Hi. I have a query: do you have any examples on how normalization of microarray expression data is normally performed for the case of dual dye (2 color) cDNA microarray data? Kind Regards, Gerry Smith [[alternative HTML version deleted]]

Hi, On Wed, Jun 29, 2011 at 6:16 AM, Gerry S <gerry333 at="" gmail.com=""> wrote: > Hi. > I have a query: do you have any examples on how normalization of microarray > expression data is normally performed for the case of dual dye (2 color) > cDNA microarray data? You'll likely find the limma user guide helpful, which is installed when you install limma, but also available here: http://www.bioconductor.org/packages/2.8/bioc/vignettes/limma/inst/doc /usersguide.pdf The vignettes in the affy package are also helpful in general for an overview of microarray analysis as well, but affy arrays aren't two color. Still worth a read if you're totally green with this type of stuff: http://www.bioconductor.org/packages/release/bioc/html/affy.html HTH, -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology ?| Memorial Sloan-Kettering Cancer Center ?| Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact