Analysis: two-color, time series
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@gordon-smyth
Last seen 1 hour ago
WEHI, Melbourne, Australia
Dear Olga, Time <- factor(targets$Cy5) design <- model.matrix(~Time) Best wishes Gordon > Date: Thu, 5 Aug 2010 00:41:13 -0600 > From: "Olga K. Kamneva" <kamushkina at="" gmail.com=""> > To: bioconductor at stat.math.ethz.ch > Subject: [BioC] Analysis: two-color, time series > Content-Type: text/plain > > Dear List, > > I need help with the analysis of time series experiment. I have cDNA > microarray data produced with genepix. > Bacterial cells were induced for sporulation (3 biological replicates), RNA > was extracted from cells before induction and after 1,2,3 and 4 hours after > induction. RNA from uninduced cells was labeled with Cy3, from respective > induced cells with Cy5 and hybriduzed onto two-color microarray. > To summarize the data: > # biol repl Cy5 Cy3 > 3 1h unind > 3 2h unind > 3 3h unind > 3 4h unind > > > How should I analyze this data to find differentially expressed genes? > I am trying to use limma package, but I cannot come up with proper design > matrix to fit the linear model. > > > I will very much appreciate any help, as I am not very experienced > microarray data analyst. > > > Thank to everyone, > Olga. ______________________________________________________________________ The information in this email is confidential and intend...{{dropped:4}}
Microarray limma Microarray limma • 621 views
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