[BioC] normalization question
Phguardiol@aol.com
Phguardiol@aol.com
Sat, 1 Mar 2003 16:15:10 EST
Hi all,
I am pretty new in this list so I hope my question is not going to be
"inappropriate" for it ! Here is my problem:
I have one human cell line Cw that is diploid and has a deficient gene FA,
this cell line has been corrected for this deficient gene (name is Cneo), and
I have also another cell line that evolved from Cw with 95% of cells being
now tetraploid (and FA deficient, name Ctetra). I d like to compare this new
tetraploid cell line to the 2 others. Besides, I have duplicates - and soon
triplicates - for these in 2 different conditions applied to all these cells:
normal culture conditions or incubation with a drug. I am using Affy HG
U133A/B chips. I was wondering what kind of normalization I should use for a
comparison such as Cw versus Ctetra without any drug ? Should I normalize all
my diploid chips and then separately normalize all my tetraploid chips then
pool them for analysis ? or can I normalize all the chips in the same process
? Then do my comparisons
Thanks for your help
Philippe Guardiola, MD
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