Learn from experts

Rodrigo Ortega Polo

The Bioinformatics Research Support Network at Agriculture and Agri-Food Canada

Svetlana Ovchinnikova

Sleepwalk: a tool to interactive explore dimension-reduced embeddings

Warren Paulus

Securing infrastructure and user behaviour for computational biomedical research

Zhang Zhang

Building a big data ecosystem for bioinformatics


Topics and who should attend


We address the use of public analysis infrastructures, bioinformatics as a service and for research, as well as issues of translational bioinformatics such as integration of multimodal biomedical data, communication with healthcare practitioners, and ELSI challenges.

Topics include, but are not limited to:

  • processing, analysing, and interpreting large-scale data
  • reproducible research, workflow and tool management
  • data management, data sharing, and data security
  • software development and clinical user experience

Furthermore we cover the evolving relationship between research groups and core facilities and foster exchange on core facility organisation and management, for example in service and project management, scientific collaboration, teaching and career opportunities in core facilities.


Everyone working in a bioinformatics core facility or tasked with state-of-the art bioinformatics data analysis should not miss this event.


ÄBC2 2019 is organized by

  • Dieter Beule (BIH Berlin)
  • Sven Nahnsen (University of Tübingen)
  • Sven Rahmann (University Hospital Essen, University of Duisburg-Essen, UA Ruhr)
  • Daniel Stekhoven (ETH Zürich, Swiss Institute of Bioinformatics (SIB))


When, what and who?

When What Who/Where
08:00 Arrival, registration, coffee Misrock
09:00 Welcome address Organizers
09:15 Session 1 (Keynote and contributed talks)
09:15 Building a big data ecosystem for bioinformatics Zhang Zhang (Beijing)
10:15 Coffee break Misrock
10:30 Securing infrastructure and user behaviour for computational biomedical research Warren Paulus (SIB)
11:00 nf-core: community-built bioinformatics pipelines Alexander Peltzer (Tübingen)
11:30 Resource-frugal analysis of whole genomes Sven Rahmann (Essen)
12:00 Sleepwalk: a tool to interactive explore dimension-reduced embeddings Svetlana Ovchinnikova (Heidelberg)
12:30 Lunch break Cafeteria Rosental
13:45 Session 2 (Tutorials and contributed talks)
13:45 The Bioinformatics Research Support Network at Agriculture and Agri-Food Canada Rodrigo Ortega Polo (Lethbridge)
14:15 Enhancing gene set enrichment using networks (tutorial) Michael Prummer (Zurich)
15:15 Coffee break Misrock
15:45 Session 3: Parallel break-out groups Moderator
1. Secure Infrastructures Warren Paulus + Jaroslaw Surkont (sciCORE, Basel)
2. Open topic Volunteer
3. Meta-Data and omics Modelling for F.A.I.R. Data Management Dieter Beule
17:00 Presentation and discussion of BOG 1 results
17:20 Presentation and discussion of BOG 2 results
17:40 Presentation and discussion of BOG 3 results
18:00 End of workshop and apéro TBA


Join us!

Please register as early as possible to facilitate our planning and to enjoy a substantial discount on the registration fee. Registration includes full participation, drinks and food.

Category Early (-Jun 30) Regular (Jul 1 - Jul 25)
Student 90 EUR 120 EUR
Academic 150 EUR 200 EUR
Industry 300 EUR 400 EUR

Please register here. You will need a credit card to pay the registration fee.

Travel and Venue

How to find it

The workshop will take place at the Department of Biosystems Science and Engineering (D-BSSE) of ETH Zurich in Basel, Switzerland. This is in very close proximity to the ECCB/ISMB 2019 venue.

All plenary parts of the workshop will be in the Misrock seminar room.


The closest airport is EuroAirport in Mulhouse, France. The venue is in walking distance of the Badischer Bahnhof railway station.


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