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: http://thread.gmane.org/gmane.science.biology.informatics.conductor/15 72 0/focus=15744 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 all.... 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 Porirua New Zealand Tel: + 64 4 914-0717 Fax: + 64 4 914-0770 P Think before you print This e-mail transmission and any attachments that accompany it may contain information that is privileged, confidential or otherwise exempt from disclosure under applicable law and is intended solely for the use of the individual(s) to whom it was intended to be addressed. If you have received this e-mail by mistake, or you are not the intended recipient, any disclosure, dissemination, distribution, copying or other use or retention of this communication or its substance is prohibited. If you have received this communication in error, please immediately reply to the author via e-mail that you received this message by mistake and also permanently delete the original and all copies of this e-mail and any attachments from your computer. Thank you.

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