Microarray expression technology: from start to finish

被引:18
作者
Elvidge, G [1 ]
机构
[1] Univ Oxford, Genom Grp, WEllcome Trust Ctr Human Genet, Oxford OX3 7BN, England
关键词
comparison; data analysis; expression; microarray; platforms; review; technology;
D O I
10.2217/14622416.7.1.123
中图分类号
R9 [药学];
学科分类号
1007 ;
摘要
The recent introduction of new microarray expression technologies and the further development of established platforms ensure that the researcher is presented with a range of options for performing an experiment. Whilst this has opened up the possibilities for future applications, such as exon-specific arrays, increased sample throughput and,chromatin immunoprecipitation (ChIP) on chip' experiments, the initial decision processes and experiment planning are made more difficult. This review will give an overview of the various technologies that are available to perform a microarray expression experiment, from the initial planning stages through to the final data analysis. Both practical aspects and data analysis options will be considered. The relative advantages and disadvantages will be discussed with insights provided for future directions of the technology.
引用
收藏
页码:123 / 134
页数:12
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共 53 条
[1]   Toward a synthesis of models of regulatory policy design with limited information [J].
Armstrong, M ;
Sappington, DEM .
JOURNAL OF REGULATORY ECONOMICS, 2004, 26 (01) :5-21
[2]   Gene Ontology: tool for the unification of biology [J].
Ashburner, M ;
Ball, CA ;
Blake, JA ;
Botstein, D ;
Butler, H ;
Cherry, JM ;
Davis, AP ;
Dolinski, K ;
Dwight, SS ;
Eppig, JT ;
Harris, MA ;
Hill, DP ;
Issel-Tarver, L ;
Kasarskis, A ;
Lewis, S ;
Matese, JC ;
Richardson, JE ;
Ringwald, M ;
Rubin, GM ;
Sherlock, G .
NATURE GENETICS, 2000, 25 (01) :25-29
[3]   Standardizing global gene expression analysis between laboratories and across platforms [J].
Bammler, T ;
Beyer, RP ;
Bhattacharya, S ;
Boorman, GA ;
Boyles, A ;
Bradford, BU ;
Bumgarner, RE ;
Bushel, PR ;
Chaturvedi, K ;
Choi, D ;
Cunningham, ML ;
Dengs, S ;
Dressman, HK ;
Fannin, RD ;
Farun, FM ;
Freedman, JH ;
Fry, RC ;
Harper, A ;
Humble, MC ;
Hurban, P ;
Kavanagh, TJ ;
Kaufmann, WK ;
Kerr, KF ;
Jing, L ;
Lapidus, JA ;
Lasarev, MR ;
Li, J ;
Li, YJ ;
Lobenhofer, EK ;
Lu, X ;
Malek, RL ;
Milton, S ;
Nagalla, SR ;
O'Malley, JP ;
Palmer, VS ;
Pattee, P ;
Paules, RS ;
Perou, CM ;
Phillips, K ;
Qin, LX ;
Qiu, Y ;
Quigley, SD ;
Rodland, M ;
Rusyn, I ;
Samson, LD ;
Schwartz, DA ;
Shi, Y ;
Shin, JL ;
Sieber, SO ;
Slifer, S .
NATURE METHODS, 2005, 2 (05) :351-356
[4]   Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses [J].
Bhattacharjee, A ;
Richards, WG ;
Staunton, J ;
Li, C ;
Monti, S ;
Vasa, P ;
Ladd, C ;
Beheshti, J ;
Bueno, R ;
Gillette, M ;
Loda, M ;
Weber, G ;
Mark, EJ ;
Lander, ES ;
Wong, W ;
Johnson, BE ;
Golub, TR ;
Sugarbaker, DJ ;
Meyerson, M .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (24) :13790-13795
[5]   Gene expression profiles in formalin-fixed, paraffin-embedded tissues obtained with a novel assay for microarray analysis [J].
Bibikova, M ;
Yeakley, JM ;
Chudin, E ;
Jing, C ;
Wickham, E ;
Wang-Rodriguez, J ;
Fan, JB .
CLINICAL CHEMISTRY, 2004, 50 (12) :2384-2386
[6]   Ephrin-B2 ligand is a functional receptor for Hendra virus and Nipah virus [J].
Bonaparte, MI ;
Dimitrov, AS ;
Bossart, KN ;
Crameri, G ;
Mungal, BA ;
Bishop, KA ;
Choudhry, V ;
Dimitrov, DS ;
Wang, LF ;
Eaton, BT ;
Broder, CC .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2005, 102 (30) :10652-10657
[7]   Minimum information about a microarray experiment (MIAME) - toward standards for microarray data [J].
Brazma, A ;
Hingamp, P ;
Quackenbush, J ;
Sherlock, G ;
Spellman, P ;
Stoeckert, C ;
Aach, J ;
Ansorge, W ;
Ball, CA ;
Causton, HC ;
Gaasterland, T ;
Glenisson, P ;
Holstege, FCP ;
Kim, IF ;
Markowitz, V ;
Matese, JC ;
Parkinson, H ;
Robinson, A ;
Sarkans, U ;
Schulze-Kremer, S ;
Stewart, J ;
Taylor, R ;
Vilo, J ;
Vingron, M .
NATURE GENETICS, 2001, 29 (04) :365-371
[8]   ArrayExpress - a public repository for microarray gene expression data at the EBI [J].
Brazma, A ;
Parkinson, H ;
Sarkans, U ;
Shojatalab, M ;
Vilo, J ;
Abeygunawardena, N ;
Holloway, E ;
Kapushesky, M ;
Kemmeren, P ;
Lara, GG ;
Oezcimen, A ;
Rocca-Serra, P ;
Sansone, SA .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :68-71
[9]   Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments [J].
Breitling, R ;
Armengaud, P ;
Amtmann, A ;
Herzyk, P .
FEBS LETTERS, 2004, 573 (1-3) :83-92
[10]   Allele-specific gene expression differences in humans [J].
Buckland, PR .
HUMAN MOLECULAR GENETICS, 2004, 13 :R255-R260