The Systems Biology Graphical Notation.

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TitleThe Systems Biology Graphical Notation.
Publication TypeJournal Article
Year of Publication2009
AuthorsLe Novère, N, Hucka, M, Mi, H, Moodie, S, Schreiber, F, Sorokin, A, Demir, E, Wegner, K, Aladjem, MI, Wimalaratne, SM, Bergman, FT, Gauges, R, Ghazal, P, Kawaji, H, Li, L, Matsuoka, Y, Villeger, A, Boyd, SE, Calzone, L, Courtot, M, Dogrusoz, U, Freeman, TC, Funahashi, A, Ghosh, S, Jouraku, A, Kim, S, Kolpakov, F, Luna, A, Sahle, S, Schmidt, E, Watterson, S, Wu, G, Goryanin, I, Kell, DB, Sander, C, Sauro, H, Snoep, JL, Kohn, K, Kitano, H
JournalNat Biotechnol
Volume27
Issue8
Pagination735-41
Date Published2009 Aug
ISSN1546-1696
KeywordsComputer Graphics, History, 20th Century, Internet, Software, Systems Biology
Abstract

<p>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.</p>

DOI10.1038/nbt.1558
Alternate JournalNat. Biotechnol.
PubMed ID19668183
Grant List1R01GM081070-01 / GM / NIGMS NIH HHS / United States
BB/F010516/1 / / Biotechnology and Biological Sciences Research Council / United Kingdom
ETM/202 / / Chief Scientist Office / United Kingdom
/ / Biotechnology and Biological Sciences Research Council / United Kingdom
/ / Intramural NIH HHS / United States