Hi, Weiwei,

I think you can try fisher exact test simply. Take all genes of your
organism as sample pool and your question is that: when you selected two
gene lists from the sample pool, how to judge the independence of the two
gene lists. The fisher exact test worked for this type of question.

Best wishes,

Weibo

On Sun, Aug 24, 2008 at 8:55 AM, Weiwei Shi <helprhelp@gmail.com> wrote:

> Dear listers,
>
> a little off-topic:
>
> I am looking for and compare algorithms which can calculate "distance" or
> "similarity" between two gene lists with different lengths.
>
> Any paper, any implementation in R and any suggestion is welcome!
>
> Thanks,
>
> --
> Weiwei Shi, Ph.D
> Research Scientist
> GeneGO, Inc.
>
> "Did you always know?"
> "No, I did not. But I believed..."
> ---Matrix III
>
>        [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
>



-- 
##################################################
Weibo Xie
National Center of Plant Gene Research (Wuhan).
National Key Laboratory of Crop Genetic Improvement
Huazhong Agricultural University Wuhan 430070, China
Phone: 86-27-61324632

	[[alternative HTML version deleted]]

