8.15: news.adda/SBGN notation:
. an effort to standardize the graphical notation
used in diagrams of biochemical and cellular processes
studied in systems biology.
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Standard graphical representations have played a crucial role inscience and engineering throughout the last century.Without electrical symbolism,it is very likely that our industrial societywould not have evolved at the same pace.Similarly, specialised notations such as the Feynmann notationor the process flow diagrams did a lot for the adoption ofconcepts 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 interactionshas 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 yearsby a community of biochemists, modellers and computer scientists.Three orthogonal and complementary languages have been created,the Process Diagrams,the Entity Relationship Diagramsand the Activity Flow Diagrams.Using these three idiomsa 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 Process Diagram has been publicly released.Software support for SBGN Process Diagram was developed concurrentlywith its specification in order to speed-up public adoption.Shared by the communities ofbiochemists, genomicians, theoreticians and computational biologists,SBGN languages will foster efficient storage, exchange and reuseof information on signalling pathways, metabolic networksand gene regulatory maps.
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