High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays

Nature Genetics

Volumn 20, Issue 2, 1998, Pages 207-211

  Pinkel, Daniel ^a,b   Segraves, Richard ^a   Sudar, Damir ^b   Clark, Steven ^a   Poole, Ian ^c   Kowbel, David ^b   Collins, Colin ^b   Kuo, Wen Lin ^a   Chen, Chira ^a   Zhai, Ye ^a   Dairkee, Shanaz H ^d   Ljung, Britt Marie ^e   Gray, Joe W ^a,b   Albertson, Donna G ^a,b,f  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^c ABBOTT LABORATORIES   (United States)

^d CALIFORNIA PACIFIC MEDICAL CENTER   (United States)

^e UNIVERSITY OF CALIFORNIA   (United States)

^f MRC LABORATORY OF MOLECULAR BIOLOGY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BREAST CANCER; CHROMOSOME 20; CHROMOSOME ABERRATION; DIAGNOSTIC ACCURACY; DNA DETERMINATION; GENE DOSAGE; GENE LOCUS; GENE MAPPING; HUMAN; HYBRIDIZATION; METAPHASE; PHENOTYPE; PRIORITY JOURNAL;

ANIMALS; BREAST NEOPLASMS; CHROMOSOME ABERRATIONS; DNA; FEMALE; GENE DOSAGE; GENETIC MARKERS; HUMANS; IN SITU HYBRIDIZATION, FLUORESCENCE; MICE; MICROCHEMISTRY; NUCLEIC ACID HYBRIDIZATION; TUMOR CELLS, CULTURED; X CHROMOSOME;

EID: 17344371740     PISSN: 10614036     EISSN: None     Source Type: Journal    
DOI: 10.1038/2524     Document Type: Article

References (31)

1. Kallioniemi, A. et al. Comparative genomic hybridization for cytogenetic analysis of solid tumors. Science 258, 818-821 (1992).
2. Tanner, M.M. et al. Increased copy number at 20q13 in breast cancer: defining the critical region and exclusion of candidate genes. Cancer Res. 54, 4257-4260 (1994).
3. Tanner, M.M. et al. Independent amplification and frequent co-amplification of three nonsyntenic regions on the long arm of chromosome 20 in human breast cancer. Cancer Res. 56, 3441-3445 (1996).
4. Bärlund, M. et al. Increased copy number at 17q22-q24 by CGH in breast cancer is due to high-level amplification of two separate regions. Genes Chromosomes Cancer 20, 372-376 (1997).
5. Ning, Y. et al. A complete set of human telomeric probes and their clinical application. Nature Genet. 14, 86-89 (1996).
6. Solinas-Toldo, S. et al. Matrix-based comparative genomic hybridization: biochips to screen for genomic imbalances. Genes Chromosomes Cancer 20, 399-407 (1997).
7. Schena, M., Shalon, D., Davis, R.W. & Brown, P.O. Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270, 467-470 (1995).
8. Lockhart, D.J. et al. Expression monitoring by hybridization to high density oligonucleotide arrays. Nature Biotechnol. 14, 1675-1680 (1996).
9. Collins, C. et al. Positional cloning of ZNF217 and NABC1: Genes amplified at 20q13.2 and overexpressed in breast carcinoma. Proc. Natl Acad. Sci. USA 95, 8703-8708 (1998).
10. Mohapatra, G. et al. Analysis of brain tumor cell lines confers a simple model of relationships among fluorescence in situ hybridization, DNA index, and comparative genomic hybridization. Genes Chromosomes Cancer 20, 311-319 (1997).
11. Bench, A.J. et al. A detailed physical and transcriptional map of the region of chromosome 20 that is deleted in myeloproliferative disorders and refinement of the common deleted region. Genomics 49, 351-362 (1998).
12. Wang, P.W. et al. Refinement of the commonly deleted segment in myeloid leukemia with a del(20q). Genes Chromosomes Cancer 21, 75-81 (1998).
13. Anzick, S.L. et al. AIB1, a steroid receptor coactivator amplified in breast and ovarian cancer. Science 277, 965-968 (1997).
14. Brinkmann, U., Gallo, M., Polymeropoulos, M.H. & Pastan, I. The human CAS (cellular apoptosis susceptibility) gene mapping on chromosome 20q13 is amplified in BT474 breast cancer cells and part of aberrant chromosomes in breast and colon cancer cell lines. Genome Res. 6, 187-194 (1996).
15. Williamson, J.A. et al. Chromosomal mapping of the human and mouse homologues of two new members of the AP-2 family of transcription factors. Genomics 35, 262-264 (1996).
16. Sen, S., Zhou, H. & White, R.A. A putative serine/threonine kinase encoding gene BTAK on chromosome 20q13 is amplified and overexpressed in human breast cancer cell lines. Oncogens 14, 2195-2200 (1997).
17. Tanner, M. et al. Amplification of chromosomal region 20q13 in invasive breast cancer: prognostic implications. Clin. Cancer Res. 1, 1455-1461 (1995).
18. Courjal, F. et al. DNA amplifications at 20q13 and MDM2 define distinct subsets of evolved breast and ovarian tumours. Br. J. Cancer 74, 1984-1989 (1996).
19. Reznikoff, C.A. et al. Long-term genome stability and minimal genotypic and phenotypic alterations in HPV16 E7-, but not E6-, immortalized human uroepithelial cells. Genes Dev. 8, 2227-2240 (1994).
20. Savelieva, E. et al. 20q gain associates with immortalization: 20q13.2 amplification correlates with genome instability in human papillomavirus 16 E7 transformed human uroepithelial cells. Oncogene 14, 551-560 (1997).
21. Salinas-Toldo, S., Durst, M. & Lichter, P. Specific chromosomal imbalances in human papillomavirus-transfected cells during progression toward immortality. Proc. Natl Acad. Sci. USA 94, 3854-3859 (1997).
22. Bièche, I. et al. Two distinct regions at 17q11-q12 involved in human primary breast cancer. Cancer Res. 56, 3886-3890 (1996).
23. Karlseder, J. et al. Patterns of DNA amplification at band q13 of chromosome 11 in human breast cancer. Genes Chromosomes Cancer 9, 42-48 (1994).
24. Reifenberger, G. et al. Refined mapping of 12q13-15 amplicons in human malignant gliomas suggests CDK/SAS and MDM2 as independent amplification targets. Cancer Res. 56, 5141-5145 (1996).
25. Albertson, D.G., Fishpool, R.M. & Birchall, P.S. Fluorescent in situ hybridization for the detection of DNA and RNA. in C. elegans: Modern Biological Analysis of an Organism (eds Epstein, H.F. & Shakes D.C.) 339-364 (Academic Press. New York, 1995).
26. Johnson, G. et al. A simple method of reducing the fading of immunofluorescence during microscopy. J. Immunol. Methods 43, 349-350 (1981).
27. Wittrup, K.D., Westerman, R.J. & Desai, R. Fluorescence array detector for large-field quantitative fluorescence cytometry. Cytometry 16, 206-213 (1994).
28. Press, W.H., Teukolsky, S.A., Vetterling, W.T. & Flannery, B.P. Numerical Recipes in C: the Art of Scientific Computing 2nd edition 636-639 (Cambridge University Press, Cambridge, 1994).
29. Shepherd, N.S. et al. Preparation and screening of an arrayed human genomic library generated with the P1 cloning system. Proc. Natl Acad. Sci. USA 91, 2629-2633 (1994).
30. Kim, U.J. et al. A bacterial artificial chromosome-based framework contig map of human chromosome 22q. Proc. Natl Acad. Sci. USA 93, 6297-6301 (1996).
31. Stokke, T. et al. A physical map of chromosome 20 established using fluorescence in situ hybridization and digital image analysis. Genomics 26, 134-137 (1995).