[BioC] snapCGH package for expression data?

[lusya at izba.com]

Dear list members,

I am seeking advice in following. I have results of a time-course microarray experiment, essentially an lmFit where every time point is compared to starting point. Now, I would like to see if I can find the chromosome regions where gene expression changes over time in coordinate manner. I was thinking of using one of the aCGH analysis packages, particularly snapCGH. Is it reasonable to use it with expression data? Assuming that I could use this package for my analysis, how could I adjust it to work with Drosophila chromosomes? The examples in User's guide deal with human, and I couldn't find where and how I can change to different organism, or define the chromosome properties.


Thanks,
Lyudmila


Dr. Lyudmila Mikhaylova
Research Associate
Tufts University School of Medicine
Department of Anatomy and Cellular Biology
136 Harrison Ave
Boston, MA 02111

phone (617) 636-3832
e-mail lyudmila.mikhaylova at tufts.edu