[Bioc-sig-seq] Scatter Plot Matrix

[James W. MacDonald]

Martin Morgan wrote:
> As I understand it, there are two (not four, as one might think) 
> florescent nucleotides ('dATP', 'dCTP'), and each is measured on two 
> different wavelengths ('red', 'green'). This is from here
> 
> http://dx.doi.org/10.1016/S0003-2697(03)00291-4

According to this demo on Illumina's site, they use four labeled 
nucleotides.

http://www.illumina.com/media.ilmn?Title=Sequencing-By-Synthesis%20Demo&Cap=&Img=spacer.gif&PageName=illumina%20sequencing%20technology&PageURL=203&Media=1

But as you note in the scatterplot (and as well in this paper by Naef 
http://www.biomedcentral.com/1471-2105/9/431), the A and C channels and 
T and G channels are highly correlated.

Best,

Jim



-- 
James W. MacDonald, M.S.
Biostatistician
Hildebrandt Lab
8220D MSRB III
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Ann Arbor MI 48109-0646
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