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RNA-seq data analysis

  • 9-13 May 2022
  • Breda, The Netherlands
  • Organizer: BioSB research school & Avans Hogeschool & ErasmusMC

The 2022 edition of the RNA-seq data analysis course will be held on 9-13 May, 2022 in Breda, the Netherlands. This course covers the basic concepts and methods required for RNA-seq analysis. Particular attention is given to the data analysis pipelines for differential transcript expression and variant calling.

Location

Address: Hogeschoollaan1, 4818 CR Breda, The Netherlands

Course coordinators

  • Andrew Stubbs, Erasmus MC
  • Miaomiao Zhou, Avans University of Applied Sciences

Course credits

1.5 ECTS

Course overview

This course covers the basic concepts and methods required for RNA-seq analysis. Particular attention is given to the data analysis pipelines for differential transcript expression and variant calling. Presentations are followed by hands-on computer sessions using Linux command line tools, Galaxy and R to directly apply and get more insight in the analysis methods. One afternoon is dedicated to the analysis of a new data set, allowing the students to refresh and extend their analysis skills. Students can also bring their own RNA-seq data for practicing. We will also explore the potential of long-read based RNA-seq in a Friday afternoon literature club. After the course, the presentations, practicals and test data will remain available for future reference. Software packages used are freeware.

Target audience

Participants for the RNA-seq course should preferably have participated in a general next-generation sequencing (NGS) course or otherwise have some 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.

Learning outcomes

After having followed this course:

  • The participant has insight in the issues involved in good experimental design of RNA-seq experiments.
  • The participant knows and can perform analysis steps in reference-based and de novo RNA-seq data analysis, and visually present and judge the results for:
    • quality control and preprocessing,
    • finding differentially expressed genes,
    • variant calling,
    • cluster analysis,
    • classification analysis,
    • pathway testing.
  • The participant has insight in various RNA-seq platforms, their specificity in solving certain biological questions, and the bottlenecks in these applications.
  • The participant has insight in the different algorithms and options available to perform an analysis, and can make an informed choice.
  • The participant knows the pitfalls of existing analyses and is able to critically judge the statistical analysis of RNA-seq data performed by others.

Registration

The registration fees for this 5-day course are:

  • PhD student: 400 euro (excl. VAT)
  • Academic researcher (PI/Postdoc): 600 euro (excl. VAT)
  • Industry: 900 euros (excl.VAT)

The course fee includes:

  • Course material
  • Catering: coffee, tea and lunch will be provided.

You can register for the course by filling out this registration form. Find general enrollment information here.