rs2239704
| Orientation | minus |
| Stabilized | minus |
| Make rs2239704(G;G) |
| Make rs2239704(G;T) |
| Make rs2239704(T;T) |
| Reference | GRCh38 38.1/141 |
| Chromosome | 6 |
| Position | 31572364 |
| Gene | LOC100287329, LTA |
| is a | snp |
| is | mentioned by |
| dbSNP | rs2239704 |
| dbSNP (classic) | rs2239704 |
| ClinGen | rs2239704 |
| ebi | rs2239704 |
| HLI | rs2239704 |
| Exac | rs2239704 |
| Gnomad | rs2239704 |
| Varsome | rs2239704 |
| LitVar | rs2239704 |
| Map | rs2239704 |
| PheGenI | rs2239704 |
| Biobank | rs2239704 |
| 1000 genomes | rs2239704 |
| hgdp | rs2239704 |
| ensembl | rs2239704 |
| geneview | rs2239704 |
| scholar | rs2239704 |
| rs2239704 | |
| pharmgkb | rs2239704 |
| gwascentral | rs2239704 |
| openSNP | rs2239704 |
| 23andMe | rs2239704 |
| SNPshot | rs2239704 |
| SNPdbe | rs2239704 |
| MSV3d | rs2239704 |
| GWAS Ctlg | rs2239704 |
| GMAF | 0.3476 |
| Max Magnitude | 0 |
| ? | (G;G) (G;T) (T;T) | 28 |
|---|---|---|
|
| ||
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, TNF and LTA, 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 21628868] Haplotype-based association of four lymphotoxin-alpha gene polymorphisms with the risk of coronary artery disease in han chinese
[PMID 16449530
] Cytokine polymorphisms in the Th1/Th2 pathway and susceptibility to non-Hodgkin lymphoma.
[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 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 18715339] Associations between cytokine/cytokine receptor single nucleotide polymorphisms and humoral immunity to measles, mumps and rubella in a Somali population.
[PMID 18805939] Functional genetic polymorphisms and female reproductive disorders: part II--endometriosis.
[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 19281305] Tumor necrosis factor and lymphotoxin-alpha polymorphisms and severe malaria in African populations.
[PMID 20617178] Leprosy and the adaptation of human toll-like receptor 1.
[PMID 23824834] Genetic variation in the TLR and NF-κB genetic pathways and cervical and vulvar cancer risk: A population-based case-control study
[PMID 23071570] Gene-gene interaction and functional impact of polymorphisms on innate immune genes in controlling Plasmodium falciparum blood infection level.
[PMID 23647060] Candidate gene association studies and risk of chronic lymphocytic leukemia: a systematic review and meta-analysis.
| ClinVar | |
|---|---|
| Risk | rs2239704(G;G) |
| Alt | rs2239704(G;G) |
| Reference | rs2239704(T;T) |
| Significance | Other |
| Disease | Leprosy |
| Variation | info |
| Gene | LTA |
| CLNDBN | Leprosy, early-onset, susceptibility to |
| Reversed | 1 |
| HGVS | NC_000006.11:g.31540141A\x3d |
| CLNSRC | OMIM Allelic Variant |
| CLNACC | RCV000015458.2, |
[PMID 32420584] The effect of LTA gene polymorphisms on cancer risk: An updated systematic review and meta-analysis.
