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@wur.nl


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