A brief history of COMBINE
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Gary D. Bader | Chris J. Myers | Gary D Bader | Nicolas Le Novère | David P. Nickerson | Dagmar Waltemath | Michael Hucka | Falk Schreiber | Padraig Gleeson | Martin Golebiewski | N. Novère | M. Hucka | D. Nickerson | F. Schreiber | P. Gleeson | C. Myers | Dagmar Waltemath | Martin Golebiewski
[1] Michael L. Hines,et al. NeuroML: A Language for Describing Data Driven Models of Neurons and Networks with a High Degree of Biological Detail , 2010, PLoS Comput. Biol..
[2] Nicolas Le Novère,et al. Identifiers.org and MIRIAM Registry: community resources to provide persistent identification , 2011, Nucleic Acids Res..
[3] Michael L. Hines,et al. The NEURON Book , 2006 .
[4] Gary D. Bader,et al. Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative , 2015, Front. Bioeng. Biotechnol..
[5] James M. Bower,et al. The book of GENESIS - exploring realistic neural models with the GEneral NEural models SImulation system , 1995 .
[6] Nicolas Le Novère,et al. Systems Biology Graphical Notation: Entity Relationship language Level 1 (Version 1.2) , 2011 .
[7] Chris T. A. Evelo,et al. The systems biology format converter , 2016, BMC Bioinformatics.
[8] Sarala M. Wimalaratne,et al. The Systems Biology Graphical Notation , 2009, Nature Biotechnology.
[9] Gary D Bader,et al. Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2016 , 2016, Journal of integrative bioinformatics.
[10] Nicolas Le Novère,et al. COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project , 2014, BMC Bioinformatics.
[11] C. Sander,et al. The HUPO PSI's Molecular Interaction format—a community standard for the representation of protein interaction data , 2004, Nature Biotechnology.
[12] Nicolas Le Novère,et al. Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2 , 2015, Journal of integrative bioinformatics.
[13] Peter J Hunter,et al. Modular modelling with Physiome standards , 2016, The Journal of physiology.
[14] Andreas Zell,et al. JSBML: a flexible Java library for working with SBML , 2011, Bioinform..
[15] Edda Klipp,et al. Biochemical network models simplified by balanced truncation , 2005, The FEBS journal.
[16] Kei-Hoi Cheung,et al. BioPAX – A community standard for pathway data sharing , 2010, Nature Biotechnology.
[17] Nicolas Le Novère,et al. Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3 , 2011, J. Integr. Bioinform..
[18] Hiroaki Kitano,et al. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..
[19] Andreas Zell,et al. Qualitative translation of relations from BioPAX to SBML qual , 2012, Bioinform..
[20] Zhen Zhang,et al. Sharing Structure and Function in Biological Design with SBOL 2.0. , 2016, ACS synthetic biology.
[21] Matthew R. Pocock,et al. VisBOL: Web-Based Tools for Synthetic Biology Design Visualization. , 2016, ACS synthetic biology.
[22] Chris J. Myers,et al. Toward community standards and software for whole-cell modeling , 2016, IEEE Transactions on Biomedical Engineering.
[23] Galdzicki Michal,et al. SBOL: A community standard for communicating designs in synthetic biology , 2013 .
[24] Nicolas Le Novère,et al. Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2 , 2015, J. Integr. Bioinform..
[25] Peter J. Hunter,et al. Revision history aware repositories of computational models of biological systems , 2011, BMC Bioinformatics.
[26] Andrew P. Davison,et al. libNeuroML and PyLEMS: using Python to combine procedural and declarative modeling approaches in computational neuroscience , 2014, Front. Neuroinform..
[27] Matthew W. Lux,et al. Essential information for synthetic DNA sequences , 2011, Nature Biotechnology.
[28] Timothy S. Ham,et al. Design, implementation and practice of JBEI-ICE: an open source biological part registry platform and tools , 2012, Nucleic acids research.
[29] Jacky L. Snoep,et al. Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language , 2011, BMC Systems Biology.
[30] Michael Hucka,et al. LibSBML: an API Library for SBML , 2008, Bioinform..
[31] Nigel H. Goddard,et al. Towards NeuroML: model description methods for collaborative modelling in neuroscience. , 2001, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.
[32] Edmund J. Crampin,et al. Minimum Information About a Simulation Experiment (MIASE) , 2011, PLoS Comput. Biol..
[33] Ted W. Faison,et al. Component Based Development With Visual C , 2002 .
[34] Robert C. Cannon,et al. LEMS: a language for expressing complex biological models in concise and hierarchical form and its use in underpinning NeuroML 2 , 2014, Front. Neuroinform..
[35] Chris J Myers,et al. A Converter from the Systems Biology Markup Language to the Synthetic Biology Open Language. , 2016, ACS synthetic biology.
[36] Zhen Zhang,et al. Generating Systems Biology Markup Language Models from the Synthetic Biology Open Language. , 2015, ACS synthetic biology.
[37] Ronan M. T. Fleming,et al. A community-driven global reconstruction of human metabolism , 2013, Nature Biotechnology.
[38] Chris J Myers,et al. A methodology to annotate systems biology markup language models with the synthetic biology open language. , 2014, ACS synthetic biology.
[39] Yukiko Matsuoka,et al. Software support for SBGN maps: SBGN-ML and LibSBGN , 2012, Bioinform..
[40] R. Durbin,et al. The Sequence Ontology: a tool for the unification of genome annotations , 2005, Genome Biology.
[41] Nigel H. Goddard,et al. Linking computational neuroscience simulation tools - a pragmatic approach to component-based development , 2003, Neurocomputing.
[42] Matthew R. Pocock,et al. The SBOL Stack: A Platform for Storing, Publishing, and Sharing Synthetic Biology Designs. , 2016, ACS synthetic biology.
[43] Peter J. Hunter,et al. The CellML Metadata Framework 2.0 Specification , 2015, J. Integr. Bioinform..
[44] Michel Dumontier,et al. Controlled vocabularies and semantics in systems biology , 2011, Molecular systems biology.
[45] Jacob Beal,et al. Proposed data model for the next version of the synthetic biology open language. , 2015, ACS synthetic biology.
[46] Nicolas Le Novère,et al. BioModels Database: a repository of mathematical models of biological processes. , 2013, Methods in molecular biology.
[47] Peter J. Hunter,et al. An Overview of CellML 1.1, a Biological Model Description Language , 2003, Simul..
[48] James M. Bower,et al. The Book of GENESIS , 1994, Springer New York.
[49] Peter J. Hunter,et al. Bioinformatics Applications Note Databases and Ontologies the Physiome Model Repository 2 , 2022 .
[50] Matthew R. Pocock,et al. SBOL Visual: A Graphical Language for Genetic Designs , 2015, PLoS biology.
[51] Zhen Zhang,et al. Synthetic Biology Open Language (SBOL) Version 2.0.0. , 2015, Journal of integrative bioinformatics.