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Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2

Huaiyu Mi, Falk Schreiber, Stuart Moodie, Tobias Czauderna, Emek Demir, Robin Haw, Augustin Luna, Nicolas Le Novère, Anatoly Sorokin, Alice Villéger
2015 Journal of Integrative Bioinformatics  
Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels  ...  SummaryThe Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks.  ...  The Okinawa Institute of Science and Technology (OIST, http://www.oist.jp/), the AIST Computational Biology Research Center (AIST CBRC, http://www.cbrc.jp/index.eng.html), the British Biotechnology and  ... 
doi:10.1515/jib-2015-265 fatcat:ww5rdtuh25dptjh7xj4glfqclq

Systems Biology Graphical Notation: Activity Flow language Level 1 Version 1.2

Huaiyu Mi, Falk Schreiber, Stuart Moodie, Tobias Czauderna, Emek Demir, Robin Haw, Augustin Luna, Nicolas Le Novère, Anatoly Sorokin, Alice Villéger
2015 Journal of Integrative Bioinformatics  
Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels  ...  The Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks.  ...  Acknowledgments Here we acknowledge those people and organisations the assisted in the development of this and previous releases of the SBGN Activity Flow language specification.  ... 
doi:10.2390/biecoll-jib-2015-265 pmid:26528563 fatcat:mbj52eojvnczpgijggp4zdbp54

Systems biology graphical notation markup language (SBGNML) version 0.3

Frank T Bergmann, Tobias Czauderna, Ugur Dogrusoz, Adrien Rougny, Andreas Dräger, Vasundra Touré, Alexander Mazein, Michael L Blinov, Augustin Luna
2020 Journal of Integrative Bioinformatics  
This document defines Version 0.3 Markup Language (ML) support for the Systems Biology Graphical Notation (SBGN), a set of three complementary visual languages developed for biochemists, modelers, and  ...  These changes enable a more efficient exchange of data to other commonly used systems biology formats (e. g., BioPAX and SBML) and between tools supporting SBGN (e. g., CellDesigner, Newt, Krayon, SBGN-ED  ...  Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2.  ... 
doi:10.1515/jib-2020-0016 pmid:32568733 fatcat:6qacc7kmnbgqjb527bxuqh6l7y

Design considerations for representing systems biology information with the Systems Biology Graphical Notation

Falk Schreiber, Tobias Czauderna
2022 Journal of Integrative Bioinformatics  
Using the example of the Systems Biology Graphical Notation (SBGN) we will investigate design considerations for graphically presenting information from systems biology, in particular regarding the use  ...  Visual representations are commonly used to explore, analyse, and communicate information and knowledge in systems biology and beyond.  ...  1 Version 2.0 [22] ) -Activity Flow to show influences between entities (current standard: SBGN Activity Flow Level 1 Version 1.2 [23] ) The SBGN map in Figure 3 shows major parts of the network of  ... 
doi:10.1515/jib-2022-0024 pmid:35786424 pmcid:PMC9377698 fatcat:wpawq3olb5fk5octxjare5z2jm

Systems Biology Graphical Notation: Process Diagram Level 1

Nicolas Le Novere, Stuart Moodie, Anatoly Sorokin, Michael Hucka, Falk Schreiber, Emek Demir, Huaiyu Mi, Yukiko Matsuoka, Katja Wegner, Hiroaki Kitano
2008 Nature Precedings  
Preface Chapter 1 What is the Systems Biology Graphical Notation?  ...  The goal of the Systems Biology Graphical Notation (SBGN) is to standardize the graphical/visual representation of essential biochemical and cellular processes studied in systems biology.  ...  a more comprehensive list of person who have been actively involved in SBGN development, either by their help designing the languages, their comments on the specification, help with development infrastructure  ... 
doi:10.1038/npre.2008.2320.1 fatcat:ll5txteb6vcthnrcefpltzt43m

Systems Biology Graphical Notation: Process Description language Level 1

Stuart Moodie, Nicolas Le Novere, Anatoly Sorokin, Huaiyu Mi, Falk Schreiber
2009 Nature Precedings  
uncertain process association dissociation Target EPN Reference Nodes N:5 Below are the changes incorporated into Version 1.2 of the SBGN Process Description Level 1 specification.Below are  ...  Process Description Language Grammar Overview One of the goals of SBGN Process Description Level 1 is to provide a visual description of biological systems that can accurately and unambiguously convey  ...  Level 1 Release 1.1 The specification of SBGN PD Level Level 1 Release 1.2 The specification of SBGN PD Level 1.2 was modified by Stuart Moodie, with contributions from (in alphabetical order) Sarah  ... 
doi:10.1038/npre.2009.3721.1 fatcat:laqk6dvxl5dwbgjlkeyupesnga

Systems Biology Graphical Notation: Process Description language Level 1

Stuart Moodie, Stuart Moodie, Nicolas Le Novere, Emek Demir, Huaiyu Mi, Alice Villeger
2011 Nature Precedings  
uncertain process association dissociation Target EPN Reference Nodes N:5 Below are the changes incorporated into Version 1.2 of the SBGN Process Description Level 1 specification.Below are  ...  Process Description Language Grammar Overview One of the goals of SBGN Process Description Level 1 is to provide a visual description of biological systems that can accurately and unambiguously convey  ...  Level 1 Release 1.1 The specification of SBGN PD Level Level 1 Release 1.2 The specification of SBGN PD Level 1.2 was modified by Stuart Moodie, with contributions from (in alphabetical order) Sarah  ... 
doi:10.1038/npre.2011.3721.4 fatcat:ty5fbdn6rrb6viuqt7yg6ghjru

Systems Biology Graphical Notation: Process Description language Level 1

Stuart Moodie, Stuart Moodie, Nicolas Le Novere, Anatoly Sorokin, Huaiyu Mi, Falk Schreiber
2009 Nature Precedings  
uncertain process association dissociation Target EPN Reference Nodes N:5 Below are the changes incorporated into Version 1.2 of the SBGN Process Description Level 1 specification.Below are  ...  Process Description Language Grammar Overview One of the goals of SBGN Process Description Level 1 is to provide a visual description of biological systems that can accurately and unambiguously convey  ...  Level 1 Release 1.1 The specification of SBGN PD Level Level 1 Release 1.2 The specification of SBGN PD Level 1.2 was modified by Stuart Moodie, with contributions from (in alphabetical order) Sarah  ... 
doi:10.1038/npre.2009.3721 fatcat:h3oykumim5h4nmbcigb7p5hxeq

Systems Biology Graphical Notation: Process Description language Level 1

Stuart Moodie, Nicolas Le Novere, Emek Demir, Huaiyu Mi, Falk Schreiber
2011 Nature Precedings  
uncertain process association dissociation Target EPN Reference Nodes N:5 Below are the changes incorporated into Version 1.2 of the SBGN Process Description Level 1 specification.Below are  ...  Process Description Language Grammar Overview One of the goals of SBGN Process Description Level 1 is to provide a visual description of biological systems that can accurately and unambiguously convey  ...  Level 1 Release 1.1 The specification of SBGN PD Level Level 1 Release 1.2 The specification of SBGN PD Level 1.2 was modified by Stuart Moodie, with contributions from (in alphabetical order) Sarah  ... 
doi:10.1038/npre.2011.3721.3 fatcat:szir5ozfqrb77kylksoozxvohq

Systems Biology Graphical Notation: Process Description language Level 1

Stuart Moodie, Nicolas Le Novere, Emek Demir, Huaiyu Mi, Falk Schreiber
2010 Nature Precedings  
uncertain process association dissociation Target EPN Reference Nodes N:5 Below are the changes incorporated into Version 1.2 of the SBGN Process Description Level 1 specification.  ...  SBGN levels and versions It was clear at the outset of SBGN development that it would be impossible to design a perfect and complete notation right from the beginning.  ...  Level 1 Release 1.1 The specification of SBGN PD Level Level 1 Release 1.2 The specification of SBGN PD Level 1.2 was modified by Stuart Moodie, with contributions from (in alphabetical order) Sarah  ... 
doi:10.1038/npre.2010.3721.2 fatcat:64ubulaowretpd747ybqkd6vbq

Systems Biology Graphical Notation: Process Description language Level 1 Version 2.0

Adrien Rougny, Vasundra Touré, Stuart Moodie, Irina Balaur, Tobias Czauderna, Hanna Borlinghaus, Ugur Dogrusoz, Alexander Mazein, Andreas Dräger, Michael L. Blinov, Alice Villéger, Robin Haw (+5 others)
2019 Journal of Integrative Bioinformatics  
SBGN comprises the three languages Entity Relationship, Activity Flow, and Process Description (PD) to cover biological and biochemical systems at distinct levels of detail.  ...  The Systems Biology Graphical Notation (SBGN) is an international community effort that aims to standardise the visualisation of pathways and networks for readers with diverse scientific backgrounds as  ...  The Activity Flow language permits the description of the flow of activity in a biological system.  ... 
doi:10.1515/jib-2019-0022 pmid:31199769 pmcid:PMC6798820 fatcat:mypfccavera7jmy3iz2vk6sqny

Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3

Stuart Moodie, Nicolas Le Novère, Emek Demir, Huaiyu Mi, Alice Villéger
2015 Journal of Integrative Bioinformatics  
Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels  ...  SummaryThe Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks.  ...  The Systems Biology Graphical Notation.  ... 
doi:10.1515/jib-2015-263 fatcat:gvlbwb6aurhm3o2i7qpxw2yphi

Systems Biology Graphical Notation: Process Description language Level 1 Version 1.3

Stuart Moodie, Nicolas Le Novère, Emek Demir, Huaiyu Mi, Alice Villéger
2015 Journal of Integrative Bioinformatics  
Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels  ...  The Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks.  ...  The Systems Biology Graphical Notation.  ... 
doi:10.2390/biecoll-jib-2015-263 pmid:26528561 fatcat:eajulue4vfgaxik4frxys6tm6q

Systems Biology Graphical Notation: Entity Relationship language Level 1 Version 2

Anatoly Sorokin, Nicolas Le Novère, Augustin Luna, Tobias Czauderna, Emek Demir, Robin Haw, Huaiyu Mi, Stuart Moodie, Falk Schreiber, Alice Villéger
2015 Journal of Integrative Bioinformatics  
Three SBGN languages, Process Description (PD), Entity Relationship (ER) and Activity Flow (AF), allow for the representation of different aspects of biological and biochemical systems at different levels  ...  SummaryThe Systems Biological Graphical Notation (SBGN) is an international community effort for standardized graphical representations of biological pathways and networks.  ...  Chapter 1 Introduction The goal of the Systems Biology Graphical Notation (SBGN) is to standardize the graphical/visual representation of essential biochemical and cellular processes.  ... 
doi:10.1515/jib-2015-264 fatcat:bd5qqsh42zhlhakhalivr3zi24

Methoden und Algorithmen für die Systems Biology Graphical Notation [article]

Tobias Czauderna, Universitäts- Und Landesbibliothek Sachsen-Anhalt, Martin-Luther Universität, Schreiber, Falk, Prof. Dr., Kummer, Ursula, Prof. Dr.
2018
The Systems Biology Graphical Notation (SBGN) is a standard for the visual representation of processes and networks in systems biology.  ...  Die Systems Biology Graphical Notation (SBGN) ist ein Standard für die visuelle Darstellung von Prozessen und Netzwerken in der Systembiologie.  ...  , Level 1 Version 1.2 für die Entity Relationship-Sprache und Level 1 Version 1.0 für die Activity Flow-Sprache).  ... 
doi:10.25673/1416 fatcat:cehoeh37evcthgodz623jyiyue
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