Dear all,

The functional annotations for all Geuvadis variants are now available. Many thanks to everyone in the loss-of-function group for all the work that it took to put this together.

The file for all 1000g variants: /upload/geuvadis/wp4_rnaseq/main_project/external_data/genetic_variation/variant_info/ALL.phase1_release_v3.20101123.snps_indels_sv.sites.gdid.gdannot.v2.vcf.gz .

The files of variants in Geuvadis data (genotype files and sites file) have also been updated to include the new annotations:
/upload/geuvadis/wp4_rnaseq/main_project/external_data/genetic_variation/genotype/phase1_phase2/

The wiki is now read-only, so the documentation for this can be found in the following googledoc.
https://docs.google.com/document/d/1wR0oyg01M-wfoWxjN7KX6c6UqqksbW_3to2_N7S1ICo/edit

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@unige.ch

I'll also upload the file to http://jungle.unige.ch/~lappalainen/

The documentation is under the link below. Can you please take a look - especially Monkol and Manny - and let me know by Thursday if everything seems OK, and add/edit if necessary? I'll share this with the rest of the analysis group after that.

https://docs.google.com/document/d/1wR0oyg01M-wfoWxjN7KX6c6UqqksbW_3to2_N7S1ICo/edit

cheers,
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@unige.ch