Hi Sean!
Everything...but principally what you said.
I have to normalize data, then to look for "differential express" 
protein and calculate a p-value of how much the outliers differs from 
median.
Finally I have to map a set of proteins  into the distribution to 
understand if they are over-expressed in a mutant proteome.
Thanks!
Francesco

Sean Davis wrote:
> On Tue, Dec 9, 2008 at 1:19 PM, Francesco Mancuso
> <francesco.mancuso@ifom-ieo-campus.it> wrote:
>   
>> Hi all!
>> I'm a little newbie with R...
>>
>> I'm working with quantitative proteomics data that have a bimodal
>> distribution.
>> For you what is the best function to work with this type of data?
>>     
>
> Hi, Francesco.
>
> What do you want to do with the data?  Are you looking for
> differential expression?  Trying to normalize data?
>
> Sean
>   

-- 
*Francesco Mattia Mancuso*
Bioinformatician

/Proteomics and Functional Genomics Group/
http://www.ifom-ieo-campus.it/research/bonaldi.php

/Mass Spectrometry Unit/
http://www.ifom-ieo-campus.it/services/masspectrometry.php

European Institute of Oncology
Via Adamello 16 - 20139 Milano
[Ph] +39-02-94375102
[email] francesco.mancuso@ifom-ieo-campus.it 
<mailto:francesco.mancuso@ifom-ieo-campus.it>

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