[BioC] cluster a set of genes based on another set of genes

[michael watson (IAH-C)]

Hi
 
I'm not sure what you're looking for here - if you just want to see which other genes correlate to your three of interest, then you could just use the cor() function and a cut-off.  
 
If you want to look at the behaviour of groups of genes found by clustering one set of data in a second set of data, then I have published coxpress last year that does exactly that http://coxpress.sf.net
 
Mick

________________________________

From: bioconductor-bounces at stat.math.ethz.ch on behalf of Marcelo Laia
Sent: Mon 12/02/2007 10:42 AM
To: Bioconductor
Subject: [BioC] cluster a set of genes based on another set of genes



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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