Introduction to RNA-Seq

Date 19 - 20 November 2018
Speaker(s) Geoffrey Fucile
Fees *academic: 120 CHF   -   for-profit: 600 CHF
Cancellation deadline 5 Nov 2018
City Basel
*academic fee includes non for-profit organisations as well as unemployed participants at the time of application.

This course is currently over-subscribed. Check back soon for future iterations!


This two-day course will present the theory and bioinformatics tools required to analyze RNA-seq gene expression data, from the raw data to the biological interpretation. The following topics will be discussed:

  • Quality control
  • Mapping to genomes & transcriptomes
  • Read counting, gene & exons differential expression analysis
  • GO enrichment and pathway analysis


This course is intended for life scientists or bioinformaticians familiar with "Next Generation Sequencing" who wish to acquire the necessary skills to analyse RNA-seq gene expression data.

Learning objectives

At the end of the course attendees will:

  • Understand advantages and pitfalls of RNA sequencing
  • Be able to design their own experiment
  • Practise the downstream analysis using command line software (QC, mapping, counting, differential expression analysis, pathway analysis, etc)


Knowledge / competencies: Participants should already have a basic knowledge in Next Generation Sequencing (NGS) techniques or already followed the Introduction to NGS course. A basic knowledge of the R statistical software and completion of an introductory course on UNIX (eg UNIX fundamentals) or equivalent knowledge is also required.

Location & Time

University of Basel, Kollegienhaus, Seminarraum 103, Petersgraben 50, 4051 Basel.

The course will start at 9:00 and end around 17:00. Precise information will be provided to the participants on due time.


The registration fees for academics are 120 CHF and 600 CHF for participants from industry. This includes course content material and coffee breaks.

Please note that participation to SIB courses is subject to this and other general conditions, available here.

You will be informed by email of your registration confirmation. Upon reception of the confirmation email, participants will be asked to confirm attendance by paying the fees within 5 days.

Additional information

You are welcome to register to the SIB courses mailing-list to be informed when the applications for this course will be open, of all future courses and workshops, as well as all important deadlines using the form here.

For more information, please contact