[BioC] Re: Bioconductor Digest, Vol 6, Issue

[Leslie M. Cope]

On Mon, 4 Aug 2003 bioconductor-request at stat.math.ethz.ch wrote:

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> Today's Topics:
> 
>    1. help on Bioconductor installation (Man, Michael)
>    2. gcrma (Crispin Miller)
>    3. RNA degradation (again) (Chris Paulse)
>    4. how to convert expression set data  into matrix data ? 
>       (Anne Sauve)
> 
> 
> ----------------------------------------------------------------------
>
> Message: 3
> Date: Fri, 01 Aug 2003 07:56:47 -0700
> From: "Chris Paulse" <chrispaulse at hotmail.com>
> Subject: [BioC] RNA degradation (again)
> To: bioconductor at stat.math.ethz.ch
> Message-ID: <BAY8-F67ZatQrqYgmji00020162 at hotmail.com>
> Content-Type: text/plain; format=flowed
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> Would it be reasonable to attempt to correct for (normalize) the effects of 
> RNA degradation?
> 
> Thanks,
> Chris Paulse
> 
The p-values in the degradation data table are from a t-test of zero 
slope. No idea how to interpret them, in the future they will not be 
included.  Better would be to let data from 
many experiments provide a distribution of slope values and empirical 
p-values.  Correcting for the effects seems to be far away, if possible at 
all.  

Leslie Cope