TM4 microarray software suite

被引：1390

作者：

Saeed, Alexander I. ^{[1
]}

Hagabati, Nirmal K. ^{[1
]}

Braisted, John C. ^{[1
]}

Liang, Wei ^{[1
]}

Sharov, Vasily ^{[1
]}

Howe, Eleanor A. ^{[1
]}

Li, Jianwei ^{[1
]}

Thiagarajan, Mathangi ^{[1
]}

White, Joseph A. ^{[1
]}

Quackenbush, John ^{[1
]}

机构：

[1] Inst Genom Res, Dept Bioinformat, Rockville, MD USA

来源：

DNA MICROARRAYS, PART B: DATABASES AND STATISTICS | 2006年 / 411卷

基金：

美国国家科学基金会;

关键词：

D O I：

10.1016/S0076-6879(06)11009-5

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Powerful specialized software is essential for managing, quantifying, and ultimately deriving scientific insight from results of a microarray experiment. We have developed a suite of software applications, known as TM4, to support such gene expression studies. The suite consists of open-source tools for data management and reporting, image analysis, normalization and pipeline control, and data mining and visualization. An integrated MIAME-compliant MySQL database is included. This chapter describes each component of the suite and includes a sample analysis walk-through.

引用

页码：134 / +

页数：66

共 63 条

[11] Between-group analysis of microarray data [J].

Culhane, AC ;

Perrière, G ;

Considine, EC ;

Cotter, TG ;

Higgins, DG .

BIOINFORMATICS, 2002, 18 (12) :1600-1608

[12] The affymetrix GeneChip® platform:: An overview [J].

Dalma-Weiszhausz, Dennise D. ;

Warrington, Janet ;

Tanimoto, Eugene Y. ;

Miyada, Garrett .

DNA MICROARRAYS PART A: ARRAY PLATFORMS AND WET-BENCH PROTOCOLS, 2006, 410 :3-28

[13] Phylogenetic reconstruction using an unsupervised growing neural network that adopts the topology of a phylogenetic tree [J].

Dopazo, J ;

Carazo, JM .

JOURNAL OF MOLECULAR EVOLUTION, 1997, 44 (02) :226-233

[14] Analysis of a multifactor microarray study using Partek Genomics Solution [J].

Downey, Tom .

DNA MICROARRAYS, PART B: DATABASES AND STATISTICS, 2006, 411 :256-+

[15] Multiple hypothesis testing in microarray experiments [J].

Dudoit, S ;

Shaffer, JP ;

Boldrick, JC .

STATISTICAL SCIENCE, 2003, 18 (01) :71-103

[16]

DUDOIT S, 2000, STAT METHODS IDENTIF

[17] Troubleshooting microarray hybridizations [J].

Eads, Brian ;

Cash, Amy ;

Bogart, Kevin ;

Costello, James ;

Andrews, Justen .

DNA MICROARRAYS, PART B: DATABASES AND STATISTICS, 2006, 411 :34-+

[18] Gene Expression Omnibus: NCBI gene expression and hybridization array data repository [J].

Edgar, R ;

Domrachev, M ;

Lash, AE .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :207-210

[19] 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

[20] Degradation of insulin-like growth factors in small intestine of suckling rats [J].

Fellah, AM ;

Philipps, AF ;

Gillespie, TJ ;

Galo, JR ;

Dvorák, B .

REGULATORY PEPTIDES, 2001, 98 (1-2) :19-25

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