Altuna Akalin
Max Delbrück Center,
Berlin Institute for Medical Systems Biology
Vedran Franke
Max Delbrück Center,
Berlin Institute for Medical Systems Biology
Bora Uyar
Max Delbrück Center,
Berlin Institute for Medical Systems Biology

23-25 September 2020
Berlin Institute for Medical Systems Biology, Max Delbrück Center
Berlin, Germany
Application deadline
30 July 2020

Modules and tentative schedule

General Info

COVID-19 related info: We decided to do this training online due to the pandemic. All the lectures and the practical sessions will be online. The details will be e-mailed to the participants in September.

The general aim of the course is to equip participants with practical and technical knowledge to analyze single cell RNA-seq data. With this aim in mind, we will go through unsupervised machine learning methods to analyze high-dimensional data sets, and move on to statistical methods developed to analyze bulk RNA-seq. Lastly, we will introduce analysis techniques used for single cell RNA-seq.

There will be theoretical lectures followed by practical sessions where students directly apply what they have learned. The programming will be mainly done in R.
More detailed course plan is here.

The course will be beneficial for first year computational biology PhD students, and experimental biologists and medical scientists who want to begin data analysis or are seeking a better understanding of computational genomics and analysis of popular sequencing methods. The course is open for anyone who is interested in the subjects we are teaching.

We have done similar courses in 2015, 2016, 2017, 2018 and 2019 . Here is a link to an article about the 2015 course.

Duration and Structure

The lectures and practicals will take the up full day. The candidates should plan for 9am to 6pm days. A typical day would comprise of lectures followed by hands-on exercises. There will also be additional scientific lectures showcasing application of computational genomics in current research projects.

A computer room with preset workstations will be provided. There will be one afternoon (mid-week) reserved for a social group activity

About the instructors

The instructors have decades of experience in data analysis for genomics. They are developers of Bioconductor packages such as methylKit, genomation and RCAS. In addition, they have been developing end-to-end genomics data analysis pipelines for RNA-seq, ChIP-seq, Bisulfite-seq, and scRNA-seq called PiGx


Application deadline: 30 July 2020

Add to Calendar 30-07-2020 08:00 AM 30-07-2020 10:00 AM Berlin Compgen2020 deadline coming Compgen2020 application deadline coming

Candidates must apply by filling in the online form. The form will have a section for submitting an abstract on current research interests and projects. Please be prepared to provide an abstract describing your current research projects and interest (max 1000 words).

There will also be questions on programming experience. These questions will help us organize a better course that is adjusted to applicant competencies. So, it is important you fill in those questions truthfully.


A course fee of 50 EUR will be charged. Payment details will be e-mailed to the candidates accepted to the course.

Course Location

The course will be held at the new BIMSB building on Humboldt-Universität’s Campus Nord in Berlin-Mitte.

Travel and Accomodation

The course fee does NOT cover accommodation or travel. However, the document linked below lists suggested accommodation options. The list includes some of the budget hotels/hostels as well.

Suggested accomodation options


Questions and suggestions should be sent to the following e-mail:

We look forward to hearing from you!


Scientific Organization: Altuna Akalin