This SNP, located in an intron of the LOXL1 gene, was initially reported to be associated with exfoliation glaucoma. However, it was shown in the same study to no longer be significant once two other SNPs, which cause actual changes in the LOXL1 protein, were identified.
More specifically, the risk allele rs2165241(T) was found to be associated with glaucoma only because it effectively predicted (with 90% probability) the actual high-risk haplotype consisting of rs1048661(G) and rs3825942(C), as oriented with respect to their entries in dbSNP. [PMID 17690259]
However, a meta-analysis published in 2010 concluded that it's likely that SNPs rs1048661 and rs2165241 are not directly implicated in the pathogenesis of glaucoma; only the nearby rs3825942 seemed to be the disease-associated SNP.[PMID 20142848]
[PMID 18287813] rs2165241 was significantly associated with XFG and XFS (p=4.13x10e-9 for an additive model, heterozygote odds ratio = 4.42 (CI: 2.3-8.5), homozygote odds ratio = 34.19 (CI: 4.48-261), with the rs2165241 (T) allele being the risk allele, found in 83.1% of cases versus 52.4% in controls, based on a study of 62 Caucasian patients. Significant association was also found for rs3825942 (p=1.89x10e-6).
[PMID 18385788] rs1048661 (G), rs3825942 (G), and rs2165241 (T) are highly associated with XFS and XFG in American and European populations. The GGT haplotype constitutes a major risk haplotype for exfoliation.
[PMID 18385063] Confirmed as risk for pseudoexfoliation (PEX) and pseudoexfoliation glaucoma (PEXG) in populations of German and Italian descent.
|On GW 5.0||0|
|Odds Ratio Het|
|Odds Ratio Hom|
|Odds Ratio All||1.96|
rs2165241 increases susceptibility to Exfoliation glaucoma 3.62 times for carriers of the T allele [PMID 17690259]
rs2165241 increases susceptibility to Glaucoma 1.96 times for carriers of the T allele [PMID 17690259]
rs2165241 increases susceptibility to Primary open-angle glaucoma 1.04 times for carriers of the T allele [PMID 17690259][PMID 19936304] Evaluation of LOXL1 polymorphisms in exfoliation syndrome in a Chinese population
[PMID 20051886] Lack of Association of Polymorphisms in Elastin With Pseudoexfoliation Syndrome and Glaucoma[PMID 21510775] Lack of association between LOXL1 gene polymorphisms and primary open angle glaucoma in the Saudi Arabian population
[PMID 21970694] Prevalence of high-risk alleles in the LOXL1 gene and its association with pseudoexfoliation syndrome and exfoliation glaucoma in a Latin American population
[PMID 22194657] Analysis of LOXL1 gene variants in Japanese patients with branch retinal vein occlusion
[PMID 22765198] TT polymorphism in rs2165241 and rs1048661 region in lysyl oxidase like-1 gene may have a role in stress urinary incontinence physiopathology
[PMID 18223248] The LOXL1 gene variations are not associated with primary open-angle and primary angle-closure glaucomas.
[PMID 18254956] DNA sequence variants in the LOXL1 gene are associated with pseudoexfoliation glaucoma in a U.S. clinic-based population with broad ethnic diversity.
[PMID 18334928] Analysis of LOXL1 polymorphisms in a United States population with pseudoexfoliation glaucoma.
[PMID 18334947] Association of non-synonymous single nucleotide polymorphisms in the LOXL1 gene with pseudoexfoliation syndrome in India.
[PMID 18421074] Lack of association between LOXL1 variants and primary open-angle glaucoma in three different populations.
[PMID 18450598] Association of LOXL1 gene polymorphisms with pseudoexfoliation in the Japanese.
[PMID 18618003] Exfoliation syndrome and exfoliation glaucoma-associated LOXL1 variations are not involved in pigment dispersion syndrome and pigmentary glaucoma.
[PMID 18648524] Evaluation of LOXL1 polymorphisms in eyes with exfoliation glaucoma in Japanese.
[PMID 18958304] LOXL1 variants in elderly Japanese patients with exfoliation syndrome/glaucoma, primary open-angle glaucoma, normal tension glaucoma, and cataract.
[PMID 19098994] Evaluation of LOXL1 polymorphisms in primary open-angle glaucoma in southern and northern Chinese.
[PMID 19112534] Lack of association of polymorphisms in homocysteine metabolism genes with pseudoexfoliation syndrome and glaucoma.
[PMID 19343041] Association of LOXL1 gene with Finnish exfoliation syndrome patients.
[PMID 19503743] Association of LOXL1 polymorphisms with pseudoexfoliation in the Chinese.
[PMID 19801603] Rapid inexpensive genome-wide association using pooled whole blood.
[PMID 20431720] Major LOXL1 risk allele is reversed in exfoliation glaucoma in a black South African population.
[PMID 20661439] Ancestry-shift refinement mapping of the C6orf97-ESR1 breast cancer susceptibility locus.
[PMID 21150032] Complex genetic mechanisms in glaucoma: an overview.
[PMID 21559813] No association of LOXL1 gene polymorphisms with Alzheimer's disease.
[PMID 23441117] Evaluation of lysyl oxidase-like 1 gene polymorphisms in pseudoexfoliation syndrome in a Korean population
[PMID 23869164] Association of lysyl oxidase-like 1 gene common sequence variants in Greek patients with pseudoexfoliation syndrome and pseudoexfoliation glaucoma
[PMID 24068861] The T allele of lysyl oxidase-like 1 rs41435250 is a novel risk factor for pseudoexfoliation syndrome and pseudoexfoliation glaucoma independently and through intragenic epistatic interaction