Study of stem cell function using microarray experiments

被引:58
作者
Perez-Iratxeta, C [1 ]
Palidwor, G [1 ]
Porter, CJ [1 ]
Sanche, NA [1 ]
Huska, MR [1 ]
Suomela, BP [1 ]
Muro, EM [1 ]
Krzyzanowski, PM [1 ]
Hughes, E [1 ]
Campbell, PA [1 ]
Rudnicki, MA [1 ]
Andrade, MA [1 ]
机构
[1] Ottawa Hlth Res Inst, Ontario Genom Innovat Ctr, Program Mol Med, Ottawa, ON K1H 8L6, Canada
关键词
stem cell; genornics; microarray analysis; microarray database;
D O I
10.1016/j.febslet.2005.02.020
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
DNA Microarrays are used to simultaneously measure the levels of thousands of mRNAs in a sample. We illustrate here that a collection of such measurements in different cell types and states is a sound source of functional predictions, provided the microarray experiments are analogous and the cell samples are appropriately diverse. We have used this approach to study stem cells, whose identity and mechanisms of control are not well understood, generating Affymetrix microarray data from more than 200 samples, including stem cells and their derivatives, from human and mouse. (c) 2005 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.
引用
收藏
页码:1795 / 1801
页数:7
相关论文
共 34 条
[1]   Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].
Altschul, SF ;
Madden, TL ;
Schaffer, AA ;
Zhang, JH ;
Zhang, Z ;
Miller, W ;
Lipman, DJ .
NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402
[2]   The MUSC DNA microarray database [J].
Argraves, GL ;
Barth, JL ;
Argraves, WS .
BIOINFORMATICS, 2003, 19 (18) :2473-2474
[3]   Umbilical-cord blood transplantation for the treatment of cancer [J].
Barker, JN ;
Wagner, JE .
NATURE REVIEWS CANCER, 2003, 3 (07) :526-532
[4]   CONTROLLING THE FALSE DISCOVERY RATE - A PRACTICAL AND POWERFUL APPROACH TO MULTIPLE TESTING [J].
BENJAMINI, Y ;
HOCHBERG, Y .
JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY, 1995, 57 (01) :289-300
[5]   Multiple sequence alignment with the Clustal series of programs [J].
Chenna, R ;
Sugawara, H ;
Koike, T ;
Lopez, R ;
Gibson, TJ ;
Higgins, DG ;
Thompson, JD .
NUCLEIC ACIDS RESEARCH, 2003, 31 (13) :3497-3500
[6]   Drosophila RNase Z processes mitochondrial and nuclear pre-tRNA 3′ ends in vivo [J].
Dubrovsky, EB ;
Dubrovskaya, VA ;
Levinger, L ;
Schiffer, S ;
Marchfelder, A .
NUCLEIC ACIDS RESEARCH, 2004, 32 (01) :255-262
[7]   Structure of primate and rodent orthologs of the prostate cancer susceptibility gene ELAC2 [J].
Dumont, M ;
Frank, D ;
Moisan, AM ;
Tranchant, M ;
Soucy, P ;
Breton, R ;
Labrie, F ;
Tavtigian, SV ;
Simard, J .
BIOCHIMICA ET BIOPHYSICA ACTA-GENE STRUCTURE AND EXPRESSION, 2004, 1679 (03) :230-247
[8]   Cluster analysis and display of genome-wide expression patterns [J].
Eisen, MB ;
Spellman, PT ;
Brown, PO ;
Botstein, D .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (25) :14863-14868
[9]   Hybridization cross-reactivity within homologous gene families on glass cDNA microarrays [J].
Evertsz, EM ;
Au-Young, J ;
Ruvolo, MV ;
Lim, AC ;
Reynolds, MA .
BIOTECHNIQUES, 2001, 31 (05) :1182-+
[10]   The Gene Ontology (GO) database and informatics resource [J].
Harris, MA ;
Clark, J ;
Ireland, A ;
Lomax, J ;
Ashburner, M ;
Foulger, R ;
Eilbeck, K ;
Lewis, S ;
Marshall, B ;
Mungall, C ;
Richter, J ;
Rubin, GM ;
Blake, JA ;
Bult, C ;
Dolan, M ;
Drabkin, H ;
Eppig, JT ;
Hill, DP ;
Ni, L ;
Ringwald, M ;
Balakrishnan, R ;
Cherry, JM ;
Christie, KR ;
Costanzo, MC ;
Dwight, SS ;
Engel, S ;
Fisk, DG ;
Hirschman, JE ;
Hong, EL ;
Nash, RS ;
Sethuraman, A ;
Theesfeld, CL ;
Botstein, D ;
Dolinski, K ;
Feierbach, B ;
Berardini, T ;
Mundodi, S ;
Rhee, SY ;
Apweiler, R ;
Barrell, D ;
Camon, E ;
Dimmer, E ;
Lee, V ;
Chisholm, R ;
Gaudet, P ;
Kibbe, W ;
Kishore, R ;
Schwarz, EM ;
Sternberg, P ;
Gwinn, M .
NUCLEIC ACIDS RESEARCH, 2004, 32 :D258-D261