This paper might be of interest:
   
  http://ilya.wustl.edu/~shannon/MantelPaper.pdf
   
  In this we use Mantel correlation to correlate 'groups' of genes instead of multiple gene-gene correlations.  This is used to avoid the large P small N (curse of dimensionality) problem which occurs when you run thousands of statistical tests on a small number of observations.  
   
  Thanks
   
  Bill Shannon, PhD
Associate Professor of Biostatistics in Medicine
Washington University School of Medicine
http://ilya.wustl.edu/~shannon 

Founder and President
BioRankings, LLC
314-704-8725


  

Marcelo Laia <marcelolaia@gmail.com> wrote:
  Hi,

Suppose this situation:
There is a structure in a cell. This one is composed by five
proteins. All that is essential. But, in that organism only three are
known.

If I have the expression for all genes, is it possible to cluster
all expression in relation to expression of this three genes?

I am looking if any of that genes group together this three. I can
do a cluster with all genes, but I would like to cluster one group
knowing that another group exist.

What you mean about my guess? You known a manner to do this? There
is BioConductor package to do this?

My normalized data are in a limma MA object.

All comments is very appreciated.

Thank you very much.


-- 
Marcelo Luiz de Laia
Ph.D Candidate
São Paulo State University (http://www.unesp.br/eng/)
School of Agricultural and Veterinary Sciences
Department of Technology
Via de Acesso Prof. Paulo Donato Castellane s/n
14884-900 Jaboticabal - SP - Brazil
Phone: +55-016-3209-2675
Cell: +55-016-97098526

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