19 Jul
2012
19 Jul
'12
5:10 p.m.
Dear Tuuli and others
Thanks for this draft. It looks good. Indeed, focusing the main message paper on the
functional annotation of variants seems good to me. Perhaps that could also be reflected
in the title: Systematic functional annotation of genomic variants by combined DNA and RNA
sequencing
Regarding the qc paper: to exactly trace the sources of batch effects and variation is
rather complicated (we will definitely find GC but other than that, I am not even sure we
will find an effect of RIN values). I believe the main message is that you can do
distributed sequencing, what are best practices, what qc parameters should be quantified,
and how one deals with sources of variability
Ideas from others are more than welcome
Peter
-----Original Message-----
From: geuvadis_rna_analysis-bounces(a)lists.crg.es
[mailto:geuvadis_rna_analysis-bounces@lists.crg.es] On Behalf Of Tuuli
Lappalainen
Sent: Thursday, July 19, 2012 10:01 AM
To: geuvadis_rna_analysis(a)lists.crg.es
Subject: [Geuvadis_rna_analysis] RNAseq paper outline
Hello all,
I have drafted an outline for the Geuvadis RNAseq main paper based on
the presentations and discussions at the Barcelona meeting. Please take
a look and let me know if I've forgotten or misunderstood something, or
if you have other suggestions. I will send it to the whole RNAseq group
Friday afternoon, so I'd appreciate if you could send your comments
before that.
best regards,
Tuuli
--
Tuuli Lappalainen, PhD
Department of Genetic Medicine and Development
University of Geneva Medical School
CMU / Rue Michel-Servet 1
1211 Geneva 4
Switzerland
Tel. +41-(0)22-3795550
tuuli.lappalainen(a)unige.ch