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Andreas Heider
▴
340
@andreas-heider-4538
Last seen 9.7 years ago
Dear mailing list,
I try to get a final solution to the following problem: I have two
color
microarray data (common reference, dye-swap, multi-factor, multi-
group) of
which I want to extract differentially expressed genes (DEGs) using
LIMMA.
Those DEGs I want to analyse for the over-representation of GO-Terms
using
GOstats.
I got as far as a list with GO-Terms and their respective P-values and
even
could construct a nice direct-acyclic graph out of this data.
*However, the output I get does not account for the following:
Are single genes/transcripts up- or down-regulated?
What about the up- and down-regulation of whole over-represented GO-
Terms?
*
*Could I get there using clustering approaches?
*
I'm sure somebody on the list has already tried such an approach,
*finally
yielding over-represented GO-Terms, which are either up- or down-
regulated.*
Thanks in advance,
Andreas
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