论文信息 - CALIB: a Bioconductor package for estimating absolute expression levels from two-color microarray data

CALIB: a Bioconductor package for estimating absolute expression levels from two-color microarray data

UNLABELLED In this article we describe a new Bioconductor package 'CALIB' for normalization of two-color microarray data. This approach is based on the measurements of external controls and estimates an absolute target level for each gene and condition pair, as opposed to working with log-ratios as a relative measure of expression. Moreover, this method makes no assumptions regarding the distribution of gene expression divergence. AVAILABILITY http://bioconductor.org/packages/2.0/bioc Open Source.

Kathleen Marchal | Hui Zhao | Bart De Moor | Kristof Engelen

[1] Thomas Altmann,et al. Versatile gene-specific sequence tags for Arabidopsis functional genomics: transcript profiling and reverse genetics applications. , 2004, Genome research.

[2] Gordon K Smyth,et al. Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments , 2004, Statistical applications in genetics and molecular biology.

[3] P. Kemmeren,et al. Monitoring global messenger RNA changes in externally controlled microarray experiments , 2003, EMBO reports.

[4] S. Dudoit,et al. Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation. , 2002, Nucleic acids research.

[5] Kathleen Marchal,et al. A calibration method for estimating absolute expression levels from microarray data , 2006, Bioinform..

[6] Jean YH Yang,et al. Bioconductor: open software development for computational biology and bioinformatics , 2004, Genome Biology.

[7] Harm van Bakel,et al. In control: systematic assessment of microarray performance , 2004, EMBO reports.

[8] Gary A. Churchill,et al. Analysis of Variance for Gene Expression Microarray Data , 2000, J. Comput. Biol..