Practical Course on Next Generation Sequencing for Population Genetics and Experimental Evolution

The Vienna Graduate School of Population Genetics is organising a next generation sequencing (NGS) course from October 19 to 26 at the Vetmeduni Vienna, Austria.

Recent technological advances in sequencing have greatly changed the scope of biological questions addressable in experimental evolution systems. In particular, in addition to the study of phenotypes it is now possible to study molecular data genome-wide. Even population genetic analysis have become within reach for moderate research budgets by pooling individuals before sequencing. However, the analysis of massive amounts of data generated in course of a single experiment, especially time series data, require new statistical skills to be maximally informative.

Unfortunately, many research groups aiming to use the new sequencing technologies are facing enormous practical and conceptual difficulties handling the data. The planned course aims to facilitate the use of new sequencing technologies by providing users a hands-on introduction to available tools and techniques and explaining the concepts underlying them. The demand for such training is large and growing and this course is in particular aimed for evolutionary groups that usually do not have access to in house training for next generation sequencing.

Teaching Faculty

(Names in bold indicate the organizers of the course)

Eszter Ari, Eötvös Loránd University, Hungary
Andrea Betancourt, Vetmeduni Vienna, Austria
Simon Boitard, INRA Tolouse, France
Jonathan Bollback, Institute of Science and Technology Austria
Sinead Collins, University of Edinburgh, UK
Santiago Elena, Instituto de Biologia Molecular y Celular Plantas, Valencia, Spain
Angela Hancock, University of Vienna, Austria
Darren Kessner, University of California Los Angeles, USA
Robert Kofler, Vetmeduni Vienna, Austria
Carolin Kosiol, Vetmeduni Vienna, Austria
Ville Mustonen, Sanger Institute, UK
Magnus Nordborg, Gregor Mendel Institute, Austria
Alexander Platzer, Gregor Mendel Institute, Austria
Mark Robinson, University of Zürich, Switzerland
Christian Schlötterer, Vetmeduni Vienna, Austria
Ignacio Vazquez-Garcia, Sanger Institute and Univ. of Cambridge, UK

Application (closed)

Who is eligible to apply?
The workshop is designed for PhD-students and post-docs currently or prospectively working on NGS analysis. A basic knowledge of UNIX would be highly beneficial.

Procedure
Application deadline: June 15, 2014
Admission notification: July 15, 2014 (successful candidates were notified)

Send a single .pdf file to ngs.vienna(at)gmail.com covering the following information:

  • CV (including your nationality)
  • letter of motivation including your experience with NGS data analysis and a statement of the relevance for your research project

Expenses
The course is free of charge. However, participants will have to cover travel, accommodation and meals.

Draft Schedule

Day 0 (Sunday October 19th, 2014)

Participants arrive at the hotel
Welcome Reception

Day 1 (Monday October 20th, 2014)
AM:
Introductions
Introductory Computational Practical Session "Unix/Windows command line basics and exercises”
Presentation "Next Generation Sequencing Technologies"

PM:
Presentations and Practical Sessions "Mapping reads to a reference genome"
Evening Presentation
Additional time for exercises

POSTER SESSION

Presentations: Darren Kessner, Carolin Kosiol, Christian Schlötterer

Day 2 (Tuesday October 21st 2014)
AM:
Open practical session with own data
Presentations and Practical Sessions "Population Genetics"

PM:
Presentations and Practical Sessions "Experimental Design"
Evening Presentation
Open practical session

Presentations: Andrea Betancourt, Santiago Elena, Robert Kofler, Christian Schlötterer

Day 3 (Wednesday October 22nd 2014)
AM:
Open practical session with own data
Presentations and Practical Sessions "Pooled Sequencing"

PM:
Presentations and Practical Sessions "Pooled Sequencing"
Open practical session

Presentations: Simon Boitard, Darren Kessner, Robert Kofler, Sinead Collins

Day 4 (Thursday October 23rd 2014)
AM:
Open practical session with own data
Presentations and Practical Sessions "RNASeq"

PM:
Presentations and Practical Sessions "De Novo Assembly"
Open practical session

Presentations: Eszter Ari, Alexander Platzer, Mark Robinson

Day 5 (Friday October 24th 2014)
AM:
Open practical session with own data
Presentations and Practical Sessions "Genome-wide association study (GWAS)"

PM:
Presentations and Practical Sessions "Genome-wide association study (GWAS)"
Open practical session

Presentations: Angela Hancock, Magnus Nordborg

Day 6 (Saturday October 25th 2014)
AM:
Open practical session with own data
Presentations and Practical Sessions "Time Series Analysis

PM:Presentations and Practical Sessions "Time Series Analysis"
Practical Session
Final discussion session

Presentations: Jon Bollback, Carolin Kosiol, Ville Mustonen

Day 7 (Sunday October 26th)
Departure

FWF - Der Wissenschaftsfond Partner: FWF - Der Wissenschaftsfond
Vetmed Uni Vienna Partner: Vetmed Uni Vienna
Max F. Perutz Laboratories Partner: Max D. Perutz Laboratories
Gregor Mendel Institut Partner: Gregor Mendel Institute
Uniwien Partner: Uniwien