Section outline

  • Introduction to Next Generation Sequencing

    Bern, 7-8 September 2015

    Overview

    Usage of NGS is increasing in several biological fields due to a very rapid decrease in cost. However, it often results in hundreds of Gbs of data making the downstream analysis very challenging and requires bioinformatics skills.

    In this module, we will introduce the most used sequencing technologies and explain their decryption concepts.

    We will also introduce the repositories e.g. The European Nucleotide Archive (ENA), Sequence Read Archive (SRA) from which you could retrieve raw data based on specific experiments. We will practice the usage of command line tools to search and fetch NGS raw data in a powerful way.

    Finally, based on different datasets, we will practice screening for quality control and trimming and clipping reads for better downstream analysis. 

     

    Requirements

    • Basic understanding of working with command line tools on Linux or Windows-based operating systems. If you do not feel comfortable with UNIX commands, please take our UNIX fundamentals e-learning module
    • Please bring your own computer with WIFI Eduroam activated
    • You will need to install a Virtual Machine (an emulation of a Linux operating system containing the software and data needed) on your computer to follow the practicals (see below)
    • Complete the exercise 'UNIX evalutation' at least 4 days before the course - see below

    Application

    The registration fees for academics are 50 CHF. Participants from non-academic institutions should contact us before application.

    The course is full.

    Deadline for registration and free-of-charge cancellation is set to September 1. Cancellation after this date will not be reimbursed. Please note that participation to SIB courses is subject to this and other general conditions, available at http://www.isb-sib.ch/training/training-general-conditions.html.

    You will be informed by email of your registration confirmation.

    Location

    Bern, Hochschulstrasse 4 - Seminarraum Nr. 331, Hauptgebäude, University of Bern

    Additional information

    The course will be taught by Walid Gharib.

    We will recommend 0.5 ECTS credits for this course (given a passed exam (optional) at the end of the session). 

    You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

    For more information, please contact training@isb-sib.ch.