Array-based comparative genomic hybridization in ulcerative colitis neoplasia: Single non-dysplastic biopsies distinguish progressors from non-progressors

Modern Pathology

Volumn 23, Issue 12, 2010, Pages 1624-1633

  Bronner, Mary P ^a   Skacel, Marek ^b   Crispin, David A ^c   Hoff, Peter D ^d   Emond, Mary J ^d   Lai, Lisa A ^c   Tubbs, Raymond R ^a   O'Sullivan, Jacintha N ^e   Rabinovitch, Peter S ^d   Brentnall, Teresa A ^c  

^a LERNER RESEARCH INSTITUTE   (United States)

^b Dahl Chase Pathology Associates   (United States)

^c UNIVERSITY OF WASHINGTON SCHOOL OF MEDICINE   (United States)

^d UNIVERSITY OF WASHINGTON   (United States)

^e ST VINCENT S UNIVERSITY HOSPITAL   (Ireland)

Author keywords

array comparative genomic hybridization; colonic neoplasia; ulcerative colitis

Indexed keywords

GENOMIC DNA;

ADULT; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CHILD; CHROMOSOME; CLINICAL ARTICLE; COLON BIOPSY; COLON CANCER; COLON MUCOSA; COLONOSCOPY; COMPARATIVE GENOMIC HYBRIDIZATION; CONTROLLED STUDY; DNA PURIFICATION; FEMALE; FLUORESCENCE; GENOME; HUMAN; HUMAN TISSUE; MALE; PRESCHOOL CHILD; PRIORITY JOURNAL; SCHOOL CHILD; ULCERATIVE COLITIS;

EID: 78649700294     PISSN: 08933952     EISSN: 15300285     Source Type: Journal    
DOI: 10.1038/modpathol.2010.161     Document Type: Article

References (38)

1. O'Sullivan J, Bronner MP, Brentnall TA, et al. Chromosomal alteration is related to telomere shortening in a human preneoplastic disease (ulcerative colitis). Nat Genet 2002;32:280-284.
2. Bronner MP, O'Sullivan JN, Rabinovitch PS, et al. Genomic biomarkers on distant non-dysplastic biopsies distinguish UC progressors with neoplasia from dysplasia-free nonprogressors. Am J Pathol 2008;173: 1853-1860.
3. Brentnall TA, Rubin CE, Crispin DA, et al. A germline substitution in the MSH2 gene is associated with neoplasia in UC. Gastroenterology 1995;109:151-155.
4. Brentnall TA. Molecular underpinnings of cancer in UC. Curr Opin Gastroenterol 2003;19:64-68.
5. Rubin CE, Haggitt RC, Burmer GC, et al. DNA aneuploidy in colonic biopsies predicts future development of dysplasia in UC. Gastroenterology 1992;103: 1611-1620.
6. Rutter MD, Saunders BP, Schofield G, et al. Pancolonic indigo carmine dye spraying for the detection of dysplasia in UC. Gut 2004;53:256-260.
7. Kiesslich R, Neurath MF. Chromoendoscopy: an evolving standard in surveillance for UC. Inflamm Bowel Dis 2004;10:695-696.
8. Burmer GC, Rabinovitch PS, Haggitt RC, et al. Neoplastic progression in UC: histology, DNA content, and loss of a p53 allele. Gastroenterology 1992;103: 1602-1610.
9. Brentnall TA, Crispin DA, Rabinovitch PS, et al. Mutations in the p53 gene: an early marker of neoplastic progression in UC. Gastroenterology 1994;107:369-378.
10. Bronner MP, Culin C, Reed JC, et al. The bcl-2 proto-oncogene and the gastrointestinal epithelial tumor progression model. Am J Pathol 1995;146:20-26.
11. Issa JP, Ahuja N, Toyota M, et al. Accelerated age-related CpG island methylation in UC. Cancer Res 2001;61:3573-3577.
12. Agoff SN, Brentnall TA, Crispin DA, et al. The role of COX-2 in UC-associated neoplasia. Am J Pathol 2000;157:737-745.
13. Chen R, Rabinovitch PS, Crispin DA, et al. The initiation of colon cancer in a chronic inflammatory setting. Carcinogenesis 2005;26:1513-1519.
14. Chen R, Bronner MP, Crispin DA, et al. Characterization of genomic instability in UC neoplasia leads to discovery of putative tumor suppressor regions. Cancer Genet Cytogenet 2005;162:99-106.
15. Chen R, Rabinovitch PS, Crispin DA, et al. DNA fingerprinting abnormalities can distinguish UC patients with dysplasia and cancer from those who are dysplasia/cancer-free. Am J Pathol 2003;162: 665-672.
16. Solinas-Toldo S, Lampel S, Stilgenbauer S, et al. Matrix-based comparative genomic hybridization: bio-chips to screen for genomic imbalances. Genes Chromosomes Cancer 1997;20:399-407.
17. Pinkel D, Segraves R, Sudar D, et al. High resolution analysis of DNA copy number variation using com-parative genomic hybridization to microarrays. Nat Genet 1998;20:207-211.
18. Riddell RH, Goldman H, Ransohoff DF, et al. Dysplasia in inflammatory bowel disease: standardized classification with provisional clinical applications. Human Pathol 1983;14:931-968.
19. Lieb J, Liu X, Botstein D, et al. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. [erratum appears in Nat Genet 29:100; 2001]. Nat Genet 2001;28:327-334.
20. Loo LW, Grove DI, Williams EM, et al. Array comparative genomic hybridization analysis of genomic alterations in breast cancer subtypes. Cancer Res 2004;64: 8541-8549.
21. Cheung V, Nowak N, Jang W, et al. Integration of cytogenetic landmarks into the draft sequence of the human genome. Nature 2001;409:953-958.
22. Knight SJ, Lese CM, Precht KS, et al. An optimized set of human telomere clones for studying telomere integrity and architecture. Am J Hum Genet 2000;67: 320-332.
23. Kent W, Sugnet C, Furey T, et al. The human genome browser at UCSC. Genome Res 2002;12:996-1006.
24. Yang YH, Dudoit S, Luu P, et al. Normalization for cDNA microarray: a robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res 2002;30:e15.
25. Wang P, Kim Y, Pollack J, et al. A method for calling gains and losses in array CGH data. Biostatistics 2005;6:45-58.
26. Kupka S, Schröder K, Porschen R, et al. Comparative genomic hybridization analysis of chromosomal alterations in patients with long-standing UC. Int J Oncol 2001;19:489-494.
27. Willenbucher RF, Aust DE, Chang CG, et al. Genomic instability is an early event during the progression pathway of ulcerative-colitis-related neoplasia. Am J Pathol 1999;154:1825-1830.
28. Willenbucher RF, Zelman SJ, Ferrell LD, et al. Chromosomal alterations in ulcerative colitis-related neo-plastic progression. Gastroenterology 1997;113:791-801.
29. Fujii S, Tominaga K, Kitajima K, et al. Methylation of the oestrogen receptor gene in non-neoplastic epithelium as a marker of colorectal neoplasia risk in longstanding and extensive UC. Gut 2005;54: 1287-1292.
30. Serfling E, Berberich-Siebelt F, Chuvpilo S, et al. The role of NF-AT transcription factors in T cell activation and differentiation. Biochim Biophys Acta 2000; 1498:1-18.
31. Rao A, Luo C, Hogan PG. Transcription factors of the NFAT family: regulation and function. Annu Rev Immunol 1997;15:707-747.
32. Duque J, Fresno M, Iniguez MA. Expression and function of the nuclear factor of activated T cells in colon carcinoma cells: involvement in the regulation of cyclooxygenase-2. J Biol Chem 2005;280:8686-8693.
33. Soler D, Genesca A, Arnedo G, et al. Telomere dysfunction drives chromosomal instability in human mammary epithelial cells. Genes Chromosomes Cancer 2005;44:339-350.
34. Lim G, Karaskova J, Beheshti B, et al. An integrated Mband and submegabase resolution tiling set (SMRT) CGH array analysis of focal amplification, microdele-tions, and ladder structures consistent with breakage- fusion-bridge cycle events in osteosarcoma. Genes Chromosomes Cancer 2005;42:392-403.
35. Kallioniemi OP, Kallioniemi A, Piper J, et al. Optimizing comparative genomic hybridization for analysis of DNA sequence copy number changes in solid tumors. Genes Chromosomes Cancer 1994;10: 231-243.
36. Siproudhis L, Vilotte J, Bonfils S, et al. Idiopathic ulcerative proctitis. Clinical presentation and endo-scopic outcome. Gastroenterol Clin Biol 1991;15: 315-321.
37. Ghirardi M, Nascimbeni R, Mariani PP, et al. Course and natural history of idiopathic ulcerative proctitis in adults. Ann Ital Chir 2002;73:155-159.
38. Ekbom A, Helmick C, Zack M, et al. Ulcerative colitis and colorectal cancer. A population-based study. N Engl J Med 1990;323:1228-1233.