Microarrays for quantitative analysis of sequence copy numbers

Clinical and Applied Immunology Reviews - Tập 1 - Trang 255-265 - 2001
Uwe R. Müller1
1Vysis Inc., 3100 Woodcreek Dr., Downers Grove, IL 60515, USA

Tài liệu tham khảo

Abramowitz, 1996, Towards inexpensive DNA diagnostics, TIBTECH, 14, 397, 10.1016/0167-7799(96)10051-2 Burke, 1997, Microfabrication technologies for integrated nucleic acid analysis, Genome Res, 7, 189, 10.1101/gr.7.3.189 Cheng, 1998, Preparation and hybridization analysis of DNA/RNA from E-coli on microfabricated bioelectronic chips, Nature Biotechnol, 16, 541, 10.1038/nbt0698-541 Drmanac, 1989, Sequencing of megabase plus DNA by hybridization, Genomics, 4, 114, 10.1016/0888-7543(89)90290-5 Khrapko, 1989, An oligonucleotide hybridization approach to DNA sequencing, FEBS Letters, 256, 118, 10.1016/0014-5793(89)81730-2 Landers, 1999, Array of hope, Nat Genet, 21, 3, 10.1038/4427 Schena, 1998, Microarrays, Trends Biotechnol, 16, 301, 10.1016/S0167-7799(98)01219-0 Caetano-Anolles, 1996, Scanning of nucleic acids by in vitro amplification, Nature Biotechnol, 14, 1668, 10.1038/nbt1296-1668 Cheung, 1998, Linkage-disequilibrium mapping without genotyping, Nat Genet, 18, 225, 10.1038/ng0398-225 Salazar, 1996, Nucleic acid scanning-by-hybridization of enterohemorrhagic Escherichia coli isolates using oligonucleotide arrays, Nucleic Acids Res, 24, 5056, 10.1093/nar/24.24.5056 Syvanen, 1999, From gels to chips, Human Mutation, 13, 1, 10.1002/(SICI)1098-1004(1999)13:1<1::AID-HUMU1>3.0.CO;2-I Chee, 1996, Accessing genetic information with high-density DNA arrays, Science, 274, 610, 10.1126/science.274.5287.610 Southern, 1996, DNA chips, Trends Genet, 12, 110, 10.1016/0168-9525(96)81422-3 Yershov, 1996, DNA analysis and diagnostics on oligonucleotide microchips, Proc Natl Acad Sci USA, 93, 4913, 10.1073/pnas.93.10.4913 Gingeras, 1998, Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays, Genome Res, 8, 435, 10.1101/gr.8.5.435 McKenzie, 1998, Parallel molecular genetic analysis, Eur J Hum Genet, 6, 417, 10.1038/sj.ejhg.5200218 Sapolsky, 1996, Mapping genomic library clones using oligonucleotide arrays, Genomics, 33, 445, 10.1006/geno.1996.0219 Southern, 1995, DNA fingerprinting by hybridisation to oligonucleotide arrays, Electrophoresis, 16, 1539, 10.1002/elps.11501601256 Kern, 1997, Direct hybridization of large-insert genomic clones on high-density gridded cDNA filter arrays, BioTechniques, 23, 120, 10.2144/97231st02 Lockhart, 1996, Expression monitoring by hybridization to high-density oligonucleotide arrays, Nature Biotechnol, 14, 1675, 10.1038/nbt1296-1675 Shi, 1999, Measurements of relative expression levels on microarrays using gene copy numbers as internal reference, Am J Human Genetics, 65, A419 Müller U, Bao P, Che D, Li R, Shi J, Lermer N, Ruffalo T. Microarrays and DNA-Chips in the analysis of genetic aberrations. Springer laboratory manual on FISH technology. In press. Pinkel, 1998, High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays, Nat Genet, 20, 207, 10.1038/2524 Solinas-Toldo, 1997, Matrix-based comparative genomic hybridization, Genes Chromosomes Cancer, 20, 399, 10.1002/(SICI)1098-2264(199712)20:4<399::AID-GCC12>3.0.CO;2-I Lashkari, 1997, Yeast microarrays for genome wide parallel genetic and gene expression analysis, Proc Natl Acad Sci USA, 94, 13057, 10.1073/pnas.94.24.13057 Baldocchi RA, Glynne RJ, Kowbel D, Tom E, Collins C, Mack DH, Gray JW. Oligonucleotide-array-based comparative genomic hybridization. Nature Genetics Microarray Meeting 1999. p. 32. Geschwind, 1998, Klinefelter's syndrome as a model of anomalous cerebral laterality, Dev Genet, 23, 215, 10.1002/(SICI)1520-6408(1998)23:3<215::AID-DVG7>3.0.CO;2-X Geschwind, 1997, An approach for testing gene dosage as a mechanism for cognitive dysfunction in Klinefelter's syndrome, Amer J Human Genet, 61, A714 Kallioniemie, 1992, Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors, Science, 258, 818, 10.1126/science.1359641 Schena, 1995, Quantitative monitoring of gene expression patterns with a complementary DNA microarray, Science, 270, 467, 10.1126/science.270.5235.467 Shalon, 1996, A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization, Genome Res, 6, 639, 10.1101/gr.6.7.639 Piper, 1995, Computer image analysis of comparative genomic hybridization, Cytometry, 19, 10, 10.1002/cyto.990190104 Moore, 1997, A t-statistic for objective interpretation of comparative genomic hybridization (CGH) profiles, Cytometry, 28, 183, 10.1002/(SICI)1097-0320(19970701)28:3<183::AID-CYTO1>3.0.CO;2-F Karhu, 1997, Quality control of CGH, Cytometry, 28, 198, 10.1002/(SICI)1097-0320(19970701)28:3<198::AID-CYTO3>3.0.CO;2-A Müller, 1995, Genosensor based comparative genomic hybridization (gCGH), Amer J Human Genet, 57, A268 Kraus, 1997, High-resolution comparative hybridization to combed DNA fibers, Human Genet, 99, 374, 10.1007/s004390050375 Pinkel D, Albertson D, Zhai Y, Segraves R, Sudar D, Ligtenberg K, Gray J. Comparative genomic hybridization to arrays of DNA clones. Abstracts, DOE Genome Meeting, 1996. Che, 1999, A novel surface, attachment chemistry, and CCD-based multicolor imaging system for analysis of genomic DNA arrays, Scanning, 21, 63 Müller UR, Bao YP, Che D, Lermer N, Li WR, Shi J, Ruffalo T, Prokhorova A, Lane D, Selig S. Quantitation of sequence copy number changes in genomic DNA through genosensor based comparative genomic hybridization (gCGH). Abstracts of the Nature Genetics Microarray meeting 1999. p. 64. Bao, 1999, Microarray based detection of single copy sequence changes in genomic DNA, Amer J Human Genet, 65, A157 Forozan, 1999, cDNA and CGH microarray screening for DNA amplifications in breast cancer, Proceedings of the American Association for Cancer Research, 40, 319 Heiskanen, 1998, High-resolution CGH array analysis reveals unexpected gene amplifications in breast cancer, Amer J Human Genet, 63, A72 Hodgson G, Hager J, Collins C, Albertson D, Pinkel D, Hanahan D, Gray JW. High-resolution assessment of DNA loss in RIP-tag mouse pancreatic carcinomas using comparative genomic hybridization to microarrays. Abstracts of the Nature Genetics Microarray meeting 1999. p. 51. Kanonen, 1999, Biochip technologies for rapid analysis of gene amplifications in cancer, Proceedings of the American Association for Cancer Research, 319, 26 Kononen, 1998, Tissue microarrays for high-throughput molecular profiling of tumor specimens, Nat Med, 4, 844, 10.1038/nm0798-844 Lampel, 1999, Towards a disease-specific matrix-CGH chip for the analyses of genetic imbalances in B-cell chronic lymphocytic leukemia, Cytogenet Cell Genet, 1, 31 Lese, 1999, Comparative genomic hybridization arrays, Amer J Human Genet, 65, A9 Flint J, Wilkie AO, Buckle VJ, Winter RM, Holland AJ, McDermid HE. The detection of subtelomeric chromosomal rearrangements in idiopathic mental retardation. Nat Genet 1995;132–40. Duggan, 1999, Expression profiling using cDNA microarrays, Nat Genet, 21, 10, 10.1038/4434 Chen, 1998, Profiling expression patterns and isolating differentially expressed genes by cDNA microarray system with colorimetric detection, Genomics, 51, 313, 10.1006/geno.1998.5354 Edman, 1997, Electric field directed nucleic acid hybridization on microchips, Nucleic Acids Res, 25, 4907, 10.1093/nar/25.24.4907 Heiskanen, 1999, Direct identification of amplified genes in human cancers by genomic hybridization to cDNA microarrays, Proceedings of the American Association for Cancer Research, 40, 93 Pollack, 1999, Genome-wide analysis of DNA copy-number changes using cDNA microarrays, Nat Genet, 23, 41, 10.1038/14385 Botstein, 1999, Studying cancer on a genomic scale using DNA microarrays, Proceedings of the American Association for Cancer Research, 40, 751 Kudoh, 1999, Analysis of drug resistance by cDNA microarray, Proceedings of the American Association for Cancer Research, 40, 195 Scherf, 1999, Development of cDNA microarray expression profiles for anticancer drug discovery, Proceedings of the American Association for Cancer Research, 40, 321 Schütze, 1999, Laser microbeam microdissection and laser pressure catapulting, Proceedings of the American Association for Cancer Research, 40, 541 Dagan, 1999, Detailed chromosomal and molecular genetic analysis of single cells by whole genome amplification and comparative genomic hybridization, Nucleic Acids Res, 27, 1214, 10.1093/nar/27.4.1214