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Current Status and Future Clinical Applications of Array-based Comparative Genomic Hybridization  

Yim, Seon-Hee (Department of Preventive Medicine, College of Medicine, Catholic University of Korea)
Chung, Yeun-Jun (Department of Microbiology, College of Medicine, Catholic University of Korea)
Keywords
array-comparative genomic hybridization; chromosome aberration; BAC; cancer; congenital disease;
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1 Albertson, D.G. (2003). Profiling breast cancer by array CGH. Breast Cancer Res. Treat. 78, 289-229   DOI   PUBMED   ScienceOn
2 Albertson, D. and Pinkel, D. (2003). Genomic microarray in human genetic disease and cancer. Hum. Mol. Genet. 12,145-152   DOI   ScienceOn
3 Cai, W.W., Mao, J.H., Chow, C.W., Damani, S., Balmain, A., and Bradley, A. (2002). Genome-wide detection of chromosomal imbalances in tumors using BAC microarrays. Nat. Biotech. 20, 393-396.   DOI   ScienceOn
4 Chung, Y.J., Jonkers, J., Kitson, H., Fiegler, H., Humphray, S., Scott, C., Hunt, S., Yu, Y., Nishijima, I., Velds, A., Holstege, H., Carter, N., and Bradley, A. (2004). A whole -genome mouse BAC microarray with 1 Mb resolution for analysis of DNA copy number changes by array CGH. Genome Res. 14(1),188-196   DOI   ScienceOn
5 Dean, F.B., Hosono, S., Fang, L., Wu, X., Faruqi, A.F., BrayWard, P., Sun, Z., Zong, Q., Du, Y., Du, J., Driscoll, M, Song, W., Kingsmore, S.F., Egholm, M., and Lasken, R.S. (2002). Comprehensive human genome amplification using multiple displacement amplification. Proc. Natl. Acad. Sci. USA 99(8),5261-5266   DOI   ScienceOn
6 Gunn, S.R., Mohammed, M., Reveles, X.T., Viskochil, D.H., Palumbos, J.C., Johnson-Pais, T.L., Hale, D.E., Lancaster, J.L., Hardies, L.J., Boespflug-Tanguy, O., Cody, J.D., and Leach, R.J. (2003). Molecular characterization of a patient with central nervous system dysmyelination and cryptic unbalanced translocation between chromosomes 4q and 18q. Am. J. Med. Genet. 120, 127-135.
7 Holzmann, K., Kohlhammer, H., Schwaenen, C., Wessendorf, S., Kestler, H.A., Schwoerer, A, Rau, B., Radlwimmer, B., Dohner, H., Lichter, P., Gress, T., and Bentz, M. (2004). Genomic DNA-chip hybridization reveals a higher incidence of genomic amplifications in pancreatic cancer than conventional comparative genomic hybridization and leads to the identification of novel candidate genes. Cancer Res. 64(13), 4428-4433   DOI   ScienceOn
8 Kallioniemi, A, Kallioniemi, O.P., Sudar, D., Rutovitz, D., Gray, J.W, Waldman, F., and Pinkel, D. (1992). Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors. Science 258, 818-821   DOI   PUBMED
9 Peng, D.F., Sugihara, H., Mukaisho, K., Ling, Z.Q., and Hattori, T. (2004). Genetic lineage of poorly differentiated gastric carcinoma with a tubular component analysed by comparative genomic hybridization. J. Pathol. 203(4), 884-895   DOI   ScienceOn
10 Rauen, K.A., Albertson, D.G., Pinkel, D., and Cotter, P.D. (2002). Additional patient with del(12)(q21.2q22): further evidence for a candidate region for cardio-faciocutaneous syndrome? Am. J. Med. Genet. 110, 51-56   DOI   ScienceOn
11 Snirnov, D.A., Burdick, J.T., Morley, M., and Cheung, V.G. (2004). Method for manufacturing whole-genome microarrays by rolling circle amplification. Genes Chromosomes Cancer 40.72-77   DOI   ScienceOn
12 Veltman, J.A, Schoenmakers, E.F., Eussen, B.H, Janssen, I., Merkx, G., van Cleef, B., van Ravenswaaij, C.M., Brunner, H.G., Smeets, D., and van Kessel, A.G. (2002). High-throughput analysis of subtelomeric chromosome rearrangements by use of array-based comparative genomic hybridization. Am. J. Hum. Genet. 70, 1269-1276   DOI   ScienceOn
13 Snijders, A.M., Nowee, M.E, Fridlyand, J., Piek, J.M., Dorsman, J.C., Jain, A.N., Pinkel, D., van Diest, P.J., Verheijen, R.H., and Albertson, D.G. (2003). Genomewide- array-based comparative genomic hybridization reveals genetic homogeneity and frequent copy number increases encompassing CCNE1 in fallopian tube carcinoma. Oncogene 22, 4281-4286   DOI   ScienceOn
14 Fiegler, H., Carr, P., Douglas, E.J., Burford, D.C., Hunt, S., Scott, C.E., Smith, J., Vetrie, D., Gorman, P., Tomlinson, I.P., and Carter, N.P. (2003). DNA microarrays for comparative genomic hybridization based on DOP-PCR amplification of BAC and PAC clones. Genes Chromosomes Cancer 36, 361-374   DOI   ScienceOn
15 Hodgson, G., Hager, J.H., Volik, S., Hariono, S., Wernick, M., Moore, D., Nowak, N., Albertson, D.G., Pinkel, D., Collins, C., Hanahan, D., and Gray, J.W.(2001). Genome scanning with array CGH delineates regional alterations in mouse islet carcinomas. Nat. Genet. 29, 459-464   DOI   ScienceOn
16 Lage, J.M., Leamon, J.H., Pejovic, T., Hamann, S., Lacey, M., Dillon, D., Segraves, R., Vossbrinck, B., Gonzalez, A, Pinkel, D., Albertson, D.G., Costa, J., and Lizardi, P.M. (2003). Whole genome analysis of genetic alterations in small DNA samples using hyperbranched strand displacement amplification and array-CGH. Genome Res. 13,294-307   DOI   ScienceOn
17 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. Nat. Genet. 25,144-146   DOI   ScienceOn
18 Mathew, S. and Raimondi, S.C. (2003). FISH, CGH, and SKY in the diagnosis of childhood acute lymphoblastic leukemia. Methods Mol. BioI. 220, 213-223
19 Wilentz, R.E., Argani, P., and Hruban, R.H. (2001). Loss of heterozygosity or intragenic mutation, which comes first? Am. J. Pathol. 158(5), 1561-1563   DOI   PUBMED   ScienceOn
20 Buckley, P.G., Mantripragada, K.K., Benetkiewicz, M., Tapia-Paez, I., Diaz, D.S., Rosenquist, M, Ali, H., Jarbo, C., De Bustos, C., Hirvela, C., Sinder, W.B., Fransson, I., Thyr, C., Johnsson, B.I., Bruder, C.E., Menzel, U., Hergersberg, M., Mandahl, N., Blennow, E., Wedell, A., Beare, D.M., Collins, J.E., Dunham, I., Albertson, D., Pinkel, D., Bastian, B.C., Faruqi, A.F., Lasken, A.S., Ichimura, K., Collins, V.P., and Dumanski, J.P. (2002). A fUll-coverage, high-resolution human chromosome 22 genomic microarray for clinical and research applications. Hum. Mol. Genet. 11,3221-3229.   DOI   ScienceOn
21 Klein, C.A., Schmidt-Kittler, O., Schardt, J.A., Pantel, K., Speicher, M.R., and Riethmuller,G. (1999). Comparative genomic hybridization, loss of heterozygosity, and DNA sequence analysis of single cells. Proc. Natl. Acad. Sci. USA 96, 4494-4499   DOI   ScienceOn
22 Myers, C.L., Dunham, M.J., Kung, S.Y., and Troyanskaya, O.G. (2004). Accurate detection of aneuploidies in array CGH and gene expression microarray data. Bioinformatics Jul 29
23 Balmain, A (2002). Cancer as a complex genetic trait: tumor susceptibility in humans and mouse models. Cell 108(2),145-152   DOI   PUBMED   ScienceOn
24 Buerger, H., OUerbach, F., Simon, R., Poremba, C., Diallo, R., Decker, T., Riethdorf, L., Brinkschmidt, C., DockhornDwomiczak, B., and Boecker, W. (1999). Corrparative genomic hybridization of ductal carcinoma in situ of the breast-evidence of multiple genetic pathways. J. Pathol. 187,396-402.   DOI   ScienceOn
25 Wolf, N.G., Abdul-Karim, F.W., Farver, C., Schrock, E., du Manoir, S., and Schwartz, S. (1999). Analysis of ovarian borderline tumors using comparative genomic hybridization and fluorescence in situ hybridization. Genes Chrorrosomes Cancer 25, 307-315   DOI   ScienceOn
26 lshkanian, A.S., Mallott, C.A., Watson, S.K., DeLeeuw, R.J., Chi, B., Coe, B.P., Snijders, A., Albertson, D.G., Pinkel, D., Marra, M.A, Ling, V., MacAulay, C., and Lam, W.L. (2004). A tiling resolution DNA microarray with complete coverage of the human genome. Nat. Genet. 36(3), 299-303   DOI   ScienceOn
27 O'Hagan, R.C., Chang, S., Maser, R.S., Mohan, R., Artandi, S.E., Chin, L., and DePinho, R.A (2002). Telomere dysfunction provokes regional amplification and deletion in cancer genomes. Cancer Cell 2(2), 149-155   DOI   ScienceOn
28 Redon, R., Hussenet, T., Bour, G., Caulee, K., Jost, B., Muller, D., Abecassis, J., and du Manoir, S. (2002). Amplicon mapping and transcriptional analysis pinpoint cyclin L as a candidate oncogene in head and neck cancer. Cancer Res. 62, 6211-6217   PUBMED
29 Shaw-Smith, C., Redon, R., Rickman, L., Rio, M., Willatt, L., Fiegler, H., Firth H., Sanlaville, D., Winter, R., Colleaux, L., Bobrow, M., and Carter, N.P. (2004). Microarray based comparative genomic hybridisation (array-CGH) detects submicroscopic chromosomal deletions and duplications in patients with learning disability/mental retardation and dysmorphic features. J. Med. Genet. 41, 241-248   DOI   ScienceOn
30 Jong, K., Marchiori, E., Meijer, G., Van Der Vaart, A., and Ylstra, B. (2004). Breakpoint identification and smoothing of array corrparative genomc hybridization data Bioinformatics 2004 Jun 16
31 Snijders, A.M., Nowak, N., Segraves, R., Blackwood, S., Brown, N., Conroy, J., Hamilton, G., Hindle, A.K., Huey, B., Kimura, K., Law, S., Myambo, K., Palmer, J., Ylstra, B., Yue, J.P., Gray, J,W., Jain, A.N., Pinkel, D., and Albertson, D.G. (2001). Assembly of microarrays for genome-wide measurement of DNA copy number. Nat. Genet. 29, 263-264   DOI   ScienceOn
32 De Leeuw, R.J., Davies, J.J., Rosenwald, A., Bebb, G., Gascoyne, R.D., Dyer, M.J., Staudt, L.M, MartinezCliment, J.A., and Lam, W.L. (2004). Comprehensive whole genome array CGH profiling of mantle cell lymphoma model genomes. Hum. Mol. Genet. 13(17), 1827-1837   DOI   ScienceOn
33 Pinkel, D., Segraves, 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. Nat. Genet. 20, 207-211   DOI   ScienceOn
34 Knight, S.J., Lese, C.M., Precht, K.S., Kuc, J., Ning, Y., Lucas, S., Regan, R., Brenan, M., Nicod, A, Lawrie, N.M., Cardy, D.L., Nguyen, H., Hudson, T.J., Riethman, H.C., Ledbetter, D.H., and Flint, J. (2000). An optimized set of human telomere clones for studying telomere integrity and architecture. Am. J. Hum. Genet. 67, 320-332   DOI   ScienceOn
35 Ried, T., Heselmeyer-Haddad, K., Blegen, H, Schrock, E., and Auer, G. (1999). Genomic changes defining the genesis, progression, and malignancy potential in solid human tumors: a phenotype/genotype correlation. Genes Chromosomes Cancer 25, 195-204   DOI   ScienceOn
36 Balsara, B.R. and Testa, J.R. (2002). Chromosomal imbalances in human lung cancer. Oncogene 21, 6877-6883   DOI   ScienceOn
37 Schaeffer, A.J., Chung, J., Heretis, K., Wong, A, Ledbetter, D.H., and Lese Martin, C. (2004). Comparative genomic hybridization-array analysis enhances the detection of aneuploidies and submicroscopic irrbalances in spontaneous miscarriages. Am. J. Hum. Genet. 74,1168-1174   DOI   ScienceOn
38 Wang, N.J., Liu, D., Parokonny, A.S., and Schanen, N.C. (2004). High-resolution molecular characterization of 15q11-q13 rearrangements by array comparative genomic hybridization (array CGH) with detection of gene dosage. Am. J. Hum. Genet. 75, 267-281   DOI   ScienceOn
39 Hanahan, D. and Weinberg, R.A. (2000). The hallmarks of cancer. Cell 100, 57-70   DOI   ScienceOn
40 Nessling, M., Solinas-Toldo, S., Wilgenbus, K.K., Borchard, F., and Lichter, P. (1998). Mapping of chromosomal imbalances in gastric adenocarcinorra revealed amplified protoonoogenes MYCN, MET, WNT2, and ERBB2. Genes Chromosomes Cancer23(4), 307-316   DOI   ScienceOn
41 Pollack, J.R., Perou, C.M., Alizadeh, A.A., Eisen, M.B., Pergamenschikov, A, Williams, C.F., Jeffrey, S.S., Botstein, D., and Brown, P.O. (1999). Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nat. Genet. 23(1), 41-46   DOI   ScienceOn
42 Herranz, M., Santos, J., Salido, E., Fernandez-Piqueras, J., and Serrano, M. (1999). Mouse p73 gene maps to the distal part of chromosome 4 and might be involved in the progression of gamma-radiation-induced T-cell lymphomas. Cancer Res. 59(9), 2068-2071   PUBMED
43 Paris, P.L., Albertson, D.G., Alers, J.C., Andaya, A, Carroll, P., Fridlyand, J., Jain, A.N., Kamkar, S., Kowbel, D., Krijtenburg, P.J., Pinkel, D., Schroder, F.H., Vissers, K.J., Watson, V.J., Wildhagen, M.F., Collins, C., and Van Dekken, H. (2003). High-resolution analysis of paraffinembedded and formalin-fixed prostate tumors using comparative genomic hybridization to genomic microarrays. Am. J. Pathol. 162, 763-770   DOI   PUBMED   ScienceOn
44 Wang, J., Meza-Zepeda, L.A, Kresse, S.H., and Myklebost, O. (2004). M-CGH: analysing microarray-based CGH experiments. BMC Bioinformatics 5(1),74-77   DOI   ScienceOn
45 Lucito, R., West, J., Reiner, A, Alexander, J., Esposito, D., Mishra, B., Powers, S., Norton, L., and Wigler, M. (2000). Detecting gene copy number fluctuations in tumor cells by microarray analysis of genomic representations. Genome Res. 10, 1726-1736   DOI   ScienceOn
46 Ried, T., Just, K.E., Holtgreve-Grez, H., du Manoir, S., Speicher, M.R., Schrock, E., Latham, C., Blegen, H, Zetterberg, A, and Cremer, T. (1995). Comparative genomic hybridization of formalin-fixed, paraffin-embedded breast tumors reveals different patterns of chromosomal gains and losses in fibroadenomas and diploid and aneuploid carcinomas. Cancer Res. 55, 5415-5423   PUBMED
47 Knuutila, S., Aalto, Y., Autio, K., Bjorkqvist, A.M., EI-Rifai, W, Hemmer, S., Huhta, T., Kettunen, E., Kiuru-Kuhlefelt, S., Larramendy, M.L., Lushnikova, T., Monni, O., Pere, H., Tapper, J., Tarkkanen, M., Varis, A, Wasenius, V.M., Wolf, M., and Zhu, Y. (1999). DNA copy number losses in human neoplasms. Am. J. Pathol. 155, 683-694   DOI   PUBMED   ScienceOn
48 Wakabayashi, Y., Watanabe, H., Inoue, J., Takeda, N., Sakata, J., Mishima, Y., Hitomi, J., Yamamoto, T., Utsuyama, M., Niwa, O., Aizawa, S., and Kominami, R. (2003). Bcl11 b is required for differentiation and survival of alphabeta T lymphocytes. Nat. Immunol. 4, 533-539   DOI   ScienceOn
49 Hughes, K.A, Hurlstone, A.F., Tobias, E.S., McFarlane, R., and Black, D.M. (2001). Absence of ST7 mutations in tumor-derived cell lines and tumors. Nat. Genet. 29(4), 380-381   DOI   ScienceOn
50 Man, TK., Lu, X.Y., Jaeweon, K., Perlaky, L., Harris, C.P., Shah, S., Ladanyi M., Gorlick, R., Lau, C.C., and Rao, P.H. (2004). Genome-wide array comparative genomic hybridization analysis reveals distinct amplifications in osteosarcoma. BMC Cancer4(1), 45-55   DOI   ScienceOn
51 Harada, N., Hatchwell, E., Okamoto, N., Tsukahara, M., Kurosawa, K., Kawame, H., Kondoh, T., Ohashi, H., Tsukino, R., Kondoh, Y., Shimokawa, O., Ida, T., Nagai, T., Fukushima, Y., Yoshiura, K., Niikawa, N., and Matsumoto, N. (2004). Subtelomere specific microarray based comparative genomic hybridisation: a rapid detection system for cryptic rearrangements in idiopathic mental retardation. J. Med. Genet. 41 (2), 130-136   DOI   ScienceOn
52 Hackett, C.S., Hodgson, J.G., Law, M.E., Fridlyand, J., Osoegawa, K., de Jong, P.J., Nowak, N.J., Pinkel, D., Albertson, D.G., Jain, A, Jenkins, R., Gray, J,W., and Weiss, W.A. (2003). Genome-wide array CGH analysis of murine neuroblastoma reveals distinct genomic aberrations which parallel those in human tumors. Cancer Res. 63(17), 5266-5273   PUBMED