[BioC] probeset for a single gene
sdavis2 at mail.nih.gov
Fri Nov 10 19:10:51 CET 2006
On Friday 10 November 2006 13:01, Weiwei Shi wrote:
> suppose i have some probes for the same gene, I am wondering which is
> the proper way to get a statistic for the expression for this gene?
> using mean, median or max or min? I think it might be affected by the
> research target but I wondering if there is some ref on it.
There is not a standard, no. The answer does probably depend on the research
question (as you suggest), the type of data, quality metrics, and probably
other factors. Some of those "other factors", such as cross-hybridization,
are not readily available in every case without some additional work.
> btw, is there some ref on the data pre-processing (gene selection,
> multiple comparison, better with case study) for microarray analysis
> other than bioconductor book?
The microarray literature is relatively large, but there are many papers on
all of the aspects that you mention above. A good place to start if you have
the bioconductor book is with the references therein.
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