[BioC] Illumina array quality checking and RegGrn values..

Johnstone, Alice Alice.Johnstone at esr.cri.nz
Wed Feb 27 02:37:00 CET 2008

Hi there, 

My first question is what methods/packages are available for quality
checking of Illumina expression arrays?

This is because I have just received data back from an Illumina Rat
tissue expression experiment and while looking for info on beadlevel
analysis I came across this post:

In which Matt Richie states that the RegGrn values should be
approximately 1..  for the array data I have back only 2 arrays per chip
have RegGrn values of 1 the rest sit at ~0.08! Can anyone provide me
with some more information on what the metrics should look like?

I was expecting one of my 3 chips to be of poorer quality but not

Thank you very much!

Alice Johnstone

PhD Student
Institute of Environmental Science and Research Ltd
Kenepuru Science Centre
34 Kenepuru Drive
PO Box 50-348
New Zealand

Tel:  + 64 4 914-0717
Fax: + 64 4 914-0770

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