[BioC] How can I obtain the expression set from an antibody microarray

[Wolfgang Huber]

Dear Núria

many aspects of what you will be doing will be similar to transcription 
microarrays, and the limma package is a mature and well-documented place 
to get started.

There will probably be specific questions re normalisation and quality 
assessment for your array. The respective chapters in the Bioc books 
[1-2] can give you some ideas, in addition you might benefit from 
teaming up with a local statistician or bioinformatician.

	Best wishes
	Wolfgang

[1] 
http://www.bioconductor.org/help/publications/books/bioinformatics-and-computational-biology-solutions
[2] 
http://www.bioconductor.org/help/publications/books/bioconductor-case-studies

Il Feb/2/11 5:18 PM, nqueralt at clinic.ub.es ha scritto:
> Dear all,
>
>
>
> I'm a beginner in the preprocessing of microarray data. Currently, I'm facing the extraction of the expression data matrix from the raw data of an antibody microarray. I have GPR files from two different arrays before and after the washing, and a GAL file. How can I do that?
>
>
>
> I have PANORAMA arrays (SIGMA), so anyone knows how can I do the normalization of the expression data?
>
>
>
> Any ideas on these issues will be very welcome.
>
>
>
> Regards,
>
>
>
> Núria
>
>
> 	[[alternative HTML version deleted]]
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>
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-- 


Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber