Dear list,
 
Although not directly related to BioC, I would appreciate any pointer to
papers/methodology related to the question of how to calculate a pathway
score (for e.g. pathways defined by KEGG) for an individual array.
 
TIA,
Guido
 
Background: we standardly use methodology like GSEA to find pathways
that are regulated upon treatment compared to control. For example, GSEA
calculates a 'pathway score' (the Normalzed Enrichment Score NES) by
combining and comparing expression data from all replicates from an
experimental and control groups. We now would like to calculate a
pathway score for each individual array (thus like having an expression
estimate per array for a probeset, but now for a pathway), but i don't
know how to approach this.

------------------------------------------------ 
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 <http://nutrigene.4t.com/>  
email:      guido.hooiveld@wur.nl 



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