Genomic characterization of esophageal squamous cell carcinoma from a high-risk population in China

Cancer Research

Volumn 69, Issue 14, 2009, Pages 5908-5917

  Hu, Nan ^a   Wang, Chaoyu ^a   Ng, David ^a   Clifford, Robert ^b   Yang, Howard H ^b   Tang, Ze Zhong ^c   Wang, Quan Hong ^c   Han, Xiao You ^c   Giffen, Carol ^d   Goldstein, Alisa M ^a   Taylor, Philip R ^a,b   Lee, Maxwell P ^b,e  

^a NATIONAL INSTITUTES OF HEALTH   (United States)

^b NATIONAL CANCER INSTITUTE   (United States)

^c SHANXI CANCER HOSPITAL   (China)

^d INFORMATION MANAGEMENT SERVICES INC   (United States)

^e Laboratory of Population Genetics   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

ADULT; AGED; ARTICLE; BACTERIAL GENE; CARCINOGENESIS; CENTRAL NERVOUS SYSTEM; CHINA; CHROMOSOME 11Q; CHROMOSOME 13Q; CHROMOSOME 17P; CHROMOSOME 3Q; CHROMOSOME ARM; CLINICAL ARTICLE; CONTROLLED STUDY; EMBRYONIC STEM CELL; ESOPHAGEAL SQUAMOUS CELL CARCINOMA; FEMALE; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC ANALYSIS; GENOMIC INSTABILITY; HETEROZYGOSITY LOSS; HIGH RISK POPULATION; HUMAN; MALE; PRIORITY JOURNAL; SINGLE NUCLEOTIDE POLYMORPHISM;

ADULT; AGED; ASIAN CONTINENTAL ANCESTRY GROUP; CARCINOMA, SQUAMOUS CELL; CHINA; CHROMOSOME ABERRATIONS; CHROMOSOME MAPPING; ESOPHAGEAL NEOPLASMS; FEMALE; GENE DOSAGE; GENE EXPRESSION PROFILING; GENE FREQUENCY; GENOME, HUMAN; GENOMIC INSTABILITY; HUMANS; LOSS OF HETEROZYGOSITY; MALE; MIDDLE AGED; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RISK FACTORS; RNA, MESSENGER;

EID: 67650996833     PISSN: 00085472     EISSN: 15387445     Source Type: Journal    
DOI: 10.1158/0008-5472.CAN-08-4622     Document Type: Article

References (39)

1. Lengauer C, Kinzler KW, Vogelstein B. Genetic instabilities in human cancers. Nature 1998;396:643-9.
2. Mitelman Database of Chromsome Aberrations in Cancer. Available from: http://cgap.nci.nih.gov/Chromsomes/ Mitelman 2008.
3. Bodmer W, Bielas JH, Beckman RA. Genetic instability is not a requirement for tumor development. Cancer Res 2008;68:3558-60.
4. Tsukamoto Y, Uchida T, Karnan S, et al. Genome-wide analysis of DNA copy number alterations and gene expression in gastric cancer. J Pathol 2008;216:471-82.
5. de Tayrac M, Etcheverry A, Aubry M, et al. Integrative genome-wide analysis reveals a robust genomic glioblastoma signature associated with copy number driving changes in gene expression. Genes Chromosomes Cancer 2009;48:55-68.
6. Sugimoto T, Arai M, Shimada H, Hata A, Seki N. Integrated analysis of expression and genome alteration reveals putative amplified target genes in esophageal cancer. Oncol Rep 2007;18:465-72.
7. Bergamaschi A, Kim YH, Wang P, et al. Distinct patterns of DNA copy number alteration are associated with different clinicopathological features and gene-expression subtypes of breast cancer. Genes Chromosomes Cancer 2006;45:1033-40.
8. Gysin S, Rickert P, Kastury K, McMahon M. Analysis of genomic DNA alterations and mRNA expression patterns in a panel of human pancreatic cancer cell lines. Genes Chromosomes Cancer 2005;44:37-51.
9. Heidenblad M, Lindgren D, Veltman JA, et al. Microarray analyses reveal strong influence of DNA copy number alterations on the transcriptional patterns in pancreatic cancer: implications for the interpretation of genomic amplifications. Oncogene 2005;24:1794-801.
10. Liu W, Chang B, Sauvageot J, et al. Comprehensive assessment of DNA copy number alterations in human prostate cancers using Affymetrix 100K SNP mapping array. Genes Chromosomes Cancer 2006;45:1018-32.
11. Masayesva BG, Ha P, Garrett-Mayer E, et al. Gene expression alterations over large chromosomal regions in cancers include multiple genes unrelated to malignant progression. Proc Natl Acad Sci U S A 2004;101:8715-20.
12. Pollack JR, Sorlie T, Perou CM, et al. Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors. Proc Natl Acad Sci U S A 2002;99:12963-8.
13. Spielman RS, Bastone LA, Burdick JT, Morley M, Ewens WJ, Cheung VG. Common genetic variants account for differences in gene expression among ethnic groups. Nat Genet 2007;39:226-31.
14. Stransky N, Vallot C, Reyal F, et al. Regional copy number-independent deregulation of transcription in cancer. Nat Genet 2006;38:1386-96.
15. Walker BA, Leone PE, Jenner MW, et al. Integration of global SNP-based mapping and expression arrays reveals key regions, mechanisms, and genes important in the pathogenesis of multiple myeloma. Blood 2006; 108:1733-43.
16. Yan H, Yuan W, Velculescu VE, Vogelstein B, Kinzler KW. Allelic variation in human gene expression. Science 2002;297:1143.
17. Rockman MV, Kruglyak L. Genetics of global gene expression. Nat Rev Genet 2006;7:862-72.
18. Li JY. Epidemiology of esophageal cancer in China. Natl Cancer Inst Monogr 1982;62:113-20.
19. Qiao YL, Hou J, Yang L, et al. [The trends and preventive strategies of esophageal cancer in high-risk areas of Taihang Mountains, China]. Zhongguo Yi Xue Ke Xue Yuan Xue Bao 2001;23:10-4.
20. Hu N, Roth MJ, Emmert-Buck MR, et al. Allelic loss in esophageal squamous cell carcinoma patients with and without family history of upper gastrointestinal tract cancer. Clin Cancer Res 1999;5:3476-82.
21. Hu N, Roth MJ, Polymeropolous M, et al. Identification of novel regions of allelic loss from a genomewide scan of esophageal squamous-cell carcinoma in a high-risk Chinese population. Genes Chromosomes Cancer 2000;27:217-28.
22. Huang J, Hu N, Goldstein AM, et al. High frequency allelic loss on chromosome 17p13.3-p11.1 in esophageal squamous cell carcinomas from a high incidence area in northern China. Carcinogenesis 2000;21:2019-26.
23. Hu N, Su H, Li WJ, et al. Allelotyping of esophageal squamous-cell carcinoma on chromosome 13 defines deletions related to family history. Genes Chromosomes Cancer 2005;44:271-8.
24. Hu N, Wang C, Hu Y, et al. Genome-wide loss of heterozygosity and copy number alteration in esophageal squamous cell carcinoma using the Affymetrix GeneChip Mapping 10 K array. BMC Genomics 2006;7:299.
25. Ng D, Hu N, Hu Y, et al. Replication of a genome-wide case-control study of esophageal squamous cell carcinoma. Int J Cancer 2008;123:1610-5.
26. Emmert-Buck MR, Bonner RF, Smith PD, et al. Laser capture microdissection. Science 1996;274:998-1001.
27. Irizarry RA, Hobbs B, Collin F, et al. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 2003;4:249-64.
28. Bolstad BM, Irizarry RA, Astrand M, Speed TP. A comparison of normalization methods for high density oligonucleotide array data based on variance and bias. Bioinformatics 2003;19:185-93.
29. Tan KD, Zhu Y, Tan HK, et al. Amplification and overexpression of PPFIA1, a putative 11q13 invasion suppressor gene, in head and neck squamous cell carcinoma. Genes Chromosomes Cancer 2008;47:353-62.
30. Hu N, Wang C, Su H, et al. High frequency of CDKN2A alterations in esophageal squamous cell carcinoma from a high-risk Chinese population. Genes Chromosomes Cancer 2004;39:205-16.
31. Shinomiya T, Mori T, Ariyama Y, et al. Comparative genomic hybridization of squamous cell carcinoma of the esophagus: the possible involvement of the DPIgene in the 13q34 amplicon. Genes Chromosomes Cancer 1999;24:337-44.
32. Wang LD, Qin YR, Fan ZM, et al. Comparative genomic hybridization: comparison between esophageal squamous cell carcinoma and gastric cardia adenocarcinoma from a high-incidence area for both cancers in Henan, northern China. Dis Esophagus 2006;19:459-67.
33. Hirasaki S, Noguchi T, Mimori K, et al. BAC clones related to prognosis in patients with esophageal squamous carcinoma: an array comparative genomic hybridization study. Oncologist 2007;12:406-17.
34. Qin YR, Wang LD, Fan ZM, Kwong D, Guan XY. Comparative genomic hybridization analysis of genetic aberrations associated with development of esophageal squamous cell carcinoma in Henan, China. World J Gastroenterol 2008;14:1828-35.
35. Carneiro A, Isinger A, Karlsson A, et al. Prognostic impact of array-based genomic profiles in esophageal squamous cell cancer. BMC Cancer 2008;8:98.
36. Chen J, Guo L, Peiffer DA, et al. Genomic profiling of 766 cancer-related genes in archived esophageal normal and carcinoma tissues. Int J Cancer 2008;122:2249-54.
37. Su H, Hu N, Shih J, et al. Gene expression analysis of esophageal squamous cell carcinoma reveals consistent molecular profiles related to a family history of upper gastrointestinal cancer. Cancer Res 2003;63:3872-6.
38. Shou JZ, Hu N, Takikita M, et al. Overexpression of CDC25B and LAMC2 mRNA and protein in esophageal squamous cell carcinomas and premalignant lesions in subjects from a high-risk population in China. Cancer Epidemiol Biomarkers Prev 2008;17:1424-35.
39. Weaver AM. Cortactin in tumor invasiveness. Cancer Lett 2008;265:157-66.