Systems Biology Graphical Notation: Entity Relationship language Level 1
Correspondence: (Login to view email address)
- EMBL-EBI
- CSBE, University of Edinburgh, UK
- University of Edinburgh, UK
- IPK Gatersleben and University of Halle, DE
- SRI International, USA
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- Document Type:
- Manuscript
- Date:
- Received 06 October 2010 09:53 UTC; Posted 06 October 2010
- Subjects:
- Bioinformatics, Data Standards
- Abstract:
Standard graphical representations have played a crucial role in science and engineering throughout the last century. Without electrical symbolism, it is very likely that our industrial society would not have evolved at the same pace. Similarly, specialised notations such as the Feynmann notation or the process flow diagrams did a lot for the adoption of concepts in their own fields. With the advent of Systems Biology, and more recently of Synthetic Biology, the need for precise and unambiguous descriptions of biochemical interactions has become more pressing. While some ideas have been advanced over the last decade, with a few detailed proposals, no actual community standard has emerged. The Systems Biology Graphical Notation (SBGN) is a graphical representation crafted over several years by a community of biochemists, modellers and computer scientists. Three orthogonal and complementary languages have been created, the Process Descriptions, the Entity Relationships and the Activity Flows. Using these three idioms a scientist can represent any network of biochemical interactions, which can then be interpreted in an unambiguous way. The set of symbols used is limited, and the grammar quite simple, to allow its usage in textbooks and its teaching directly in high schools. The first level of the SBGN Entity Relationship language has been publicly released. Shared by the communities of biochemists, genomicians, theoreticians and computational biologists, SBGN languages will foster efficient storage, exchange and reuse of information on signalling pathways, metabolic networks and gene regulatory maps.
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- This document is licensed to the public under the Creative Commons Attribution 3.0 License
- How to cite this document:
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Le Novère, Nicolas, Moodie, Stuart, Sorokin, Anatoly, Schreiber, Falk, and Mi, Huaiyu. Systems Biology Graphical Notation: Entity Relationship language Level 1. Available from Nature Precedings <http://dx.doi.org/10.1038/npre.2010.3719.2> (2010)
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Other versions of this document in Nature Precedings
Version number Document title Date v1 Posted 04 September 2009 Other versions of this document elsewhere on the web
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