Hello, I am working on 2 isogenic cell lines which are treated with a certain chemical and 24h, 48h, and 72 hour samples are taken. We now have 12 arrays (4x 3 time points) and its duplicate. I searched for some methods for the analysis of this kind of data, yet I could not find one. Could you please advise me the most convenient R package and statistical method to perform such an analysis... Thank you all, Ozge

Hi Ozge, Ozge Gursoy-Yuzugulu wrote: > Hello, > > I am working on 2 isogenic cell lines which are treated with a > certain chemical and 24h, 48h, and 72 hour samples are taken. We now > have 12 arrays (4x 3 time points) and its duplicate. I searched for > some methods for the analysis of this kind of data, yet I could not > find one. > > Could you please advise me the most convenient R package and > statistical method to perform such an analysis... Convenient? I can point to something that is practical/useful/accurate, but if you want convenience you might want to look elsewhere ;-D Bioconductor has what we call biocViews, which has a web-based interface that one can use to find packages of a certain type. If I look for TimeCourse packages, I end up here: http://www.bioconductor.org/packages/1.9/TimeCourse.html The starting point is http://www.bioconductor.org/packages/1.9/BiocViews.html Another R-based but non-BioC package is the EDGE package of John Storey. You can find that by googling his name. Best, Jim > > Thank you all, > > Ozge > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.