rs9652490
| Orientation | plus |
| Stabilized | plus |
| Geno | Mag | Summary |
|---|---|---|
| (A;A) | 2 | ~2x increased risk for Parkinson's disease, and, essential tremor |
| (A;G) | 1.5 | Slightly increased risk of developing Parkinson's Disease |
| (G;G) | 1 | Normal risk of developing Parkinson's Disease |
| Reference | GRCh38 38.1/141 |
| Chromosome | 15 |
| Position | 77671545 |
| Gene | LINGO1 |
| is a | snp |
| is | mentioned by |
| dbSNP | rs9652490 |
| dbSNP (classic) | rs9652490 |
| ClinGen | rs9652490 |
| ebi | rs9652490 |
| HLI | rs9652490 |
| Exac | rs9652490 |
| Gnomad | rs9652490 |
| Varsome | rs9652490 |
| LitVar | rs9652490 |
| Map | rs9652490 |
| PheGenI | rs9652490 |
| Biobank | rs9652490 |
| 1000 genomes | rs9652490 |
| hgdp | rs9652490 |
| ensembl | rs9652490 |
| geneview | rs9652490 |
| scholar | rs9652490 |
| rs9652490 | |
| pharmgkb | rs9652490 |
| gwascentral | rs9652490 |
| openSNP | rs9652490 |
| 23andMe | rs9652490 |
| SNPshot | rs9652490 |
| SNPdbe | rs9652490 |
| MSV3d | rs9652490 |
| GWAS Ctlg | rs9652490 |
| GMAF | 0.2759 |
| Max Magnitude | 2 |
| ? | (A;A) (A;G) (G;G) | 28 |
|---|---|---|
|
| ||
rs9652490 is a SNP in the LINGO1 gene. Note: it is unclear why one set of authors report the risk allele for essential tremors to be (G), while the others just as clearly report the risk allele to be (A).
A follow-up case-control study replicated the original association of rs9652490(A;A) to an ~2x increased risk for Parkinson's disease, but also found the same risk for essential tremor (ET), thus linking the two diseases. The ET study was based on ~300 patients.[PMID 19720553
]
23andMe blog "In a combined analysis of 752 subjects with essential tremor from Iceland, Austria, Germany and the United States and 15,797 controls, Stefansson et al found that the G version of rs9652490 in the LINGO1 gene is associated with increased odds of the condition. Carrying one G increases the odds of essential tremor by 1.55 times compared to two As. The approximately 5% of the population with European ancestry with two Gs has 2.40 times increased odds."
[PMID 20957646] Finds no evidence that rs9652490 is associated with Parkinson's disease in a Chinese population, or, based on a meta-analysis.
| GWAS snp | |
|---|---|
| PMID | [PMID 19182806]
|
| Trait | Essential tremor |
| Title | Variant in the sequence of the LINGO1 gene confers risk of essential tremor |
| Risk Allele | G |
| P-val | 1E-9 |
| Odds Ratio | 1.55 [1.35-1.79] |
[PMID 19720553] LINGO1 rs9652490 is associated with essential tremor and Parkinson disease
[PMID 19908305] Role of LINGO1 polymorphisms in Parkinson's disease
[PMID 20117178] Analysis of LINGO1 (rs9652490) polymorphism in sporadic Parkinson's disease in a Polish population, and a meta-analysis
[PMID 20310002] LINGO1 polymorphisms are associated with essential tremor in Europeans
[PMID 20951767] LINGO1 rs9652490 variant in Parkinson disease patients
[PMID 21264305] LINGO1 Variants in the French-Canadian Population
[PMID 22166413] Genetics of essential tremor
[PMID 22710005] Genetic variation in LINGO-1 (rs9652490) and risk of Parkinson's disease: twelve studies and a meta-analysis
[PMID 20369022] Candidate causal regulatory effects by integration of expression QTLs with complex trait genetic associations.
[PMID 20369371] LINGO1 and LINGO2 variants are associated with essential tremor and Parkinson disease.
[PMID 20372186] Replication of the LINGO1 gene association with essential tremor in a North American population.
[PMID 20600614] Screening for two SNPs of LINGO1 gene in patients with essential tremor or sporadic Parkinson's disease in Chinese population.
[PMID 21158743] Analysis of Lingo1 variant in sporadic and familial essential tremor among Asians.
[PMID 21207446] LINGO1 gene analysis in Parkinson's disease phenotypes.
[PMID 21219542] Lack of association of LINGO1 rs9652490 and rs11856808 SNPs with familial essential tremor.
[PMID 21955595] LINGO1 rs9652490 and rs11856808 are not associated with the risk of Parkinson's disease: results of a meta-analysis.
[PMID 22425540] LINGO1 and risk for essential tremor: results of a meta-analysis of rs9652490 and rs11856808.
[PMID 23574883] LINGO1 rs9652490 and rs11856808 polymorphisms are not associated with risk for multiple sclerosis
[PMID 31755235] Assessment of three essential tremor genetic loci in sporadic Parkinson's disease in Eastern China.
