title: SNP rs10248565 in HDAC9 as a novel genomic aberration biomarker of lung adenocarcinoma in non-smoking women.
abstract: 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.
  
  
  CONCLUSIONS
  The results elucidate the genetic etiology of lung adenocarcinoma by demonstrating that SNP rs10248565 may be a potential biomarker of cancer susceptibility.
authors.affiliation: Graduate Institute of Physiology, National Taiwan University, Taipei, Taiwan. llai@ntu.edu.tw.
authors.forename: Liang-Chuan
authors.initials: LC
authors.lastname: Lai
authors.forename: Mong-Hsun
authors.initials: MH
authors.lastname: Tsai
authors.forename: Pei-Chun
authors.initials: PC
authors.lastname: Chen
authors.forename: Lee H
authors.initials: LH
authors.lastname: Chen
authors.forename: Jen-Hao
authors.initials: JH
authors.lastname: Hsiao
authors.forename: Shin-Kuang
authors.initials: SK
authors.lastname: Chen
authors.forename: Tzu-Pin
authors.initials: TP
authors.lastname: Lu
authors.forename: Jang-Ming
authors.initials: JM
authors.lastname: Lee
authors.forename: Chung-Ping
authors.initials: CP
authors.lastname: Hsu
authors.forename: Chuhsing K
authors.initials: CK
authors.lastname: Hsiao
authors.forename: Eric Y
authors.initials: EY
authors.lastname: Chuang
mesh_terms: D000230:Adenocarcinoma / Q000235:genetics* / Q000473:pathology; D000077192:Adenocarcinoma of Lung; D000368:Aged; D005260:Female; D020022:Genetic Predisposition to Disease; D015894:Genome, Human; D055106:Genome-Wide Association Study; D006655:Histone Deacetylases / Q000235:genetics*; D006801:Humans; D019656:Loss of Heterozygosity; D008175:Lung Neoplasms / Q000235:genetics* / Q000473:pathology; D046228:Microarray Analysis; D008875:Middle Aged; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D012097:Repressor Proteins / Q000235:genetics*; D012907:Smoking; D013624:Taiwan
chemical_list: D012097:Repressor Proteins; C486544:HDAC9 protein, human; D006655:Histone Deacetylases