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Article

A multi-agent system for automated genomic annotation

Authors:

Xiaojing Zheng,

Carl SchmidtAuthors Info & Claims

AGENTS '01: Proceedings of the fifth international conference on Autonomous agents

Pages 433 - 440

https://doi.org/10.1145/375735.376407

Published: 28 May 2001 Publication History

Abstract

Massive amounts of raw data are currently being generated by biologists while sequencing organisms. Outside of the largest, high-profile projects such as the Human Genome Project, most of this raw data must be analyzed through the piecemeal application of various computer programs and searches of various public web databases. Due to the inexperience and lack of training, both the raw data and any valuable derived knowledge will remain generally unavailable except in published textual forms.

Multi-agent information gathering systems have a lot to contribute to these efforts, even at the current state of the art. We have used DECAF, a multi-agent system toolkit based on RETSINA and TAEMS, to construct a prototype multi-agent system for automated annotation and database storage of sequencing data for herpesviruses. The resulting system eliminates tedious and always out-of-date hand analyses, makes the data and annotations available for other researchers (or agent systems), and provides a level of query processing beyond even some high-profile web sites.

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Cited By

Ralha CSchneider HWalter MBazzan A(2010)Reinforcement Learning Method for BioAgentsProceedings of the 2010 Eleventh Brazilian Symposium on Neural Networks10.1109/SBRN.2010.27(109-114)Online publication date: 23-Oct-2010
https://dl.acm.org/doi/10.1109/SBRN.2010.27
Dunin-Kȩplicz BVerbrugge R(2010)BibliographyTeamwork in Multi-Agent Systems10.1002/9780470665237.biblio(205-215)Online publication date: 6-May-2010
https://doi.org/10.1002/9780470665237.biblio
Zhengli Zhai (2008)An agent framework integrated with Web Services for Grid computing2008 IEEE International Conference on Automation and Logistics10.1109/ICAL.2008.4636293(982-986)Online publication date: Sep-2008
https://doi.org/10.1109/ICAL.2008.4636293
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Index Terms

A multi-agent system for automated genomic annotation
1. Applied computing
  1. Life and medical sciences
2. Computing methodologies
  1. Artificial intelligence
    1. Distributed artificial intelligence
      1. Multi-agent systems

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cover image ACM Conferences

AGENTS '01: Proceedings of the fifth international conference on Autonomous agents

May 2001

662 pages

ISBN:158113326X

DOI:10.1145/375735

Chairmen:
Elisabeth André
DFKI, Germany
,
Sandip Sen
Univ. of Tulsa,
,
Claude Frasson
Univ. of Montreal, Montreal, P.Q., Canada
,
Jörg P. Müller
Seimens, Germany

Copyright © 2001 ACM.

Permission to make digital or hard copies of all or part of this work for personal or classroom use is granted without fee provided that copies are not made or distributed for profit or commercial advantage and that copies bear this notice and the full citation on the first page. Copyrights for components of this work owned by others than ACM must be honored. Abstracting with credit is permitted. To copy otherwise, or republish, to post on servers or to redistribute to lists, requires prior specific permission and/or a fee. Request permissions from [email protected]

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Published: 28 May 2001

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AGENTS '01 Paper Acceptance Rate 66 of 248 submissions, 27%;

Overall Acceptance Rate 182 of 599 submissions, 30%

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Cited By

Ralha CSchneider HWalter MBazzan A(2010)Reinforcement Learning Method for BioAgentsProceedings of the 2010 Eleventh Brazilian Symposium on Neural Networks10.1109/SBRN.2010.27(109-114)Online publication date: 23-Oct-2010
https://dl.acm.org/doi/10.1109/SBRN.2010.27
Dunin-Kȩplicz BVerbrugge R(2010)BibliographyTeamwork in Multi-Agent Systems10.1002/9780470665237.biblio(205-215)Online publication date: 6-May-2010
https://doi.org/10.1002/9780470665237.biblio
Zhengli Zhai (2008)An agent framework integrated with Web Services for Grid computing2008 IEEE International Conference on Automation and Logistics10.1109/ICAL.2008.4636293(982-986)Online publication date: Sep-2008
https://doi.org/10.1109/ICAL.2008.4636293
Ralha CSchneider HFonseca LWalter MBrígido M(2008)Using BioAgents for Supporting Manual Annotation on Genome Sequencing ProjectsProceedings of the 3rd Brazilian symposium on Bioinformatics: Advances in Bioinformatics and Computational Biology10.1007/978-3-540-85557-6_12(127-139)Online publication date: 28-Aug-2008
https://dl.acm.org/doi/10.1007/978-3-540-85557-6_12
Rodrigues MLuck M(2006)Evaluating dynamic services in bioinformaticsProceedings of the 10th international conference on Cooperative Information Agents10.1007/11839354_14(183-197)Online publication date: 11-Sep-2006
https://dl.acm.org/doi/10.1007/11839354_14
Luck MMcBurney PPreist C(2004)A Manifesto for Agent TechnologyAutonomous Agents and Multi-Agent Systems10.1023/B:AGNT.0000038027.29035.7c9:3(203-252)Online publication date: 1-Nov-2004
https://dl.acm.org/doi/10.1023/B%3AAGNT.0000038027.29035.7c
Karasavvas KBaldock RBurger A(2004)Bioinformatics integration and agent technologyJournal of Biomedical Informatics10.1016/j.jbi.2004.04.00337:3(205-219)Online publication date: 1-Jun-2004
https://dl.acm.org/doi/10.1016/j.jbi.2004.04.003
Moreau LMiles SGoble CGreenwood MDialani VAddis MAlpdemir NCawley RDe Roure DFerris JGaizauskas RGlover KGreenhalgh CLi PXiaojian Liu Lord PLuck MMarvin DOinn TPaton NPettifer SRadenkovic MRoberts ARobinson ARodden TSenger MSharman NStevens RWarboys BWipat AWroe C(2003)On the use of agents in a BioInformatics gridCCGrid 2003. 3rd IEEE/ACM International Symposium on Cluster Computing and the Grid, 2003. Proceedings.10.1109/CCGRID.2003.1199429(653-660)Online publication date: 2003
https://doi.org/10.1109/CCGRID.2003.1199429
Moreau L(2002)Agents for the Grid: A Comparison with Web Services (Part I: Transport Layer)2nd IEEE/ACM International Symposium on Cluster Computing and the Grid (CCGRID'02)10.1109/CCGRID.2002.1017130(220-220)Online publication date: 2002
https://doi.org/10.1109/CCGRID.2002.1017130
Karasavvas KBurger ABaldock R(2002)A Multi-agent Bioinformatics Integration System with Adjustable AutonomyPRICAI 2002: Trends in Artificial Intelligence10.1007/3-540-45683-X_53(492-501)Online publication date: 21-Aug-2002
https://doi.org/10.1007/3-540-45683-X_53
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