Dear Eleonora,

	The results will not be reliable because you will not
take the variability (both biological and technical) into account.
One replicate each will only give you log Foldchanges, but no
measure of the variability. Whether you go ahead or not
is up to you but I try to avoid doing this whenever possible
and I also tell the people that any such results come with
a big question mark.

with hope that this helps,
Rich
Richard A. Friedman, PhD
Associate Research Scientist,
Biomedical Informatics Shared Resource
Herbert Irving Comprehensive Cancer Center (HICCC)
Lecturer,
Department of Biomedical Informatics (DBMI)
Educational Coordinator,
Center for Computational Biology and Bioinformatics (C2B2)/
National Center for Multiscale Analysis of Genomic Networks (MAGNet)
Room 824
Irving Cancer Research Center
Columbia University
1130 St. Nicholas Ave
New York, NY 10032
(212)851-4765 (voice)
friedman@cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/

In memoriam, Ray Bradbury

On Sep 10, 2012, at 2:38 PM, Eleonora Lusito wrote:

> Dear BioC users, I have a question regarding microarray data analysis (Human
> Affymetrix one color). My point is that I have just 1 sample TREATMENT and 1
> sample REFERENCE. Neither technical replicates nor biological replicates are
> available. A statistical test to find differentially expressed genes between
> the two conditions seems to me impossible (even the simple t-test) due to the
> absence of replicates. People who asked me to do the analysis were interested
> only in finding the genes changing between the two conditions. In this
> conditions, in my opinion only the fold change is possible just to give a
> general view of the behavior of the genes. Any other suggestion about this
> issue?
> 
> Thanks a lot
> 
> E.
> 
> -- 
> Eleonora Lusito
> Computational Biology PhD student
> Molecular Medicine Program
> via Ripamonti 435, 20141 Milano, Italy
> 
> Phone number: +390294375160
> e-mail: eleonora.lusito@ieo.eu
> 
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