[BioC] One-color spotted microarrays analysis

[Pier-Luc Poulin]

Hi everyone,

I have a general question about microarray data analysis using bioconductor.

We are using a 32k custom spotted oligo array and we are planning on doing one-color microarray experiments. We need advice on how to proceed with data normalization and analysis. We have searched in the literature and in the vignettes and user guides of BioConductor but it seems that almost every experiment with spotted arrays is done with two colors. No documentation exists for single channel spotted microarrays, except for the article by 't Hoen et al., 2004, Nucleic Acids Research.

Does anyone have knowledge or suggestions on methods or Bioconductor packages that could be used for this kind of analysis?

Thanks, 

P-L Poulin
Research assistant
Université Laval
www.arborea.ca