A critical review on modelling formalisms and simulation tools in computational biosystems
10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings, Part II
| Main Authors: | , , , , , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
| Published: |
Springer Berlin / Heidelberg
2012
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| Online Access: | http://hdl.handle.net/1721.1/73902 https://orcid.org/0000-0002-3320-3969 |
| _version_ | 1826201733732237312 |
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| author | Machado, Daniel Costa, Rafael S. Rocha, Miguel Rocha, Isabel Tidor, Bruce Ferreira, Eugenio C. |
| author2 | Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory |
| author_facet | Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Machado, Daniel Costa, Rafael S. Rocha, Miguel Rocha, Isabel Tidor, Bruce Ferreira, Eugenio C. |
| author_sort | Machado, Daniel |
| collection | MIT |
| description | 10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings, Part II |
| first_indexed | 2024-09-23T11:56:15Z |
| format | Article |
| id | mit-1721.1/73902 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T11:56:15Z |
| publishDate | 2012 |
| publisher | Springer Berlin / Heidelberg |
| record_format | dspace |
| spelling | mit-1721.1/739022022-10-01T07:04:08Z A critical review on modelling formalisms and simulation tools in computational biosystems Machado, Daniel Costa, Rafael S. Rocha, Miguel Rocha, Isabel Tidor, Bruce Ferreira, Eugenio C. Massachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratory Massachusetts Institute of Technology. Department of Biological Engineering Tidor, Bruce 10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings, Part II Integration of different kinds of biological processes is an ultimate goal for whole-cell modelling. We briefly review modelling formalisms that have been used in Systems Biology and identify the criteria that must be addressed by an integrating framework capable of modelling, analysing and simulating different biological networks. Aware that no formalism can fit all purposes we realize Petri nets as a suitable model for Metabolic Engineering and take a deeper perspective on the role of this formalism as an integrating framework for regulatory and metabolic networks. Fundação para a Ciência e a Tecnologia (PhD grant SFRH/BD/35215/2007) MIT-Portugal Program 2012-10-11T20:17:28Z 2012-10-11T20:17:28Z 2009-06 2009-06 Article http://purl.org/eprint/type/ConferencePaper 978-3-642-02480-1 0302-9743 1611-3349 http://hdl.handle.net/1721.1/73902 Machado, Daniel et al. “A Critical Review on Modelling Formalisms and Simulation Tools in Computational Biosystems.” Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living. Ed. Sigeru Omatu et al. LNCS Vol. 5518. Berlin, Heidelberg: Springer Berlin Heidelberg, 2009. 1063–1070. https://orcid.org/0000-0002-3320-3969 en_US http://dx.doi.org/10.1007/978-3-642-02481-8_161 Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living Creative Commons Attribution-Noncommercial-Share Alike 3.0 http://creativecommons.org/licenses/by-nc-sa/3.0/ application/pdf Springer Berlin / Heidelberg Other Repository |
| spellingShingle | Machado, Daniel Costa, Rafael S. Rocha, Miguel Rocha, Isabel Tidor, Bruce Ferreira, Eugenio C. A critical review on modelling formalisms and simulation tools in computational biosystems |
| title | A critical review on modelling formalisms and simulation tools in computational biosystems |
| title_full | A critical review on modelling formalisms and simulation tools in computational biosystems |
| title_fullStr | A critical review on modelling formalisms and simulation tools in computational biosystems |
| title_full_unstemmed | A critical review on modelling formalisms and simulation tools in computational biosystems |
| title_short | A critical review on modelling formalisms and simulation tools in computational biosystems |
| title_sort | critical review on modelling formalisms and simulation tools in computational biosystems |
| url | http://hdl.handle.net/1721.1/73902 https://orcid.org/0000-0002-3320-3969 |
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