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Netherlands Bioinformatics Centre – Information Management




PhD Course: Managing life science information


25-29 May 2009, Science Park, Amsterdam, the Netherlands


Ammar Benabdelkader, Peter Boncz, Andrew Gibson, Frank van Harmelen, Ivan Herman, M. Scott Marshall, Marco Roos, Morris Swertz

Guest lecturers

Mark Wilkinson, Carole Goble, Katy Wolstencroft, Alan Ruttenberg


M. Scott Marshall, Marco Roos


Informatics Institute, F0.09, Science Park Amsterdam, the Netherlands


For participants without their own laptop with wifi we have limited hands-on facilities

Course credits and grading

The total studyload of the course is 3 EC. There will not be a written examination. Participants will get a final assignment to take home and finish in the weeks after the course.


Considering the complexity of biological systems it is not surprising that the management of life science information is one of the most challenging aspects of bioinformatics. For example, (medical) biologists have compiled over 17 million papers, and well over a thousand databases. In many cases finding and applying the information from these resources is far from trivial. In fact, a majority ends up on a formidable ‘data graveyard’ (how many of the >1000 databases do you know?). Following this course can help you prevent your data or your information management system to follow the same fate.

desdeNBIC: Netherlands Bioinformatics Centre – Information Management.

Protégé user documentation

A Practical Guide To Building OWL Ontologies Using Prot´eg´e 4

and CO-ODE Tools

Edition 1.1


This guide introduces Prot´eg´e 4 for creating OWL ontologies. Chapter 3 gives a brief overview of the OWL ontology language. Chapter 4 focuses on building an OWL-DL ontology and using a Description Logic Reasoner to check the consistency of the ontology and automatically compute the ontology class hierarchy. Chapter 7 describes some OWL constructs such as hasValue Restrictions and Enumerated classes, which aren’t directly used in the main tutorial.

Protégé user documentation.


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