Date:Wednesday 12 December 2018
Venue:University of Montpellier - UFR Medicine - UPM North Site, 641 avenue du Doyen Gaston Giraud, 34093, Montpellier, France
Application opens:Friday September 28 2018
Application deadline:Tuesday December 11 2018
Participation:First come, first served
The Ensembl project provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. The 1000 Genomes Project created the largest public catalogue of human variation and genotype data. Its goal was to find most genetic variants with frequencies of at least 1% in the populations studied. The International Genome Sample Resource (IGSR) provides ongoing support for the 1000 Genomes Project data.
This 1-day workshop offers participants the possibility of gaining hands-on experience in the use of Ensembl variation resources and the interlinked IGSR, but also provides them with the necessary background information. Participants will learn how to use a variety of tools for analysing variation data, including the Variant Effect Predictor (VEP) and the Linkage Disequilibrium Calculator.
The workshop is primarily targeted at wetlab researchers, and we customise the course to include total beginners of Ensembl/IGSR up through frequent users.
Feedback from previous courses: "There are probably quite few people out there who all assume that Ensembl today is the same as it was years ago. It is not. With many new features and datasets incorporated/interlinked, it offers data exploration like never before. This course was a very useful update on what Ensembl has become" Browser workshop, CRUK, April 2016
"Very useful workshop, certainly one of the most informative and useful I have attended. Delivered by someone who was extremely familiar with the website and its capabilities, not someone who had used it a couple of times and proclaimed themselves to be an expert." Browser workshop, Cardiff, March 2014
If you think you'd like to host a similar course at your institute, you can find out more on the Ensembl workshops page.
wet-lab researchers and bioinformaticians
Participants should be able to:
view genomic regions in the Ensembl browser and manipulate the view to add features they are interested in.
analyse genomic variants and associated phenotypes and their own variation data using the VEP.
use a variety of tools for analysing variation data, such as the Linkage Disequilibrium Calculator, and tools specifically developed for use with 1000 Genomes Project data.
find and access 1000 Genomes Project data, as well as more recently included data sets, by using the IGSR resource.
- Introduction to Ensembl
- The 1000 Genomes project and The International Genome Sample Resource (IGSR)
- Variation data in Ensembl
- The Variant Effect Predictor (VEP), Variant recoder and Haplosaurus tools
- The Linkage Disequilibrium Calculator tool
- Other tools for 1000 Genomes Project data, such as the Data Slicer