NGS Course: RNA-seq data analysis, 2015 (5th edition)


September 7-9, 2015 (5th edition).


Leiden University Medical Center, The Netherlands

Course coordinators

Peter-Bram ‘t Hoen (LUMC), Jan Oosting (LUMC) and Celia van Gelder (BioSB)

Course description

The BioSB research school and partner LUMC are organizing a 3-day course on RNA-seq data analysis from September 7-9, 2015. This is an advanced course for people with experience in NGS. The course will consist of seminars and hands-on command line, Galaxy and R practicals and will cover the analysis pipelines for differential transcript expression and variant calling. Examples will be taken from human and mouse studies. The course does not cover prokaryotic RNA profiling nor plant- and metagenomics aspects.


This RNA-seq data analysis course is sponsored by Generade.

Course topics

– RNA-seq experimental approaches
– Alignment and de novo assembly
– Statistics for differential gene expression
– eQTL analysis and allele specific expression
– Variant calling and RNA editing
– Fusion transcript detection
– Small RNA profiling
– Software for RNA-seq data analysis

Course programme and flyer

A course programme can be found here.
A course flyer can be found here.

Target audience

Participants for the RNA-seq course should preferably have participated in the general NGS course or otherwise have demonstrated hands-on experience with NGS data analysis. The course is aimed at PhD students and post-docs, but scientific programmers and data analysts with a background in biology and bioinformatics may also attend. Registrations will be handled on a first-come-first-served basis but experience and motivation will be reviewed. Seats have been reserved for participants in the FP7-funded project RD-Connect and Marie Curie European Training Network TranCYST.

Travel and lodging

Hotel arrangements have been made with the IBIS hotel at walking distance (3 minutes walk) of the Leiden University Medical Center. Rooms are guaranteed till August 7, 17h CET. Please note that after that time, rooms are subject to availability.

IBIS hotel, Stationsplein 240-242, 2312 AR Leiden, The Netherlands

Room prices
Room (single use): 82,00 euro & room (double use): 95,00 euro. Prices are including breakfast, excluding tourist taxes.

To book a room at the IBIS hotel, please contact the hotel by email ( or phone (+31 – (0)71 516 00 02) and mention reference code LUMC070915.

In case of questions regarding the hotel reservations, please contact Anita Remmelzwaal (LUMC, email:

Previous editions

2014 edition webpage
2013 edition webpage