Header single cell Summer School

e:Med Summer School 2022 - Single-cell based systems medicine (Single-Cell-Sysmed)

Single-cell technologies are revolutionizing biomedical research by allowing the investigation of individual cells and the molecular changes that lead to disease, with unprecedented detail both in time and space. However, the translation of basic findings into the clinical routine for early diagnosis and personalized therapies poses many challenges and is highly dependent on interdisciplinary interactions between biomedical researchers, data scientists and clinicians.

In this e:Med summer school, we aim to bring young talents from these disciplines together to enable cross-disciplinary training and foster the emerging field of single-cell systems medicine. Leading experts in experimental, computational and clinical single-cell research will provide specialized lectures and hands-on training in emerging technologies.

While our expert teachers will broadly cover several main research fields of single-cell systems medicine, including oncology, infectious diseases and neurodegenerative disorders, focused practical courses and use-cases will provide insights into the entire workflow from clinical sample collection via single-cell isolation to multi-omics profiling, data analyses, and feedback to the clinical practice. In “inverse practical courses” students will be guided out of their comfort zone to gain insights into the disciplines they are not specialized in. 

To deliver a truly interdisciplinary summer school, the BIMSB-MDC will closely cooperate with the Charité in the organization of the event. The efforts that both institutes are making to establish cell-based medicine in Berlin and in Europe are exemplified in the LifeTime pan-European initiative and in the newly funded focus area together with the BIH “Single cell approaches for personalized medicine”. We believe that the summer school participants will greatly benefit from the lively biomedical environment already established at our institutes.

To allow the informal exchange among students and lecturers, we will offer networking activities and the school will end with a public closing event.


Selection Process

Application deadline: 31 March 2022
The course is limited to 20 participants (internal spots available)

Successful candidates will receive the info around mid April.


The course is funded by the BMBF (e:Med program). We provide accommodation, networking activities, course material and food and beverages throughout the course. Travel has to be organized individually and will be supported with a contribution up to 300 EUR (plus extra for oversee applicants).

Child Care

If you are a parent or a guardian and need child care during the event, please get in touch with us directly and we will be happy to discuss your needs.

Note on COVID-19 restrictions

The event is planned to happen in person under observance of the regulations that will be still in place at the beginning of the summer school.


Hannoversche Straße 28
Large Conference Room
10115 Berlin





Module 1. Single-cell approaches in systems medicine
An overview about the state of the art in single-cell systems medicine. Topics will cover oncology, immunology (including COVID-19 research), cardiovascular biology and neurodegenerative disease.

Module 2. Emerging technologies in single-cell research
The avant-garde of experimental technology development in the field of single-cell genomics.  Insights into state-of-the-art and future trends, i.e. mutational analyses, multi-marker profiling, lineage tracing, spatial profiling to infer 3-dimensional relationships of diseased tissues.

Module 3. Data science & Bioinformatics

Computational methods are key to unlock clinical implementation. The topics will range from standard analyses of single-cell omics analyses to new batch-correction methods and multi-modal data integration.

Module 4. Practical courses & Demonstrations

Lecturers will demonstrate the applicability of their applications in real-life examples. Students will have the change to challenge themselves in the area they are least confident in.

Module 5. Clinical Insights

On site exchanges with Charité clinicians and discussions with patient representatives, to nurture a better understanding of the potential of single cell approaches applied to medical practice to improve patients’ well-being and highlight the urgent need for personalized


Thomas Conrad (BIMSB/MDC, Berlin)
Bart De Strooper (VIB, KU Leuven)

Angelika Eggert (Charité, Berlin)
Stefanie Grosswendt (BIMSB/BIH, Berlin)
Dominic Grün (MPI, Freiburg)
Simon Haas (BIMSB/BIH, Berlin)
Laleh Haghverdi (BISMB/MDC, Berlin)
Anton Henssen (Charité, Berlin)
Daniel Hübschmann (DKFZ, Heidelberg)
Markus Landthaler (BIMSB/MDC, Berlin)
Leif Ludwig (BIMSB/BIH, Berlin)
Jan Philipp Mallm (DKFZ, Heidelberg)
Leila Perie (Institute Curie, Paris)
Nikolaus Rajewsky (BIMSB/MDC, Berlin)
Karsten Rippe (DKFZ, Heidelberg)
Philip Rosenstiel (IKMB, Kiel)
Ashley Sanders (BIMSB/MDC, Berlin)
Amos Tanay (Weizmann, Rechovot)
Lars Velten (CRG, Barcelona)



Nikolaus Rajewsky (BIMSB/MDC)

Angelika Eggert (Charité)

Simon Haas (BIMSB/BIH)

Chiara Baccin (MDC)