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Requirements and specification of bioinformatics use cases

Backofen, Rolf (author)
Friedrich-Schiller-Universität Jena, Germany
Badea, Liviu (author)
National Institute for Research and Development in Informatics, Bucharest, Romania
Barahona, Pedro (author)
Universidade Nova de Lisboa, Portugal
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Berndtsson, Mikael (author)
University of Skövde, Sweden
Burger, Albert (author)
Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK
Dawelbait, Gihan (author)
Technische Universität Dresden, Germany
Doms, Andreas (author)
Technische Universität Dresden, Germany
Fages, Francois (author)
INRIA Rocquencourt, Paris, France
Hotaran, Anca (author)
National Institute for Research and Development in Informatics, Bucharest, Romania
Jakoniené, Vaida (author)
(Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems
Krippahl, Ludwig (author)
Universidade Nova de Lisboa, Portugal
Lambrix, Patrick (author)
(Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems
McLeod, Kenneth (author)
Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK
Nutt, Werner (author)
Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK
Olsson, Bjorn (author)
University of Skövde, Sweden
Schroeder, Michael (author)
Technische Universität Dresden, Germany
Schroiff, Anna (author)
University of Skövde, Sweden
Royer, Luc (author)
Technische Universität Dresden, Germany
Soliman, Sylvain (author)
INRIA Rocquencourt, Paris, France
Tan, He (author)
(Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems
Tilivea, Doina (author)
National Institute for Research and Development in Informatics, Bucharest, Romania
Will, Sebastian (author)
Friedrich-Schiller-Universit¨at Jena, Germany
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 (creator_code:org_t)
2005
English.
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  • Reports (other academic/artistic)
Abstract Subject headings
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  • This deliverable specifies use cases based on bioinformatics research carried out by members ofA2. The use cases involve the use of rules to reason over ontologies and pathways (Dresden,Edinburgh, Paris, Linköping) and rules to specify workflows to integrate bioinformatics data (Lisbon, Skövde, Jena, Bucharest). The use cases are designed as a reference point to foster the take up of A2 use cases by I-work packages. Most notably, many of the use cases specify the need for querying and reactivity with languages like Xcerpt (I4), Erus (I5) and Prova (I5). The use cases range from basic research applications to fully deployed software with an international user base.

Subject headings

NATURVETENSKAP  -- Data- och informationsvetenskap -- Datavetenskap (hsv//swe)
NATURAL SCIENCES  -- Computer and Information Sciences -- Computer Sciences (hsv//eng)

Keyword

Use cases
bioinformatics
metabolic pathways
PubMed
GeneOntology
gene expression data
sequence alignment
PDB
SCOP
ontologies
web services
databases
rules
reasoning
XML

Publication and Content Type

vet (subject category)
rap (subject category)

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