The affymetrix GeneChip® platform:: An overview

被引:109
作者
Dalma-Weiszhausz, Dennise D. [1 ]
Warrington, Janet [1 ]
Tanimoto, Eugene Y. [1 ]
Miyada, Garrett [1 ]
机构
[1] AFFY METRIX INC, Express Prod Dev, Santa Clara, CA USA
来源
DNA MICROARRAYS PART A: ARRAY PLATFORMS AND WET-BENCH PROTOCOLS | 2006年 / 410卷
关键词
D O I
10.1016/S0076-6879(06)10001-4
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
The intent of this chapter is to provide the reader with a review of GeneChip technology and the complete system it represents, including its versatility, components, and the exciting applications that are enabled by this platform. The following aspects of the technology are reviewed: array design and manufacturing, target preparation, instrumentation, data analysis, and both current and future applications. There are key differentiators between Affymetrix' GeneChip technology and other microarray-based methods. The most distinguishing feature of GeneChip microarrays is that their manufacture is directed by photochemical synthesis. Because of this manufacturing technology, more than a million different probes can be synthesized on an array roughly the size of a thumbnail. These numbers allow the inclusion of multiple probes to interrogate the same target sequence, providing statistical rigor to data interpretation. Over the years the GeneChip platform has proven to be a reliable and robust system, enabling many new discoveries and breakthroughs to be made by the scientific community.
引用
收藏
页码:3 / 28
页数:26
相关论文
共 45 条
[31]   Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays [J].
Matsuzaki, H ;
Dong, SL ;
Loi, H ;
Di, XJ ;
Liu, GY ;
Hubbell, E ;
Law, J ;
Berntsen, T ;
Chadha, M ;
Hui, H ;
Yang, GR ;
Kennedy, GC ;
Webster, TA ;
Cawley, S ;
Walsh, PS ;
Jones, KW ;
Fodor, SPA ;
Mei, R .
NATURE METHODS, 2004, 1 (02) :109-111
[32]  
McGall Glenn H, 2002, Adv Biochem Eng Biotechnol, V77, P21
[33]   Probe selection for high-density oligonucleotide arrays [J].
Mei, R ;
Hubbell, E ;
Bekiranov, S ;
Mittmann, M ;
Christians, FC ;
Shen, MM ;
Lu, G ;
Fang, J ;
Liu, WM ;
Ryder, T ;
Kaplan, P ;
Kulp, D ;
Webster, TA .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (20) :11237-11242
[34]   Genomewide linkage analysis of bipolar disorder by use of a high-density single-nucleotide-polymorphism (SNP) genotyping assay: A comparison with microsatellite marker assays and finding of significant linkage to chromosome 6q22 [J].
Middleton, FA ;
Pato, MT ;
Gentile, KL ;
Morley, CP ;
Zhao, X ;
Eisener, AF ;
Brown, A ;
Petryshen, TL ;
Kirby, AN ;
Medeiros, H ;
Carvalho, C ;
Macedo, A ;
Dourado, A ;
Coelho, I ;
Valente, J ;
Soares, MJ ;
Ferreira, CP ;
Lei, M ;
Azevedo, MH ;
Kennedy, JL ;
Daly, MJ ;
Sklar, P ;
Pato, CN .
AMERICAN JOURNAL OF HUMAN GENETICS, 2004, 74 (05) :886-897
[35]  
Moore G. E., 1965, ELECTRONICS, V38, P114, DOI [DOI 10.1109/N-SSC.2006.4785860, 10.1109/N-SSC.2006.4785860]
[36]   Loss of heterozygosity and transcriptome analyses of a 1.2 Mb candidate ovarian cancer tumor suppressor locus region at 17q25.1-q25.2 [J].
Presneau, N ;
Dewar, K ;
Forgetta, V ;
Provencher, D ;
Mes-Masson, AM ;
Tonin, PN .
MOLECULAR CARCINOGENESIS, 2005, 43 (03) :141-154
[37]   Mapping of sudden infant death with dysgenesis of the testes syndrome (SIDDT) by a SNP genome scan and identification of TSPYL loss of function [J].
Puffenberger, EG ;
Hu-Lince, D ;
Parod, JM ;
Craig, DW ;
Dobrin, SE ;
Conway, AR ;
Donarum, EA ;
Strauss, KA ;
Dunckley, T ;
Cardenas, JF ;
Melmed, KR ;
Wright, CA ;
Liang, W ;
Stafford, P ;
Flynn, CR ;
Morton, DH ;
Stephan, DA .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (32) :11689-11694
[38]   Genome-wide germline-enriched and sex-biased expression profiles in Caenorhabditis elegans [J].
Reinke, V ;
Gil, IS ;
Ward, S ;
Kazmer, K .
DEVELOPMENT, 2004, 131 (02) :311-323
[39]   A comprehensive transcript index of the human genome generated using microarrays and computational approaches [J].
Schadt, EE ;
Edwards, SW ;
GuhaThakurta, D ;
Holder, D ;
Ying, L ;
Svetnik, V ;
Leonardson, A ;
Hart, KW ;
Russell, A ;
Li, GY ;
Cavet, G ;
Castle, J ;
McDonagh, P ;
Kan, ZY ;
Chen, RH ;
Kasarskis, A ;
Margarint, M ;
Caceres, RM ;
Johnson, JM ;
Armour, CD ;
Garrett-Engele, PW ;
Tsinoremas, NF ;
Shoemaker, DD .
GENOME BIOLOGY, 2004, 5 (10)
[40]   A novel gene for neonatal diabetes maps to chromosome 10p12.1-p13 [J].
Sellick, GS ;
Garrett, C ;
Houlston, RS .
DIABETES, 2003, 52 (10) :2636-2638