Hello,
Here are the minutes of today's analysis group call. The next call will
be in one week, June 28th at 2pm CET.
- Everything is pretty much set for the Barcelona analysis group
meeting. Tuuli and Gabrielle will put together the final program &
practical info. Most people are staying in H10 Marina - if you haven't
arranged your accommodation yet and want to stay there, contact them
directly: tel (34) 93 309 79 17, fax (34) 93 309 97 62, group booking
code 11596
- Genotype data is now available on the ftp site also for the imputed
samples.
- Splice junction quantifications should be done within days, some
N-TARs in a couple of weeks, other labs are also analyzing data
- Thasso will write documentation about the GEM mapping in the wiki -
some of the parameters about multimapping reads etc. are important to
know for analysts
- Leiden needs insert size distributions; Tuuli uploaded them in
/upload/geuvadis/wp4_rnaseq/main_project/analysis_data/qc/insert_size
- Natalja will create wig files from a couple of samples so that we can
test visualizing them in the Ensembl browser
- Thasso will start running simulated read mappings (single end, no
split mapping needed), after which Tuuli will finish ASE
- Tuuli will do sample swap checks for the imputed samples too, and look
into other QC aspects
- Jonas presented slides about mRNA QC analysis. Some outliers and some
lab effects but no major concerns, replicates show good signals.
- We'll have Liliana's and Mar's presentations next week
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
On 6/20/12 4:26 PM, Tuuli Lappalainen wrote:
Hello all,
We'll have a Geuvadis RNAseq analysis group TC on Thursday June 21st
at 2pm CET.
On the agenda:
- program for the Barcelona meeting (see attached draft)
- data and analysis updates
- Jonas from Uppsala will present some QC results
- Liliana from EBI will present "Conjoined genes in human populations"
- Mar from EBI will present "Ubiquity vs specificity of gene and
isoform expression across populations" (if there's time)
Call details are:
from outside spain; 0034917911859
from spain; 900800678
Access code; 3160100
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
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