Chromosome copy number analysis in screening for prognosis-related genomic regions in colorectal carcinoma

Cancer Science

Volumn 99, Issue 9, 2008, Pages 1835-1840

  Kurashina, Kentaro ^a,b   Yamashita, Yoshihiro ^a   Ueno, Toshihide ^a   Koinuma, Koji ^b   Ohashi, Jun ^c   Horie, Hisanaga ^b   Miyakura, Yasuyuki ^b   Hamada, Toru ^a,b   Haruta, Hidenori ^a,b   Hatanaka, Hisashi ^a   Soda, Manabu ^a   Choi, Young Lim ^a   Takada, Shuji ^a   Yasuda, Yoshikazu ^b   Nagai, Hideo ^b   Mano, Hiroyuki ^a,d  

^a UNIVERSITY OF TOKYO   (Japan)

^b JICHI MEDICAL UNIVERSITY   (Japan)

^c UNIVERSITY OF TOKYO   (Japan)

^d JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ATAXIN 2 BINDING PROTEIN 1; BINDING PROTEIN; BREAST CANCER CELL 2 PROTEIN; CYCLIN G1; FAT TUMOR SUPPRESSOR HOMOLOG PROTEIN; FRAGILE HISTIDINE TRIAD PROTEIN; GENE PRODUCT; GLYCERALDEHYDE 3 PHOSPHATE DEHYDROGENASE; INVASION INHIBITORY PROTEIN 45; PERIOD HOMOLOG 3 PROTEIN; PROTEIN TYROSINE PHOSPHATASE NON RECEPTOR TYPE 1; S6 KINASE; TRANSCRIPTION FACTOR MAFK; TUMOR NECROSIS FACTOR RECEPTOR; UBINUCLEIN 1;

ARTICLE; CARCINOGENESIS; CHROMOSOME ANALYSIS; CHROMOSOME COPY NUMBER ANALYSIS; COLORECTAL CARCINOMA; CONTROLLED STUDY; GENE AMPLIFICATION; GENE CLUSTER; GENE LOCUS; GENE MAPPING; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC SCREENING; HETEROZYGOSITY LOSS; HUMAN; HUMAN TISSUE; MICROARRAY ANALYSIS; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROGNOSIS; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; UNIPARENTAL DISOMY;

ANEUPLOIDY; CHROMOSOME ABERRATIONS; COLORECTAL NEOPLASMS; FEMALE; GENETIC SCREENING; GENOME; GENOTYPE; HUMANS; LOSS OF HETEROZYGOSITY; MALE; MASS SCREENING; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMORPHISM, SINGLE NUCLEOTIDE; PROGNOSIS;

EID: 50149117751     PISSN: 13479032     EISSN: 13497006     Source Type: Journal    
DOI: 10.1111/j.1349-7006.2008.00881.x     Document Type: Article

References (32)

1. Jemal A, Siegel R, Ward E et al. Cancer statistics, 2006. CA Cancer J Clin 2006; 56: 106-30.
2. Portier G, Elias D, Bouche O et al. Multicenter randomized trial of adjuvant fluorouracil and folinic acid compared with surgery alone after resection of colorectal liver metastases: FFCD ACHBTH AURC 9002 trial. J Clin Oncol 2006; 24: 4976-82.
3. Fearon ER, Vogelstein B. A genetic model for colorectal tumorigenesis. Cell 1990; 61: 759-67.
4. Lengauer C, Kinzler KW, Vogelstein B. Genetic instabilities in human cancers. Nature 1998; 396: 643-9.
5. Kralovics R, Passamonti F, Buser AS et al. A gain-of-function mutation of JAK2 in myeloproliferative disorders. N Engl J Med 2005; 352: 1779-90.
6. Jiang JK, Chen YJ, Lin CH, Yu IT, Lin JK. Genetic changes and clonality relationship between primary colorectal cancers and their pulmonary metastases - an analysis by comparative genomic hybridization. Genes Chromosomes Cancer 2005; 43: 25-36.
7. Kleivi K, Teixeira MR, Eknaes M et al. Genome signatures of colon carcinoma cell lines. Cancer Genet Cytogenet 2004; 155: 119-31.
8. Nannya Y, Sanada M, Nakazaki K et al. A robust algorithm for copy number detection using high-density oligonucleotide single nucleotide polymorphism genotyping arrays. Cancer Res 2005; 65: 6071-9.
9. Lin M, Wei LJ, Sellers WR, Lieberfarb M, Wong WH, Li C. dChipSNP: significance curve and clustering of SNP-array-based loss-of-heterozygosity data. Bioinformatics 2004; 20: 1233-40.
10. Redon R, Ishikawa S, Fitch KR et al. Global variation in copy number in the human genome. Nature 2006; 444: 444-54.
11. Andersen CL, Wiuf C, Kruhoffer M, Korsgaard M, Laurberg S, Orntoft TF. Frequent occurrence of uniparental disomy in colorectal cancer. Carcinogenesis 2007; 28: 38-48.
12. Tsafrir D, Bacolod M, Selvanayagam Z et al. Relationship of gene expression and chromosomal abnormalities in colorectal cancer. Cancer Res 2006; 66: 2129-37.
13. Gaasenbeek M, Howarth K, Rowan AJ et al. Combined array-comparative genomic hybridization and single-nucleotide polymorphism-loss of heterozygosity analysis reveals complex changes and multiple forms of chromosomal instability in colorectal cancers. Cancer Res 2006; 66: 3471-9.
14. Lips EH, Dierssen JW, van Eijk R et al. Reliable high-throughput genotyping and loss-of-heterozygosity detection in formalin-fixed, paraffin-embedded tumors using single nucleotide polymorphism arrays. Cancer Res 2005; 65: 10.188-91.
15. Miyakura Y, Sugano K, Konishi F et al. Extensive methylation of hMLH1 promoter region predominates in proximal colon cancer with microsatellite instability. Gastroenterology 2001; 121: 1300-9.
16. Storey JD, Tibshirani R. Statistical significance for genomewide studies. Proc Natl Acad Sci USA 2003; 100: 9440-5.
17. Jones HE, Ohlssen DI, Spiegelhalter DJ. Use of the false discovery rate when comparing multiple health care providers. J Clin Epidemiol 2008; 61: 232-40.
18. Zanesi N, Fidanza V, Fong LY et al. The tumor spectrum in FHIT-deficient mice. Proc Natl Acad Sci USA 2001; 98: 10.250-5.
19. Andersen CL, Wiuf C, Kruhoffer M, Korsgaard M, Laurberg S, Orntoft TF. Frequent occurrence of uniparental disomy in colorectal cancer. Carcinogenesis 2006; 28: 38-48.
20. Cox DR. Regression models and life tables. J R Stat Soc 1972; 34: 187-220.
21. Sugihara T, Magae J, Wadhwa R et al. Dose and dose-rate effects of low-dose ionizing radiation on activation of Trp53 in immortalized murine cells. Radiat Res 2004; 162: 296-307.
22. Wagner KJ, Patek CE, Miles C, Christie S, Brookes AJ, Hooper ML. Truncation of WT1 results in downregulation of cyclin G1 and IGFBP-4 expression. Biochem Biophys Res Commun 2001; 287: 977-82.
23. Aho S, Buisson M, Pajunen T et al. Ubinuclein, a novel nuclear protein interacting with cellular and viral transcription factors. J Cell Biol 2000; 148: 1165-76.
24. Kinzler KW, Nilbert MC, Vogelstein B et al. Identification of a gene located at chromosome 5q21 that is mutated in colorectal cancers. Science 1991; 251: 1366-70.
25. Cawkwell L, Lewis FA, Quirke P. Frequency of allele loss of DCC, p53, RBI, WT1, NF1, NM23 and APC/MCC in colorectal cancer assayed by fluorescent multiplex polymerase chain reaction. Br J Cancer 1994; 70: 813-18.
26. 1 to S phase. J Biol Chem 1996; 271: 10.341-6.
27. Fijneman RJ, Carvalho B, Postma C, Mongera S, van Hinsbergh VW, Meijer GA. Loss of 1p36, gain of 8q24, and loss of 9q34 are associated with stroma percentage of colorectal cancer. Cancer Lett 2007; 258: 223-9.
28. Jones AM, Douglas EJ, Halford SE et al. Array-CGH analysis of microsatellite-stable, near-diploid bowel cancers and comparison with other types of colorectal carcinoma. Oncogene 2005; 24: 118-29.
29. Chang SC, Tucker T, Thorogood NP, Brown CJ. Mechanisms of X-chromosome inactivation. Front Biosci 2006; 11: 852-66.
30. Carrington JC, Ambros V. Role of microRNAs in plant and animal development. Science 2003; 301: 336-8.
31. Carninci P, Kasukawa T, Katayama S et al. The transcriptional landscape of the mammalian genome. Science 2005; 309: 1559-63.
32. Takada S, Berezikov E, Yamashita Y et al. Mouse microRNA profiles determined with a new and sensitive cloning method. Nucleic Acids Res 2006; 34: E115.