Re: [R] [BioC] similarity between two gene lists with varied length

From: xie weibo <xwbmail_at_gmail.com>
Date: Mon, 25 Aug 2008 09:08:10 +0800

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_at_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
>
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-- 
##################################################
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

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Received on Mon 25 Aug 2008 - 04:53:08 GMT

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