089
|Title=Genetic variation in immune regulation and DNA repair pathways and stomach cancer in China.
|OA=1
}}

{{PMID Auto
|PMID=19673019
|Title=IL-10 and TNF-alpha promoter haplotypes are associated with childhood Crohn's disease location.
|OA=1
}}

{{PMID Auto
|PMID=20007930
|Title=A functional haplotype in the 3'untranslated region of TNFRSF1B is associated with tuberculosis in two African populations.
|OA=1
}}

{{PMID Auto
|PMID=20112337
|Title=Single nucleotide polymorphisms of 8 inflammation-related genes and their associations with smoking-related cancers.
|OA=1
}}

{{PMID Auto
|PMID=20459604
|Title=Large-scale association analysis of TNF/LTA gene region polymorphisms in type 2 diabetes.
|OA=1
}}

{{PMID Auto
|PMID=20463618
|Title=Role of polymorphic variants as genetic modulators of infection in neonatal sepsis.
|OA=1
}}

{{PMID Auto
|PMID=20668555
|Title=Extended LTA, TNF, LST1 and HLA gene haplotypes and their association with rubella vaccine-induced immunity.
|OA=1
}}

{{PMID Auto
|PMID=20811626
|Title=Genetic variants in inflammation-related genes are associated with radiation-induced toxicity following treatment for non-small cell lung cancer.
|OA=1
}}

{{GET Evidence
|impact=pharmacogenetic
|qualified_impact=Insufficiently evaluated pharmacogenetic
|inheritance=unknown
|quality_scores=Array
|dbsnp_id=rs1799964
|overall_frequency_n=33
|overall_frequency_d=128
|overall_frequency=0.257812
|n_genomes=23
|n_genomes_annotated=0
|n_haplomes=24
|n_articles=1
|n_articles_annotated=0
|in_pharmgkb=Y
|autoscore=1
|webscore=N
}}

{{PMID Auto
|PMID=23472126
|Title=The Association between Polymorphisms in the MRPL4 and TNF-α Genes and Susceptibility to Allergic Rhinitis
|OA=1
}}

{{PMID Auto GWAS
  |PMID=21102463
  |Trait=Crohn's disease
  |Title=Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
  |RiskAllele=C
  |Pval=4E-11
  |OR=1.19
  |ORtxt=[1.13-1.25]
  |OA=1
}}

{{PMID Auto
|PMID=23840460
|Title=Lymphotoxin Alpha (LTA) Polymorphism Is Associated with Prognosis of Non-Hodgkin's Lymphoma in a Chinese Population
|OA=1
}}

{{PMID Auto
|PMID=23870134
|Title=Association of tumor necrosis factor-alpha promoter variants with risk of HPV-associated oral squamous cell carcinoma
|OA=1
}}

{{PMID Auto
|PMID=24003533
|Title=Relationship between cytokine single nucleotide polymorphisms and sarcoidosis among Japanese subjects
}}

{{PMID Auto
|PMID=24151497
|Title=Association Analysis of IL10, TNF-α, and IL23R-IL12RB2 SNPs with Behçet's Disease Risk in Western Algeria
|OA=1
}}

{{PMID Auto
|PMID=23380141
|Title=Association of HLA-DRB1 and TNF genotypes with dengue hemorrhagic fever
}}

{{PMID Auto
|PMID=24405540
|Title=[Association of TNF-1031T/C and clinical efficacy of insulin therapy in newly diagnosed type 2 diabetics]
}}

{{PMID Auto
|PMID=22464751
|Title=SNPs in PTGS2 and LTA predict pain and quality of life in long term lung cancer survivors.
}}

{{PMID Auto
|PMID=22711844
|Title=SNPs in the TNF-alpha gene promoter associated with Behcet's disease in Moroccan patients.
}}

{{PMID Auto
|PMID=22808100
|Title=Functional differences exist between TNFalpha promoters encoding the common -237G SNP and the rarer HLA-B*5701-linked A variant.
|OA=1
}}

{{PMID Auto
|PMID=23071570
|Title=Gene-gene interaction and functional impact of polymorphisms on innate immune genes in controlling Plasmodium falciparum blood infection level.
|OA=1
}}

{{PMID Auto
|PMID=23777929
|Title=Searching for an immunogenetic factor that will illuminate susceptibility to non-tuberculous mycobacterial disease.
}}

{{PMID Auto
|PMID=24935328
|Title=Functional tumor necrosis factor alpha polymorphisms and haplotype analysis in high-risk corneal transplantation
}}

{{PMID Auto
|PMID=25054016
|Title=Association of NQO1 and TNF polymorphisms with Parkinson's disease: A meta-analysis of 15 genetic association studies
}}

{{PMID Auto
|PMID=25246119
|Title=Family association study between tumour necrosis factor a gene polymorphisms and polycystic ovary syndrome in Han Chinese
}}
{{on chip | 23andMe v1}}
{{on chip | 23andMe v2}}
{{on chip | 23andMe v3}}
{{on chip | 23andMe v4}}
{{on chip | Affy GenomeWide 6}}
{{on chip | FTDNA2}}
{{on chip | HumanOmni1Quad}}