The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core

Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML...
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Autor*in:	Hucka Michael [verfasserIn] Bergmann Frank T. [verfasserIn] Dräger Andreas [verfasserIn] Hoops Stefan [verfasserIn] Keating Sarah M. [verfasserIn] Le Novère Nicolas [verfasserIn] Myers Chris J. [verfasserIn] Olivier Brett G. [verfasserIn] Sahle Sven [verfasserIn] Schaff James C. [verfasserIn] Smith Lucian P. [verfasserIn] Waltemath Dagmar [verfasserIn] Wilkinson Darren J. [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2018

Schlagwörter:	sbml modeling standards

Übergeordnetes Werk:	In: Journal of Integrative Bioinformatics - De Gruyter, 2018, 15(2018), 1
Übergeordnetes Werk:	volume:15 ; year:2018 ; number:1

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.1515/jib-2017-0080

Katalog-ID:	DOAJ060026685

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allfields	10.1515/jib-2017-0080 doi (DE-627)DOAJ060026685 (DE-599)DOAJ3192135e252e4b9cac0e17037b36f922 DE-627 ger DE-627 rakwb eng TP248.13-248.65 Hucka Michael verfasserin aut The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/. sbml modeling standards Biotechnology Bergmann Frank T. verfasserin aut Dräger Andreas verfasserin aut Hoops Stefan verfasserin aut Keating Sarah M. verfasserin aut Le Novère Nicolas verfasserin aut Myers Chris J. verfasserin aut Olivier Brett G. verfasserin aut Sahle Sven verfasserin aut Schaff James C. verfasserin aut Smith Lucian P. verfasserin aut Waltemath Dagmar verfasserin aut Wilkinson Darren J. verfasserin aut In Journal of Integrative Bioinformatics De Gruyter, 2018 15(2018), 1 (DE-627)388546603 (DE-600)2147212-9 16134516 nnns volume:15 year:2018 number:1 https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/article/3192135e252e4b9cac0e17037b36f922 kostenfrei https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/toc/1613-4516 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 15 2018 1
spelling	10.1515/jib-2017-0080 doi (DE-627)DOAJ060026685 (DE-599)DOAJ3192135e252e4b9cac0e17037b36f922 DE-627 ger DE-627 rakwb eng TP248.13-248.65 Hucka Michael verfasserin aut The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/. sbml modeling standards Biotechnology Bergmann Frank T. verfasserin aut Dräger Andreas verfasserin aut Hoops Stefan verfasserin aut Keating Sarah M. verfasserin aut Le Novère Nicolas verfasserin aut Myers Chris J. verfasserin aut Olivier Brett G. verfasserin aut Sahle Sven verfasserin aut Schaff James C. verfasserin aut Smith Lucian P. verfasserin aut Waltemath Dagmar verfasserin aut Wilkinson Darren J. verfasserin aut In Journal of Integrative Bioinformatics De Gruyter, 2018 15(2018), 1 (DE-627)388546603 (DE-600)2147212-9 16134516 nnns volume:15 year:2018 number:1 https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/article/3192135e252e4b9cac0e17037b36f922 kostenfrei https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/toc/1613-4516 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 15 2018 1
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allfieldsGer	10.1515/jib-2017-0080 doi (DE-627)DOAJ060026685 (DE-599)DOAJ3192135e252e4b9cac0e17037b36f922 DE-627 ger DE-627 rakwb eng TP248.13-248.65 Hucka Michael verfasserin aut The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/. sbml modeling standards Biotechnology Bergmann Frank T. verfasserin aut Dräger Andreas verfasserin aut Hoops Stefan verfasserin aut Keating Sarah M. verfasserin aut Le Novère Nicolas verfasserin aut Myers Chris J. verfasserin aut Olivier Brett G. verfasserin aut Sahle Sven verfasserin aut Schaff James C. verfasserin aut Smith Lucian P. verfasserin aut Waltemath Dagmar verfasserin aut Wilkinson Darren J. verfasserin aut In Journal of Integrative Bioinformatics De Gruyter, 2018 15(2018), 1 (DE-627)388546603 (DE-600)2147212-9 16134516 nnns volume:15 year:2018 number:1 https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/article/3192135e252e4b9cac0e17037b36f922 kostenfrei https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/toc/1613-4516 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 15 2018 1
allfieldsSound	10.1515/jib-2017-0080 doi (DE-627)DOAJ060026685 (DE-599)DOAJ3192135e252e4b9cac0e17037b36f922 DE-627 ger DE-627 rakwb eng TP248.13-248.65 Hucka Michael verfasserin aut The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/. sbml modeling standards Biotechnology Bergmann Frank T. verfasserin aut Dräger Andreas verfasserin aut Hoops Stefan verfasserin aut Keating Sarah M. verfasserin aut Le Novère Nicolas verfasserin aut Myers Chris J. verfasserin aut Olivier Brett G. verfasserin aut Sahle Sven verfasserin aut Schaff James C. verfasserin aut Smith Lucian P. verfasserin aut Waltemath Dagmar verfasserin aut Wilkinson Darren J. verfasserin aut In Journal of Integrative Bioinformatics De Gruyter, 2018 15(2018), 1 (DE-627)388546603 (DE-600)2147212-9 16134516 nnns volume:15 year:2018 number:1 https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/article/3192135e252e4b9cac0e17037b36f922 kostenfrei https://doi.org/10.1515/jib-2017-0080 kostenfrei https://doaj.org/toc/1613-4516 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 15 2018 1
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title_auth	The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core
abstract	Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/.
abstractGer	Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/.
abstract_unstemmed	Computational models can help researchers to interpret data, understand biological functions, and make quantitative predictions. The Systems Biology Markup Language (SBML) is a file format for representing computational models in a declarative form that different software systems can exchange. SBML is oriented towards describing biological processes of the sort common in research on a number of topics, including metabolic pathways, cell signaling pathways, and many others. By supporting SBML as an input/output format, different tools can all operate on an identical representation of a model, removing opportunities for translation errors and assuring a common starting point for analyses and simulations. This document provides the specification for Release 2 of Version 1 of SBML Level 3 Core. The specification defines the data structures prescribed by SBML, their encoding in XML (the eXtensible Markup Language), validation rules that determine the validity of an SBML document, and examples of models in SBML form. No design changes have been made to the description of models between Release 1 and Release 2; changes are restricted to the format of annotations, the correction of errata and the addition of clarifications. Other materials and software are available from the SBML project website at http://sbml.org/.
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