SNP rs10248565 in HDAC9 as a novel genomic aberration biomarker of lung adenocarcinoma in non-smoking women

Journal of Biomedical Science

Eric Y Chuang⁵  Chuhsing K Hsiao¹  Chung-Ping Hsu⁷  Jang-Ming Lee²  Tzu-Pin Lu⁴  Shin-Kuang Chen⁴  Jen-Hao Hsiao³  Lee H Chen³  Pei-Chun Chen⁸  Mong-Hsun Tsai⁶  Liang-Chuan Lai³ 

[1] Department of Public Health, National Taiwan University, Taipei, Taiwan;Department of Surgery, National Taiwan University Hospital, Taipei, Taiwan;Bioinformatics and Biostatistics Core, Center of Genomic Medicine, National Taiwan University, Taipei, Taiwan;YongLin Biomedical Engineering Center, National Taiwan University, Taipei, Taiwan;Graduate Institute of Biomedical Electronics and Bioinformatics, Department of Electrical Engineering, National Taiwan University, Taipei, Taiwan;Institute of Biotechnology, National Taiwan University, Taipei, Taiwan;Division of Thoracic Surgery, Taichung Veterans General Hospital, Taichung, Taiwan;Department of Statistics and Informatics Science, Providence University, Taichung, Taiwan

关键词: Non-smoking;    Adenocarcinoma;    HDAC9;    rs10248565;    Microarray;    Lung cancer;   

Others  :  820939
DOI  :  10.1186/1423-0127-21-24

 received in 2014-01-09, accepted in 2014-03-18,  发布年份 2014

【 摘 要 】

Background

Numerous efforts have been made to elucidate the etiology and improve the treatment of lung cancer, but the overall five-year survival rate is still only 15%. Although cigarette smoking is the primary risk factor for lung cancer, only 7% of female lung cancer patients in Taiwan have a history of smoking. Since cancer results from progressive accumulation of genetic aberrations, genomic rearrangements may be early events in carcinogenesis.

Results

In order to identify biomarkers of early-stage adenocarcinoma, the genome-wide DNA aberrations of 60 pairs of lung adenocarcinoma and adjacent normal lung tissue in non-smoking women were examined using Affymetrix Genome-Wide Human SNP 6.0 arrays. Common copy number variation (CNV) regions were identified by ≥30% of patients with copy number beyond 2 ± 0.5 of copy numbers for each single nucleotide polymorphism (SNP) and at least 100 continuous SNP variant loci. SNPs associated with lung adenocarcinoma were identified by McNemar’s test. Loss of heterozygosity (LOH) SNPs were identified in ≥18% of patients with LOH in the locus. Aberration of SNP rs10248565 at HDAC9 in chromosome 7p21.1 was identified from concurrent analyses of CNVs, SNPs, and LOH.

Conclusion

The results elucidate the genetic etiology of lung adenocarcinoma by demonstrating that SNP rs10248565 may be a potential biomarker of cancer susceptibility.

【 授权许可】

   
2014 Lai et al.; licensee BioMed Central Ltd.

【 图 表 】

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