[BioC] separation of profiles

[Robert Gentleman]

Hi Lana,
   You might need to give us a bit more detail. But some general 
comments can be made. Since p-values are probabilities they take values 
only in the range 0-1. So while you have what you believe are distinct 
p-value profiles, they almost surely mix at some point. If you you have 
some sense of how to parameterize those distributions you could try to 
use some sort of mixture model approach to assign p-values (and hence 
genes) to a particular profile, but that will almost surely have large 
error rates.

   I don't think I understand why you would look at p-values? Why not 
identify gene expression profiles and use those to map genes. That makes 
much more sense to me, but perhaps I have not understood your question.

  best wishes
    Robert


Lana Schaffer wrote:
> Hi,
> I have genes whose pvalues behave as 2 different profiles over a time course
> treatment effect.  I would like to separate the correlated profiles into 2 sets
> of genes.  How can I do this in R?
> 
> 
> Lana Schaffer
> Biostatistics/Informatics
> The Scripps Research Institute
> DNA Array Core Facility
> La Jolla, CA 92037
> (858) 784-2263
> (858) 784-2994
> schaffer at scripps.edu
> 
> 
> 
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> 
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-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
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PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org