Evaluation and Integration of Genetic Signature for Prediction Risk of Nasopharyngeal Carcinoma in Southern China

Author:

Guo Xiuchan123ORCID,Winkler Cheryl A.4,Li Ji1,Guan Li5,Tang Minzhong67,Liao Jian8,Deng Hong7,de Thé Guy9,Zeng Yi26,O’Brien Stephen J.5

Affiliation:

1. Key Laboratory of Laboratory Medicine, School of Laboratory Medicine and Life Science, Wenzhou Medical University, Wenzhou 325000, China

2. State Key Laboratory for Infectious Diseases Prevention and Control, Institute for Viral Disease Control and Prevention, Chinese CDC, Beijing 10052, China

3. ICF International, Atlanta, GA 30329, USA

4. Basic Research Laboratory, Frederick National Laboratory, Leidos Biomedical Research, Inc., National Cancer Institute, Frederick, MD 21702, USA

5. Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University, St. Petersburg 199004, Russia

6. College of Life Science and Bio-Engineering, Beijing University of Technology, Beijing 100022, China

7. Cancer Center, Wuzhou Red Cross Hospital, Guangxi 543002, China

8. Cangwu Institute for Nasopharyngeal Carcinoma Control and Prevention, Wuzhou, Guangxi 543100, China

9. Institut Pasteur, 75724 Paris, France

Abstract

Genetic factors, as well as environmental factors, play a role in development of nasopharyngeal carcinoma (NPC). A number of single nucleotide polymorphisms (SNPs) have been reported to be associated with NPC. To confirm these genetic associations with NPC, two independent case-control studies from Southern China comprising 1166 NPC cases and 2340 controls were conducted. Seven SNPs inITGA9at 3p21.3 and 9 SNPs within the 6p21.3HLAregion were genotyped. To explore the potential clinical application of these genetic markers in NPC, we further evaluate the predictive/diagnostic role of significant SNPs by calculating the area under the curve (AUC).Results.The reported associations betweenITGA9variants and NPC were not replicated. Multiple loci ofGABBR1,HLA-F,HLA-A, andHCG9were statistically significant in both cohorts (Pcombinedrange from 5.96 × 10−17to 0.02). We show for the first time that these factors influence NPC development independent of environmental risk factors. This study also indicated that the SNP alone cannot serve as a predictive/diagnostic marker for NPC. Integrating the most significant SNP with IgA antibodies status to EBV, which is presently used as screening/diagnostic marker for NPC in Chinese populations, did not improve the AUC estimate for diagnosis of NPC.

Funder

National Cancer Institute

Publisher

Hindawi Limited

Subject

General Immunology and Microbiology,General Biochemistry, Genetics and Molecular Biology,General Medicine

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