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Systems biology graphical notation markup language (SBGNML) version 0.3 by Bergmann, Frank T. ;Czauderna, Tobias ;Dogrusoz, Ugur ;Rougny, Adrien ;Dräger, Andreas ;Touré, Vasundra ;Mazein, Alexander ;Blinov, Michael L. ;Luna, Augustin is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

What is Systems biology graphical notation markup language (SBGNML) version 0.3 about?

## Abstract 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 computer scientists. SBGN aims at representing networks of biochemical interactions in a standard, unambiguous way to 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. SBGN is defined neutrally to programming languages and software encoding; however, it is oriented primarily towards allowing models to be encoded using XML, the eXtensible Markup Language. The notable changes from the previous version include the addition of attributes for better specify metadata about maps, as well as support for multiple maps, sub-maps, colors, and annotations. 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, STON, cd2sbgnml, and MINERVA). More details on SBGN and related software are

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Author

Bergmann, Frank T. ;Czauderna, Tobias ;Dogrusoz, Ugur ;Rougny, Adrien ;Dräger, Andreas ;Touré, Vasundra ;Mazein, Alexander ;Blinov, Michael L. ;Luna, Augustin

Publisher

Walter de Gruyter GmbH

Published

2020

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)