[BioC] question on limma package

[Richard Friedman]

Dear Mouselly,

	A B>f 0 is a good place to start.
It is advisable to spot check genes by PCR to validate the cutoff.

Best wishes,
Rich

On Jul 18, 2007, at 10:06 AM, el mousselly antra wrote:

> hi,
>   i have a question on  limma package
>   when we have the result of tnis pakage and we have p-vlue and the
>  value of B .
>   i i want to know on wich value of p we consider that genes are DE ,
>  we take 0.05 is the threshold or what and i see that when we consider
>  0.05 as threshold wa have a lot of genes DE.
>   so, i want some rule (threshold)that will be raisonnable and
>  efficient to detect gnes DE
>   thank you
>   sincerly
>
>
>
>  		
> ---------------------------------
>
> 	[[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

------------------------------------------------------------
Richard A. Friedman, PhD
Biomedical Informatics Shared Resource
Lecturer
Department of Biomedical Informatics
Educational Coordinator
Center for Computational Biology and Bioinformatics
National Center for Multiscale Analysis of Genomic Networks
Box 95, Room 130BB or P&S 1-420C
Columbia University Medical Center
630 W. 168th St.
New York, NY 10032
(212)305-6901 (5-6901) (voice)
friedman at cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/

In memoriam, John Stewart Williamson