TM4 microarray software suite.
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.
Saeed
Alexander I
AI
Department of Bioinformatics, The Institute for Genomic Research, Rockville, MD, USA.
Bhagabati
Nirmal K
NK
Braisted
John C
JC
Liang
Wei
W
Sharov
Vasily
V
Howe
Eleanor A
EA
Li
Jianwei
J
Thiagarajan
Mathangi
M
White
Joseph A
JA
Quackenbush
John
J
D000465:Algorithms; D000818:Animals; D020869:Gene Expression Profiling / Q000379:methods / Q000706:statistics & numerical data; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods* / Q000706:statistics & numerical data; D012984:Software