[BioC] normalization one color microarrays

[Laurent Gautier]

On 2011-08-24 23:04, Sean Davis wrote:
> On Wed, Aug 24, 2011 at 4:08 PM, Paz Tapia Ramirez
> <verotapia at alumnos.utalca.cl>  wrote:
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>> Hello, I am starting to work with ONE color microarrays from Agilent, and I read that during the pre-processing is main tasks, such as background adjustment, normalization and summarization. Currently I have corrected the background and  normalized samples, but do not understand the step of the summarization. Can you help me please?
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> Hi, Paz.
>
> For Agilent, there is not typically a summarization step (pulling
> multiple probes into a "probe set").  Each probe is designed to
> measure nucleotides independently.
>
> Sean
>

This depends on the use case, and what is typical to a lab might to an 
other.
For custom arrays, I have seen a lot of designs with several probes per 
genes and there a probe summarization step could be applied.


L.



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