[BioC] Time course cDNA two color array analysis

[Ana Conesa]

Hi Marcelo,

I am not aware of GeneCycle and GeneNet, but maSigPro, limma, and I think 
timecourse also will take 2 color data. I do understand why you thought it 
was not possible.
maSigPro will give you genes with changing expression profiles over time. 
You can follow the single series example given in the user´s guide. Limma 
allows you to make contrasts between time points. The tutorial has also a 
section about time course analysis.

Ana


On Fri, 19 Jan 2007 19:10:12 -0200, Marcelo Laia wrote
> Hi,
> 
> My works was about a bacterium development in their host. I have 4
> times points, in this way:
> 
> Cy5            Cy3
> NA              12h after inoculation
> NA              24h              "
> NA               3 days        "
> NA               5 days        "
> 
> Cy5  - culture medium
> Cy3  - host
> 
> I look around the timecourse, limma, maSigPro, GeneCycle and GeneNet.
> However, all of then looks for me incompatible with two-colors 
> arrays. Could you suggest me a way/strategy for to do my analysis? I 
> am interested in genes which change over time.
> 
> Thank you
> 
> -- 
> Marcelo Luiz de Laia
> Ph.D Candidate
> São Paulo State University (http://www.unesp.br/eng/)
> School of Agricultural and Veterinary Sciences
> Department of  Technology
> Via de Acesso Prof. Paulo Donato Castellane s/n
> 14884-900   Jaboticabal - SP - Brazil
> Phone: +55-016-3209-2675
> Cell: +55-016-97098526
> 
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