SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools
Autor(a) principal: | |
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Data de Publicação: | 2013 |
Outros Autores: | , , , , , , , , , , , , , , , , , , , , , , |
Tipo de documento: | Artigo |
Idioma: | eng |
Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
Texto Completo: | http://hdl.handle.net/10400.7/438 |
Resumo: | Qualitative frameworks, especially those based on the logical discrete formalism, are increasingly used to model regulatory and signalling networks. A major advantage of these frameworks is that they do not require precise quantitative data, and that they are well-suited for studies of large networks. While numerous groups have developed specific computational tools that provide original methods to analyse qualitative models, a standard format to exchange qualitative models has been missing. |
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SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and toolsQualitative frameworks, especially those based on the logical discrete formalism, are increasingly used to model regulatory and signalling networks. A major advantage of these frameworks is that they do not require precise quantitative data, and that they are well-suited for studies of large networks. While numerous groups have developed specific computational tools that provide original methods to analyse qualitative models, a standard format to exchange qualitative models has been missing.Nebraska NASA Space Grant Consortium grant: (“Technology for collaborative biomedical research”), National Institutes of Health grant support: (#5R01DA030962), US National Institute of General Medical Sciences support: (#GM070923), Swiss Federal Government through the Federal Office of Education Science and Innovation (SERI) and the European Commission FP6 project ENFIN (Experimental Network for Functional INtegration–LSHG-CT-2005-518254), FCT grant: (Pest-OE/EEI/LA002), , Federal Ministry of Education and Research (BMBF, Germany) as part of the Virtual Liver Network grants : (0315756, 0315744), EMBL-EBI.BioMed CentralARCAChaouiya, ClaudineBérenguier, DuncanKeating, Sarah MNaldi, Aurélienvan Iersel, Martijn PRodriguez, NicolasDräger, AndreasBüchel, FinjaCokelaer, ThomasKowal, BryanWicks, BenjaminGonçalves, EmanuelDorier, JulienPage, MichelMonteiro, Pedro Tvon Kamp, AxelXenarios, Ioannisde Jong, HiddeHucka, MichaelKlamt, SteffenThieffry, DenisLe Novère, NicolasSaez-Rodriguez, JulioHelikar, Tomáš2015-10-23T15:56:13Z2013-12-102013-12-10T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10400.7/438engChaouiya et al. : SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. BMC Systems Biology 2013 7 :135.10.1186/1752-0509-7-135info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2022-11-29T14:34:49Zoai:arca.igc.gulbenkian.pt:10400.7/438Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-19T16:11:43.623885Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
dc.title.none.fl_str_mv |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
title |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
spellingShingle |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools Chaouiya, Claudine |
title_short |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
title_full |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
title_fullStr |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
title_full_unstemmed |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
title_sort |
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools |
author |
Chaouiya, Claudine |
author_facet |
Chaouiya, Claudine Bérenguier, Duncan Keating, Sarah M Naldi, Aurélien van Iersel, Martijn P Rodriguez, Nicolas Dräger, Andreas Büchel, Finja Cokelaer, Thomas Kowal, Bryan Wicks, Benjamin Gonçalves, Emanuel Dorier, Julien Page, Michel Monteiro, Pedro T von Kamp, Axel Xenarios, Ioannis de Jong, Hidde Hucka, Michael Klamt, Steffen Thieffry, Denis Le Novère, Nicolas Saez-Rodriguez, Julio Helikar, Tomáš |
author_role |
author |
author2 |
Bérenguier, Duncan Keating, Sarah M Naldi, Aurélien van Iersel, Martijn P Rodriguez, Nicolas Dräger, Andreas Büchel, Finja Cokelaer, Thomas Kowal, Bryan Wicks, Benjamin Gonçalves, Emanuel Dorier, Julien Page, Michel Monteiro, Pedro T von Kamp, Axel Xenarios, Ioannis de Jong, Hidde Hucka, Michael Klamt, Steffen Thieffry, Denis Le Novère, Nicolas Saez-Rodriguez, Julio Helikar, Tomáš |
author2_role |
author author author author author author author author author author author author author author author author author author author author author author author |
dc.contributor.none.fl_str_mv |
ARCA |
dc.contributor.author.fl_str_mv |
Chaouiya, Claudine Bérenguier, Duncan Keating, Sarah M Naldi, Aurélien van Iersel, Martijn P Rodriguez, Nicolas Dräger, Andreas Büchel, Finja Cokelaer, Thomas Kowal, Bryan Wicks, Benjamin Gonçalves, Emanuel Dorier, Julien Page, Michel Monteiro, Pedro T von Kamp, Axel Xenarios, Ioannis de Jong, Hidde Hucka, Michael Klamt, Steffen Thieffry, Denis Le Novère, Nicolas Saez-Rodriguez, Julio Helikar, Tomáš |
description |
Qualitative frameworks, especially those based on the logical discrete formalism, are increasingly used to model regulatory and signalling networks. A major advantage of these frameworks is that they do not require precise quantitative data, and that they are well-suited for studies of large networks. While numerous groups have developed specific computational tools that provide original methods to analyse qualitative models, a standard format to exchange qualitative models has been missing. |
publishDate |
2013 |
dc.date.none.fl_str_mv |
2013-12-10 2013-12-10T00:00:00Z 2015-10-23T15:56:13Z |
dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
format |
article |
status_str |
publishedVersion |
dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/10400.7/438 |
url |
http://hdl.handle.net/10400.7/438 |
dc.language.iso.fl_str_mv |
eng |
language |
eng |
dc.relation.none.fl_str_mv |
Chaouiya et al. : SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. BMC Systems Biology 2013 7 :135. 10.1186/1752-0509-7-135 |
dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
eu_rights_str_mv |
openAccess |
dc.format.none.fl_str_mv |
application/pdf |
dc.publisher.none.fl_str_mv |
BioMed Central |
publisher.none.fl_str_mv |
BioMed Central |
dc.source.none.fl_str_mv |
reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
instname_str |
Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
instacron_str |
RCAAP |
institution |
RCAAP |
reponame_str |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
collection |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
repository.name.fl_str_mv |
Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
repository.mail.fl_str_mv |
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1799130572911542272 |