[BioC] Time series analysis using predefined sets of genes

[Daofeng Li]

Hi,

STEM is good, i am using it:)

On 8/8/07, Hooiveld, Guido <Guido.Hooiveld at wur.nl> wrote:
> Dear list,
>
> Not a 'core' BioC question, but I was wondering whether someone could point me to a paper/tool that allows the analysis of time series microarray experiments on the basis of predefined sets of genes.
> In other words, I would like to know how predefined sets of genes (not indivual genes) behave during in a time course; e.g. pathway x rapidly goes up and then decreases, pathway y is not changed etc.
>
> I came across STEM [Short Time-series Expression Miner] (www.cs.cmu.edu/~jernst/stem/) that seems to do such analyses, but I was wondering whether other approaches exist as well.
>
> TIA,
> Guido
>
>
> ------------------------------------------------
> Guido Hooiveld, PhD
> Nutrition, Metabolism & Genomics Group
> Division of Human Nutrition
> Wageningen University
> Biotechnion, Bomenweg 2
> NL-6703 HD Wageningen
> the Netherlands
>
> tel: (+)31 317 485788
> fax: (+)31 317 483342
>
> internet:   http://nutrigene.4t.com
> email:      guido.hooiveld at wur.nl
>
>
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-- 
Daofeng Li,PhD Candidate
China Agricultural University