Abstract
Fluorescence in situ hybridization (FISH) is a precise technique to determine copy numbers of a particular sequence in individual cells with a resolution better than 30 Kb, but requires a priori knowledge of the target sequence to be analyzed. Comparative genomic hybridization (CGH) on the other hand allows a global analysis of the whole genome, but at significant loss in resolution (on the order of 10–15 Mb). DNA chip technology (so called genosensor-based or matrix-based CGH) combines the high resolution of FISH with the inherent multiplex capability of CGH, and adds simplicity to the analysis. This technology represents the latest addition to chip based genetic analyses.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
Albertson, D. G., Ylstra, B., Segraves, R., Collins, C, Dairkee, S. H., Kowbel, D., Kuo, W.L., Gray, J. W., and Pinkel, D. (2000) Quantitative mapping of amplicon structure by array CGH identifies CYP24 as a candidate oncogene. Nature Genetics 25, 144–146
Bao, P., Che, D., Lermer, N., Shi, J., Prokhorova, A., Müller, U. (1999) Microarray based detection of single copy sequence changes in genomic DNA. American Journal of Human Genetics. 65, A157
Beltinger, C. P., Klimek, F., and Debatin, K. M.(I997) Whole genome amplification of single cells from clinical peripheral blood smears. Mol. Pathol. 50, 272–275
Bolzan, A. D., Paez, G. L., Bianchi, M. S., and Bianchi, N. O. (2000) Analysis of telomeric repeats and telomerase activity in human colon carcinoma cells with gene amplification. Cancer Genet. Cytogenet. 15, 166–170
Che, D., Bao, Y. and Müller, U.R. (2001) A novel surface and multicolor charge coupled device-based fluorescent imaging system for DNA microarrays. J. Biomedical Optics 6, in press
Chee, M., Yang, R., Hubbell, E., Berno, A., Huang, X. C, Stern, D., Winkler, J., Lockhart, D. J., Morris, M. S., and Fodor, S. P. A. (1996) Accessing genetic information with high-density DNA arrays. Science 274, 610–614
Drmanac, R., Labat, I., Brukner, I., and Crkvenjakov, R. (1989) Sequencing of megabase plus DNA by hybridization: Theory of the Method. Genomics 4, 114–128
Drmanac, S., Kita, D., Labat, I., Hauser, B., Schmidt, C, Burczak, J. D., and Drmanac, R. (1998) Accurate sequencing by hybridization for DNA diagnostics and individual genomics. Nat. Biotechnol. 16, 54–58
Hughes, T.R., Mao, M. Jones A.R. et al. (2001) Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Nature Biotechnol. 19, 342–347
Lese, CM., Zhang ,X., Pinkel, D., Bao, P., Lermer, N., Che, D., Shi, J., Müller, U., Led-better, D.H. (1999) Comparative genomic hybridization arrays: Towards a “telomere chip”. American Journal of Human Genetics. 65, A9
Monni, O., Bärlund, M., Mousses, S., Kononen, J., Sauter, G., Heiskanen, M., Paavola, P., Avela, K., Chen, Y., Bittner, M. L., Kallioniemi, A. (2001) Comprehensive copy number and gene expression profiling of the l7q23 amplicon in human breast cancer. PNAS 98, 5711–5716
Müller, U.R. (2001) Microarrays for quantitative analysis of sequence copy numbers. Clin. Applied Immunol. Rev. 1, 255–265
Noordewier, MO and Warren PV. (2001) Gene expression microarrays and the integration of biological knowledge. Trends Biotechnol. 19, 412–415
Pinkel, D., Seagraves, R., Sudar, D., Clark, S., Poole, I., Kowbel, D., Collins, C, Kuo, W. L., Chen, C, Zhai, Y., Dairkee, S. H., Ljung, B. M., Gray, J. W., and Albertson, D. G. (1998) High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays. Nature Genet. 20, 207–211
Pollack, J. R., Perou, C. M., Alizadeh, A. A., Eisen, M. B., Pergamenschikov, A., Williams, C. F., Jeffrey, S. S., Bostein, D., Brown, P. O. (1999) Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nature Genetics. 23, 41–46
Rew, DA. (2001) DNA microarray technology in cancer research. Eur. J. Surg. Oncol. 27, 504–508
Schena, M. (1996) Genome analysis with gene expression microarrays. BioEssays 18, 427–431
Shalon, D., Smith, S. J., and Brown, P. O. (1996) A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization. Genome Res. 6, 639–645
Solinas-Toldo, S., Lampel, S., Stilgenbauer, S., Nickolenko, J., Benner, A., Döhner, H., Cremer, T., and Lichter, P. (1997) Matrix-Based Comparative Genomic Hybridization: Biochips to Screen for Genomic Imbalances. Genes Chromosomes Cancer 20, 399–407
Southern, E. M. (1996) DNA chips: Analysing sequence by hybridization to oligo-nucleotides on a large scale. Trends Genet. 12, 110–115
Wells, D., Sherlock, J. K., Handyside, A. H and Delhanty, J. D. A. (1999) Detailed chromosomal and molecular genetic analysis of single cells by whole genome amplification and comparative genomic hybridisation. Nucleic Acids Res. 27, 1214–1218
Yershov, G., Barsky, V., Belgovskiy, A., Kirillov, E., Kreindlin, E., Ivanov, I., Parinov, S., Guschin, D., Drobishev, A., Dubiley, S., and Mirzabekov, A. (1996) DNA analysis and diagnostics on oligonucleotide microchips. Proc. Natl. Acad. Sci. USA 93, 4913–4918
Zhu, H., Cong, J. P., Mamtora, G., Gingeras, T., and Shenk, T. (1998) Cellular gene expression altered by human cytomegalovirus: Global monitoring with oligonucleotide arrays. Proc. Natl. Acad. Sci. USA 95, 14470–14475
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2002 Springer-Verlag Berlin Heidelberg
About this chapter
Cite this chapter
Müller, U.R., Bao, Y.P., Li, G., Xie, X., Raghavachari, N. (2002). Microarrays and DNA-Chips in the Analysis of Genetic Aberrations. In: Rautenstrauss, B.W., Liehr, T. (eds) FISH Technology. Springer Lab Manuals. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-56404-8_36
Download citation
DOI: https://doi.org/10.1007/978-3-642-56404-8_36
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-642-47739-3
Online ISBN: 978-3-642-56404-8
eBook Packages: Springer Book Archive