Abstract
Genetic variants within oncogenic long non-coding RNAs HOTAIR and HOTTIP may affect their gene expression levels, thereby modifying genetic susceptibility to gastric cancer (GC). In a hospital-based study in Ardabil—a very high-risk area in North-West Iran, 600 blood samples from 300 GC patients and 300 healthy controls were recruited for genotyping. Seven HOTAIR (i.e., rs17720428, rs7958904, rs1899663, and rs4759314) and HOTTIP (i.e., rs3807598, rs17501292, and rs1859168) ‘tag’ single nucleotide polymorphisms (SNPs) were genotyped by the Infinium HTS platform. The rs17720428, rs7958904, and rs1899663 tagSNPs significantly increased GC risk under dominant models by 1.5-, 1.57-, and 1.5-fold, respectively. The G-C-T-A haplotype of HOTAIR tagSNPs increased the risk of GC by 1.31-fold. No significant association was found between HOTTIP SNPs and the risk of GC. HOTAIR and HOTTIP variants were also not associated with any clinicopathologic characteristics. The SNP-SNP interaction of HOTAIR rs17720428/rs7958904 with HOTTIP rs1859168 was associated with an increased risk of GC (rs17720428 TG-rs1859168 CC, OR = 1.76; rs7958904 GC-rs1859168 CC, OR = 1.85; rs7958904 CC-rs1859168 CC, OR = 1.86). Interestingly, the SNP-SNP interaction of HOTAIR rs1899663 with HOTTIP rs1859168 strongly increased the risk of GC (rs1899663 GT-rs1859168 CC, OR = 4.3; rs1899663 TT-rs1859168 CC, OR = 9.37; rs1899663 TT-rs1859168 CA, OR = 6.59). We showed that the HOTAIR rs17720428, rs7958904, and rs1899663 tagSNPs and their interactions with the HOTTIP rs1859168 polymorphism significantly increased the risk of GC. Specifically, novel SNP-SNP interactions between HOTAIR and HOTTIP tagSNPs have a larger impact than individual SNP effects on GC risk, thereby providing us with valuable information to reveal potential biological mechanisms for developing GC.
Highlights
Gastric cancer (GC) is a prevalent disease of the digestive system[1,2,3]
Evidences have demonstrated that the aberrant expression of long non-coding RNAs (lncRNAs) may develop various m alignancies[26,27]
Studies have confirmed the roles of lncRNAs as critical regulators of tumorigenesis[30]
Summary
Gastric cancer (GC) is a prevalent disease of the digestive system[1,2,3]. It is the fifth prevalent kind of cancer (5.7%) and the third cause of cancer-related mortality (8.2%)[4]. Studies of genome-wide association which scan the whole genome for prevalent genetic variants have shown over 450 SNPs related to susceptibility to different cancer types[7]. Non-coding RNAs are the major regulators of some biological processes, including translation, transcription, epigenetic gene expression, splicing, cell cycle, embryogenesis, stem cell pluripotency and reprogramming, and the immune response regulation[10,11]. HOX transcript antisense RNA (HOTAIR)—a well-known oncogenic lncRNA—is highly expressed in GC tissues and has been recognized as a critical prognostic biomarker for major cancers, including GC. HOTAIR targets miR-126 to activate the multidrug resistance-associated protein 1/phosphatidylinositol 3-kinase (PI3-K)/Akt and promotes cisplatin resistance in GC. It directly inhibits miR126, promoting the expression of PI3-K regulatory subunit beta and vascular endothelial growth factor A. To perform data mining regarding the SNPSNP interactions, all possible pair combinations between all of the HOTAIR and HOTTIP SNPs in relation to GC susceptibility were analyzed
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