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From GeneWeaver to Agmial
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Bryson, K., Luck, Michael (Michael M.), Joy, Mike, Jones, D. T., Nicolas, P., Bessieres, P. and Gibrat, J.-F. (2002) From GeneWeaver to Agmial. In: Network Tools and Applications in Biology Workshop on Agents in Bioinformatics (NETTAB 2002), Bologna, Italy, 12-14 Jul 2002
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Abstract
We report on our experiences of developing two multi-agent systems for bioinformatics called GeneWeaver and Agmial. The concepts behind these systems are described and the results of experimenting with different agent communities are given.
The GeneWeaver system provides one possible view of an architecture which may be used to deal with organizing and managing bioinformatics data and methods in a distributed, dynamic environment. Experiments with the GeneWeaver system reveal benefits both in terms of keeping data up-todate, and also in terms of analysis method accuracy.
However, one clear limitation of the GeneWeaver system is that it has never actually been deployed as an open system between laboratories. A number of reasons exist for this lack of true open deployment. These include the lack of mechanisms to deal appropriately with security and trust between agents, and the lack of a standard, widely adopted agent communication language for inter-agent communication.
Some of these aspects are considered in the second system, called Agmial, which is currently under development.
It uses some of the standards and technologies which have arisen since the development of GeneWeaver to provide a system which, at least theoretically, could provide the basis for an open community of bioinformatics agents. Its approach is one based on the Web services framework, each agent being deployed as a Java servlet, using XML Protocol for inter-agent communication and HTTP for human-agent communication.
Item Type: | Conference Item (Paper) | ||||
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Subjects: | Q Science > QA Mathematics > QA76 Electronic computers. Computer science. Computer software Q Science > QH Natural history > QH426 Genetics |
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Divisions: | Faculty of Science, Engineering and Medicine > Science > Computer Science | ||||
Library of Congress Subject Headings (LCSH): | Bioinformatics, Computational biology, Multiagent systems, Intelligent agents (Computer software) | ||||
Official Date: | 2002 | ||||
Dates: |
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Status: | Peer Reviewed | ||||
Publication Status: | Published | ||||
Funder: | Engineering and Physical Sciences Research Council (EPSRC), Biotechnology and Biological Sciences Research Council (Great Britain) (BBSRC) | ||||
Conference Paper Type: | Paper | ||||
Title of Event: | Network Tools and Applications in Biology Workshop on Agents in Bioinformatics (NETTAB 2002) | ||||
Type of Event: | Workshop | ||||
Location of Event: | Bologna, Italy | ||||
Date(s) of Event: | 12-14 Jul 2002 | ||||
Related URLs: |
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