title: HapMap-based study identifies risk sub-region on chromosome 19q13.3 in relation to lung cancer among Chinese.
abstract: BACKGROUND
  Chromosome 19q13.3 has been identified as one of the regions that associate with cancer risk in previous studies.
  
  
  METHODS
  We systematically examined the 70.772kb region comprising four genes on chromosome 19q13.3 among Chinese using the haplotype-tagging SNP (htSNP) approach and the HapMap platform. The study involved 339 lung cancer cases and 358 non-cancer controls. Two htSNPs (rs1046282 and rs735482) captured most of the common haplotypes of CD3EA and the combined effects of sixteen htSNPs provided high coverage of common haplotypes of ERCC2, PPP1R13L, CD3EAP and ERCC1.
  
  
  RESULTS
  Both carriers of variant CC genotype [adjusted OR (95% CI)=1.28 (1.02-1.60), P=0.04] and variant C-allele among >20 years' smokers [OR (95% CI)=2.13 (1.24-3.67), P=0.006] for CD3EAP rs735482 were at increased risk of lung cancer. Four haplotype blocks of strong linkage disequilibrium were identified. The haplotype ERCC2 rs3916874(G) and rs238415(C) [OR (95% CI)=1.26 (1.02-1.57), P=0.03] in block 1 and the haplotype PPP1R13L rs4803817(A), CD3EAP rs1046282(T), rs735482(C), ERCC1 rs3212980(A), rs3212964(G) [OR (95% CI)=3.56 (1.55-8.18), P=0.005] in block 3 were associated with lung cancer risk. MDR (multifactor dimensionality reduction) analysis demonstrated the best significant model of two-attributes containing smoking duration and rs2298881 in ERCC1 (P=0.004-0.005) and suggested that the effects of high-order interactions among smoking duration and ERCC2, PPP1R13, ERCC1 htSNPs could modulate lung cancer risk.
  
  
  CONCLUSIONS
  HapMap-based study of 19q13.3 identified that genetic variation of CD3EAP and two loci were associated with lung cancer risk and interaction of smoking duration and genetic variants was the strongest predictor of lung cancer risk in a Chinese population.
authors.affiliation: Key Laboratory of Environment and Population Health of Liaoning Education Ministry (Shenyang Medical College), Shenyang 110034, Liaoning Province, People's Republic of China; Department of Cell Biology and Genetics, Shenyang Medical College, Shenyang 110034, Liaoning Province, People's Republic of China. Electronic address: yinjye@163.com.
authors.forename: Jiaoyang
authors.initials: J
authors.lastname: Yin
authors.forename: Ulla
authors.initials: U
authors.lastname: Vogel
authors.forename: Huiwen
authors.initials: H
authors.lastname: Wang
authors.forename: Yegang
authors.initials: Y
authors.lastname: Ma
authors.forename: Chunhong
authors.initials: C
authors.lastname: Wang
authors.forename: Duohong
authors.initials: D
authors.lastname: Liang
authors.forename: Jian
authors.initials: J
authors.lastname: Liu
authors.forename: Li
authors.initials: L
authors.lastname: Yue
authors.forename: Yudan
authors.initials: Y
authors.lastname: Zhao
authors.forename: Jian
authors.initials: J
authors.lastname: Ma
mesh_terms: D044466:Asian People / Q000235:genetics*; D014408:Biomarkers, Tumor / Q000235:genetics*; D016022:Case-Control Studies; D002681:China; D002888:Chromosomes, Human, Pair 19 / Q000235:genetics*; D005260:Female; D005500:Follow-Up Studies; D020022:Genetic Predisposition to Disease; D005838:Genotype; D060148:HapMap Project; D006239:Haplotypes / Q000235:genetics*; D006801:Humans; D015810:Linkage Disequilibrium; D008175:Lung Neoplasms / Q000235:genetics*; D008297:Male; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic / Q000235:genetics*; D011379:Prognosis; D012307:Risk Factors
chemical_list: D014408:Biomarkers, Tumor
keywords: Chinese; Chromosome 19q13.3; ERCC2, PPP1R13L, CD3EAP and ERCC1; HapMap database; Lung cancer; htSNP