{{Rsnum
|rsid=1041981
|Gene=LTA
|Chromosome=6
|position=31573007
|Orientation=plus
|GMAF=0.3994
|Gene_s=HLA-DQA1,LTA
|Assembly=GRCh38
|GenomeBuild=38.1
|dbSNPBuild=141
|geno1=(A;A)
|geno2=(A;C)
|geno3=(C;C)
}}{{ population diversity
| geno1=(A;A)
| geno2=(A;C)
| geno3=(C;C)
| CEU | 7.1 | 53.1 | 39.8
| HCB | 22.1 | 48.5 | 29.4
| JPT | 18.6 | 45.1 | 36.3
| YRI | 25.4 | 47.6 | 27.0
| ASW | 28.1 | 43.9 | 28.1
| CHB | 22.1 | 48.5 | 29.4
| CHD | 14.7 | 66.1 | 19.3
| GIH | 7.0 | 32.0 | 61.0
| LWK | 30.9 | 49.1 | 20.0
| MEX | 3.5 | 45.6 | 50.9
| MKK | 34.2 | 48.4 | 17.4
| TSI | 6.1 | 43.4 | 50.5
| HapMapRevision=28
}}

{{PMID|18700950|OA=1
}}  827 males and 709 females, 606 subjects without cancer and 930 subjects with various [[cancer]]s 
*[[rs1041981]](A;C) (C804A, T60N) associated with lung cancer (CA + AA: CC, adjusted OR = 0.60, 95% CI = 0.37 - 0.97), 
in males but not in females

{{omim
|desc=MYOCARDIAL INFARCTION, SUSCEPTIBILITY TO
|id=153440
|rsnum=1041981
|variant=0001
}}

{{ neighbor
| rsid = 1799724
| distance = 1698
}}

{{ neighbor
| rsid = 2229094
| distance = 228
}}

{{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=20177654
|Title=Obesity-dependent association of TNF-LTA locus with type 2 diabetes in North Indians
}}

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

{{PMID Auto
|PMID=21291465
|Title=The association of genetic polymorphisms with cerebral palsy: a meta-analysis
}}

{{PMID Auto
|PMID=21628868
|Title=Haplotype-based association of four lymphotoxin-alpha gene polymorphisms with the risk of coronary artery disease in han chinese
}}

{{PMID Auto
|PMID=22419714
|Title=Effect of Type 2 Diabetes Predisposing Genetic Variants on Colorectal Cancer Risk
}}

{{PMID Auto
|PMID=22310064
|Title=Polymorphisms of LTA, LGALS2, and PSMA6 genes and coronary atherosclerosis: a pathological study of 1503 consecutive autopsy cases
}}

{{ClinVar
|rsid=1041981
|Reversed=0
|FwdREF=C
|FwdALT=A
|REF=C
|ALT=A
|RSPOS=31540784
|CHROM=6
|GMAF=0.3988
|dbSNPBuildID=86
|SSR=0
|SAO=1
|VP=0x05016800000017051f110101
|GENEINFO=LTA:4049
|GENE_NAME=LTA
|GENE_ID=4049
|WGT=0
|VC=SNV
|CLNALLE=1
|CLNHGVS=NC_000006.11:g.31540784C>A
|CLNSRC=OMIM Allelic Variant
|CLNORIGIN=1
|CLNSRCID=153440.0001
|CLNSIG=255
|CLNCUI=C0027051
|CLNDBN=Myocardial infarction
|Disease=Myocardial infarction
|CLNACC=RCV000015455.1
|Tags=PM;PMC;SLO;VLD;G5A;G5;HD;GNO;KGPhase1;KGPilot123;KGPROD;OTHERKG;PH3;LSD;OM
|CAF=0.6006; 0.3994
|CLNDSDB=MedGen:OMIM:SNOMED_CT
|CLNDSDBID=C0027051:608446:22298006
|COMMON=1
}}

{{PMID Auto
|PMID=15371359
|Title=Testing for Hardy-Weinberg equilibrium in samples with related individuals.
|OA=1
}}

{{PMID Auto
|PMID=16175505
|Title=Identification of four gene variants associated with myocardial infarction.
|OA=1
}}

{{PMID Auto
|PMID=16839190
|Title=Lymphotoxin-alpha gene and risk of myocardial infarction in 6,928 cases and 2,712 controls in the ISIS case-control study.
|OA=1
}}

{{PMID Auto
|PMID=17517687
|Title=Association of variants in the BAT1-NFKBIL1-LTA genomic region with protection against myocardial infarction in Europeans.
}}

{{PMID Auto
|PMID=17705862
|Title=Optimization of candidate-gene SNP-genotyping by flexible oligonucleotide microarrays; analyzing variations in immune regulator genes of hay-fever samples.
|OA=1
}}

{{PMID Auto
|PMID=18398712
|Title=No association found between the promoter variants of TNF-alpha and diabetic retinopathy in Chinese patients with type 2 diabetes.
}}

{{PMID Auto
|PMID=18513389
|Title=New application of intelligent agents in sporadic amyotrophic lateral sclerosis identifies unexpected specific genetic background.
|OA=1
}}

{{PMID Auto
|PMID=18575614
|Title=Association between LTA, TNF and AGER polymorphisms and late diabetic complications.
|OA=1
}}

{{PMID Auto
|PMID=18615156
|Title=Genome-wide association scan identifies candidate polymorphisms associated with differential response to anti-TNF treatment in rheumatoid arthritis.
|OA=1
}}

{{PMID Auto
|PMID=18704761
|Title=Molecular genetics of myocardial infarction.
|OA=1
}}

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

{{PMID Auto
|PMID=19131662
|Title=A meta-analysis of candidate gene polymorphisms and ischemic stroke in 6 study populations: association of lymphotoxin-alpha in nonhypertensive patients.
|OA=1
}}

{{PMID Auto
|PMID=19263529
|Title=Genetic risk factors in recurrent venous thromboembolism: A multilocus, population-based, prospective approach.
|OA=1
}}

{{PMID Auto
|PMID=19330901
|Title=Association of 77 polymorphisms in 52 candidate genes with blood pressure progression and incident hypertension: the Women's Genome Health Study.
|OA=1
}}

{{PMID Auto
|PMID=19559392
|Title=A candidate gene association study of 77 polymorphisms in migraine.
|OA=1
}}

{{PMID Auto
|PMID=19585495
|Title=Association of HLA-DRB1, interleukin-6 and cyclin D1 polymorphisms with cervical cancer in the Swedish population--a candidate gene approach.
}}

{{PMID Auto
|PMID=19629486
|Title=Lymphotoxin alfa and receptor-interacting protein kinase 1 gene polymorphisms may correlate with prognosis in patients with diffuse large B cell lymphoma treated with R-CHOP.
}}

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

{{GET Evidence
|gene=LTA
|aa_change=Thr60Asn
|aa_change_short=T60N
|impact=not reviewed
|qualified_impact=Insufficiently evaluated not reviewed
|inheritance=unknown
|quality_scores=Array
|dbsnp_id=rs1041981
|overall_frequency_n=3038
|overall_frequency_d=7524
|overall_frequency=0.403775
|n_genomes=33
|n_genomes_annotated=0
|n_haplomes=42
|n_articles=0
|n_articles_annotated=0
|pph2_score=0.009
|nblosum100=1
|autoscore=0
|webscore=N
}}

{{PMID Auto
|PMID=23996684
|Title=Cytokine and cytokine receptor genes of the adaptive immune response are differentially associated with breast cancer risk in American women of African and European ancestry
}}

{{on chip | 23andMe v1}}
{{on chip | 23andMe v2}}
{{on chip | 23andMe v3}}
{{on chip | 23andMe v4}}
{{on chip | FTDNA2}}
{{on chip | HumanOmni1Quad}}
{{on chip | Illumina Human 1M}}