Entering edit mode
Justin Borevitz
▴
170
@justin-borevitz-1002
Last seen 10.3 years ago
We'll we may give it a shot but there's always plenty of room for
help..
thanks
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Justin Borevitz
http://naturalsystems.org/lab
-----Original Message-----
From: Ben Bolstad [mailto:bolstad@stat.berkeley.edu]
Sent: Wednesday, September 20, 2006 10:22 PM
To: Justin Borevitz
Cc: 'Scott Smemo'
Subject: RE: genotyping RLMM probe level model?
Oh, ok. Now I see where you are going. As far as I am aware no one is
doing that specifically. At one point I was thinking of expanding my
PLM
work in that direction, but other things got in the way and it is very
very unlikely I'll ever get to it.
Best,
Ben
On Wed, 2006-09-20 at 22:12 -0500, Justin Borevitz wrote:
> Sorry, yes RLMM is like RMA to summarize probes prior to analysis eg
> Classify(). But what about analysis at the probe level? I'm
developing
some
> SNP/tiling arrays, and we're adding 4 probes (2 alleles, 2 strands)
for
each
> SNP and others for expression. To score allele specific expression
we'd
> look at the ratio (say of the two alleles), and we can do this with
both
> strands. With many samples each strand can predict a genotype, then
the
two
> statistics combined rather than combine and create 1 statistic.
>
> Thoughts? Someone must be doing this..
> Justin
>