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Hot Topics: Bridging the gap between data representation and data reasoning

At the moment, a lot of attention is focused on how to represent and integrate biological data. Simultaneously, bioinformatics works on new ways to reason with and interrogate such data. 

The interface between data representations and reasoning solutions is often problematic. It is a gap, which has to be bridged again and again by bioinformaticians in order to perform their work. This gives rise to questions such as: How should we represent our data in order to facilitate easy and scalable reasoning? What kinds of reasoning can and/or should be supported by data stores to address the needs of bioinformatics? How should we approach reasoning tasks in the face of heterogeneous data representations or data locations?
During this hot-topic meeting, we like to discuss different approaches which bring together the data representation and data reasoning worlds, in the context of bioinformatics.

Keywords: data, representation, reasoning, query language, data structure, integration

Programme December 3rd

12:30-12:35 Welcome - Marc van Driel
12:35-13:10 Lunch
13:10-14:00 Using Web Standards for Knowledge Representation and Logical Reasoning
  Paul Groth, University of Amsterdam
14:00-14:50 Probabilistic databases for reasoning with large volumes of inconsistent
  or inconclusive evidence
  Maurice van Keulen, University of Twente
15:50-15:00 Tea break
15:00-15:50 SciQL - Bridging the Gap between Science and Relational DBMS
  Ying Zhang, Centre of Mathematics (CWI)
15:50-16:40 Ibidas: querying flexible data structures to support data analysis tasks
  Marc Hulsman, Delft University of Technology
16:40-17:15 General discussion & Closing


SURFfoundation, Hojel City Center, gebouw D (5e verdieping), Graadt van Roggenweg 340, 3531 AH Utrecht, (max. 25 participants) - Website/route

About HotTopics

NBIC HotTopics are a new series of NBIC meetings committed to bringing scientists together to discuss the concepts and methods on a hot topic in their research field. It should provide a platform to keep in touch with peers in the field and foster sharing of new insights, applications and collaborations. Therefore, the aim of the meeting is not to present the latest results of your own work, but rather to identify new trends and breakthroughs in the field in general.

Four scientists will give a 20 minute lecture followed by 40 minutes of discussion on the important computational concepts:

  • What does a method try to accomplish?
  • What assumptions were made?
  • How does this method compare to similar ones?
  • What are the strengths, weaknesses and pitfalls?
  • Can we apply it in other areas?
  • What are the limitations and challenges for new applications and developments?

Flip over, beamer and laptop are available.


Please register for this meeting via the Registration form

Organising committee

Dr. Marc Hulsman - TU-Delft
Dr. Marc van Driel – Netherlands Bioinformatics Centre (NBIC)
(phone: +31 6 24448612 / +31 24 3613306)