Data Integration in the Life Sciences: 5th International by Olivier Bodenreider (auth.), Amos Bairoch, Sarah

By Olivier Bodenreider (auth.), Amos Bairoch, Sarah Cohen-Boulakia, Christine Froidevaux (eds.)

This e-book constitutes the refereed lawsuits of the fifth foreign Workshop on information Integration within the lifestyles Sciences, DILS 2008, held in Evry, France in June 2008.

The 18 revised complete papers provided including three keynote talks and an educational paper have been rigorously reviewed and chosen from fifty four submissions. The papers adress all present concerns in information integration and information administration from the lifestyles technological know-how standpoint and are geared up in topical sections on Semantic net for the existence sciences, designing and comparing architectures to combine organic facts, new architectures and event on utilizing platforms, structures utilizing applied sciences from the Semantic internet for the lifestyles sciences, mining built-in organic info, and new positive factors of significant assets for biomolecular data.

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Extra resources for Data Integration in the Life Sciences: 5th International Workshop, DILS 2008, Evry, France, June 25-27, 2008. Proceedings

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As careful ontology engineering can easily avoid the problem, the integration approach should be taken as the last resort to integrate legacy semantic objects, such as those deployed in relational databases[10]. 2). The seemingly trivial problem encountered by the NAME conceptualization, in fact, elucidates a fundamental issue with regard to the knowledge engineering in the 32 X. S. L. Oliveira web. That is: how can the URI of an ontological term be maximally shared within the web? As ontological URIs denote conceptualizations, which can only be shared if they are logically consistent with each other, we should first investigate ontology’s compatibility issues before evaluating the sharing capability of BioPAX ontologies.

At level-1, conversion subclasses directly from interaction (Fig. 2a). But, at level-2, it does so indirectly from physiccalInteraction – a class that was newly introduced into BioPAX at level-2 (See Fig. 2b). Because all instances of biopax-2:conversion would be valid instances of biopax1:conversion, the level-2’s definition of conversion is Fig. 2. BioPAX’s conversion class. (a) Level-1 definition compatible with that of the (b) Level-2 definition (c) Level-3 definition. level-1. Ontology Design Principles and Normalization Techniques in the Web 33 The converse, however, is not true because a biopax-1:conversion is not necessarily a physical-Interaction, and therefore, a biopax-2:conversion.

44). With respect to the in-degrees and out-degrees of concept nodes we notice little changes during the observation period, especially for is-a ontologies. , their concepts have mostly only 1 With respect to all 16 ontologies, the relative shares for is-a / part-of / miscellaneous relationships are 86% / 7% / 7%. Analyzing the Evolution of Life Science Ontologies and Mappings 21 one super concept. On the other side, ontologies such as GO Cellular Components or GO Biological Process have about two ancestor concepts per concept since they use is-a and part-of relationships in combination.

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