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Genetic variants in STAT4 and HLA-DQ genes confer risk of hepatitis B virus-related hepatocellular carcinoma.

ABSTRACT: To identify genetic susceptibility loci for hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC) in the Chinese population, we carried out a genome-wide association study (GWAS) in 2,514 chronic HBV carriers (1,161 HCC cases and 1,353 controls) followed by a 2-stage validation among 6 independent populations of chronic HBV carriers (4,319 cases and 4,966 controls). The joint analyses showed that HCC risk was significantly associated with two independent loci: rs7574865 at STAT4, P(meta) = 2.48 × 10(-10), odds ratio (OR) = 1.21; and rs9275319 at HLA-DQ, P(meta) = 2.72 × 10(-17), OR = 1.49. The risk allele G at rs7574865 was significantly associated with lower mRNA levels of STAT4 in both the HCC tissues and nontumor tissues of 155 individuals with HBV-related HCC (P(trend) = 0.0008 and 0.0002, respectively). We also found significantly lower mRNA expression of STAT4 in HCC tumor tissues compared with paired adjacent nontumor tissues (P = 2.33 × 10(-14)).

SUBMITTER: Jiang DK

PROVIDER: S-EPMC4105840 | biostudies-literature | 2013 Jan

REPOSITORIES: biostudies-literature

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Genetic variants in STAT4 and HLA-DQ genes confer risk of hepatitis B virus-related hepatocellular carcinoma.

Jiang De-Ke DK Sun Jielin J Cao Guangwen G Liu Yao Y Lin Dongxin D Gao Yu-Zhen YZ Ren Wei-Hua WH Long Xi-Dai XD Zhang Hongxing H Ma Xiao-Pin XP Wang Zhong Z Jiang Wei W Chen Tao-Yang TY Gao Yong Y Sun Liang-Dan LD Long Ji-Rong JR Huang Hui-Xing HX Wang Dan D Yu Hongjie H Zhang Pengyin P Tang Li-Sha LS Peng Bo B Cai Hao H Liu Ting-Ting TT Zhou Ping P Liu Fang F Lin Xiaoling X Tao Sha S Wan Bo B Sai-Yin He-Xi Ge HX Qin Lun-Xiu LX Yin Jianhua J Liu Li L Wu Chen C Pei Yan Y Zhou Yuan-Feng YF Zhai Yun Y Lu Pei-Xin PX Tan Aihua A Zuo Xian-Bo XB Fan Jia J Chang Jiang J Gu Xiaoli X Wang Neng-Jin NJ Li Yang Y Liu Yin-Kun YK Zhai Kan K Zhang Hongwei H Hu Zhibin Z Liu Jun J Yi Qing Q Xiang Yongbing Y Shi Rong R Ding Qiang Q Zheng Wei W Shu Xiao-Ou XO Mo Zengnan Z Shugart Yin Yao YY Zhang Xue-Jun XJ Zhou Gangqiao G Shen Hongbing H Zheng S Lilly SL Xu Jianfeng J Yu Long L

Nature genetics 20121216 1

To identify genetic susceptibility loci for hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC) in the Chinese population, we carried out a genome-wide association study (GWAS) in 2,514 chronic HBV carriers (1,161 HCC cases and 1,353 controls) followed by a 2-stage validation among 6 independent populations of chronic HBV carriers (4,319 cases and 4,966 controls). The joint analyses showed that HCC risk was significantly associated with two independent loci: rs7574865 at STAT4, P(meta ...[more]

PMID: 23242368

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Project description:BackgroundAlthough the sphingolipid metabolism pathway is known to play a significant role in tumor progression, there have been few studies on how genetic variants in the sphingolipid metabolism pathway genes affect the survival of patients with hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC).MethodsWe utilized available genotyping data to conduct multivariate Cox proportional hazards regression model analysis, examining the associations of 12,188 single nucleotide polymorphisms (SNPs) in 86 sphingolipid metabolism pathway genes on the survival of 866 HBV-HCC patients, and the model was also used in additive interaction analysis. We used bioinformatics functional prediction and expression quantitative trait locus (eQTL) analysis to explore the potential functions of SNPs and to evaluate the association of SNPs with the corresponding mRNA expression, respectively. We also used the online database TIMER2.0 (http://timer.comp-genomics.org/) to analyze the relationship between the corresponding mRNA expression levels and immune cell infiltration.ResultsOur study found that GBA2 rs1570247 G>A was significantly associated with elevated survival of HBV-HCC patients [(hazards ratio (HR)=0.74, 95% confidence interval (CI)=0.64-0.86, P<0.001)]. And on an additive scale, a synergistic effect was observed between the GG genotype of rs1570247 and advanced BCLC stage. Among HBV-HCC patients with advanced BCLC stage, those carrying the GBA2 rs1570247 GG genotype exhibited a significantly elevated risk of mortality (HR=3.32, 95%CI=2.45-4.50). Further functional prediction and eQTL analysis revealed that rs1570247 were located in the 5' untranslated region of the GBA2, the A allele of SNP rs1570247 was associated with higher mRNA expression levels of GBA2 in normal liver tissues (P=0.009). Moreover, we observed a positive correlation between GBA2 mRNA expression and the infiltration level of B lymphocytes cell (R=0.331, P<0.001), while a negative correlation was noted between GBA2 mRNA expression and the infiltration level of macrophage M2 in HCC (R=-0.383, P<0.001).ConclusionOur findings suggest that GBA2 rs1570247 G>A in sphingolipid metabolism pathway may be a key factor for survival of HBV-HCC patients by regulating the expression of corresponding genes and affecting the infiltration level of immune cells.

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Genetic variants in STAT4 and HLA-DQ genes confer risk of hepatitis B virus-related hepatocellular carcinoma.

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Genetic variants in STAT4 and HLA-DQ genes confer risk of hepatitis B virus-related hepatocellular carcinoma.

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