[BioC] matching expression profiles

[Lana Schaffer]

Jim,
I am just asking about the expression of a single gene across all the
samples.
I have been reminded that genefinder would be a for me and I have used
it before.
Thanks,
Lana 

-----Original Message-----
From: James W. MacDonald [mailto:jmacdon at med.umich.edu] 
Sent: Monday, January 14, 2008 9:25 AM
To: Lana Schaffer
Cc: bioconductor at stat.math.ethz.ch
Subject: Re: [BioC] matching expression profiles

Hi Lana,

What exactly do you mean by 'expression profiles'?

If you mean e.g., person A says these 100 genes are interesting in the
experimental system I am investigating, and I want to compare my results
to hers, then I think you want to use GSEA.

I am most familiar with the variant in the Category package, but you
might also consider PGSEA or GSEAbase, depending on where your
expression profile comes from.

Best,

Jim



Lana Schaffer wrote:
> Friends,
> What packages would you recommend in Bioconductor that would match 
> expression profiles similar to a given expression profile and perhaps 
> draw them ?
> Thanks,
> Lana Schaffer
> 
> 	[[alternative HTML version deleted]]
> 
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: 
> http://news.gmane.org/gmane.science.biology.informatics.conductor

--
James W. MacDonald, M.S.
Biostatistician
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623