The systems biology graphical notation

Novère, Nicolas Le, Hucka, Michael, Mi, Huaiyu, Moodie, Stuart, Schreiber, Falk, Sorokin, Anatoly, Demir, Emek, Wegner, Katja, Aladjem, Mirit I, Wimalaratne, Sarala M, Bergman, Frank T, Gauges, Ralph, Ghazal, Peter ORCID: https://orcid.org/0000-0003-0035-2228, Kawaji, Hideya, Li, Lu, Matsuoka, Yukiko, Villéger, Alice, Boyd, Sarah E, Calzone, Laurence, Courtot, Melanie, Dogrusoz, Ugur, Freeman, Tom C, Funahashi, Akira, Ghosh, Samik, Jouraku, Akiya, Kim, Sohyoung, Kolpakov, Fedor, Luna, Augustin, Sahle, Sven, Schmidt, Esther, Watterson, Steven, Wu, Guanming, Goryanin, Igor, Kell, Douglas B, Sander, Chris, Sauro, Herbert, Snoep, Jacky L, Kohn, Kurt and Kitano, Hiroaki 2009. The systems biology graphical notation. Nature Biotechnology 27 (8) , pp. 735-741. 10.1038/nbt.1558

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Abstract

Circuit diagrams and Unified Modeling Language diagrams are just two examples of standard visual languages that help accelerate work by promoting regularity, removing ambiguity and enabling software tool support for communication of complex information. Ironically, despite having one of the highest ratios of graphical to textual information, biology still lacks standard graphical notations. The recent deluge of biological knowledge makes addressing this deficit a pressing concern. Toward this goal, we present the Systems Biology Graphical Notation (SBGN), a visual language developed by a community of biochemists, modelers and computer scientists. SBGN consists of three complementary languages: process diagram, entity relationship diagram and activity flow diagram. Together they enable scientists to represent networks of biochemical interactions in a standard, unambiguous way. We believe that SBGN will foster efficient and accurate representation, visualization, storage, exchange and reuse of information on all kinds of biological knowledge, from gene regulation, to metabolism, to cellular signaling.

Item Type:	Article
Date Type:	Publication
Status:	Published
Schools:	Medicine
Additional Information:	An erratum to this article was published on September 1st 2009, corrected online 9th September 2009
Publisher:	Nature Publishing Group
ISSN:	1087-0156
Last Modified:	23 Oct 2022 14:17
URI:	https://orca.cardiff.ac.uk/id/eprint/113272

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