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Journal of Integrative Bioinformatics

Editor-in-Chief: Schreiber, Falk / Hofestädt, Ralf

Managing Editor: Sommer, Björn

Ed. by Baumbach, Jan / Chen, Ming / Orlov, Yuriy / Allmer, Jens

Editorial Board: Giorgetti, Alejandro / Harrison, Andrew / Kochetov, Aleksey / Krüger, Jens / Ma, Qi / Matsuno, Hiroshi / Mitra, Chanchal K. / Pauling, Josch K. / Rawlings, Chris / Fdez-Riverola, Florentino / Romano, Paolo / Röttger, Richard / Shoshi, Alban / Soares, Siomar de Castro / Taubert, Jan / Tauch, Andreas / Yousef, Malik / Weise, Stephan / Hassani-Pak, Keywan


CiteScore 2018: 0.90

SCImago Journal Rank (SJR) 2018: 0.315

Open Access
Online
ISSN
1613-4516
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Volume 15, Issue 1

Issues

Synthetic Biology Open Language Visual (SBOL Visual) Version 2.0

Robert Sidney Cox / Curtis Madsen / James McLaughlin / Tramy Nguyen / Nicholas Roehner / Bryan Bartley / Swapnil Bhatia / Mike Bissell / Kevin Clancy / Thomas Gorochowski / Raik Grünberg / Augustin Luna / Nicolas Le Novère
  • Babraham Institute, Cambridge, Cambridgeshire, United Kingdom of Great Britain and Northern Ireland
  • Other articles by this author:
  • De Gruyter OnlineGoogle Scholar
/ Matthew Pocock / Herbert Sauro / John T. Sexton / Guy-Bart Stan / Jeffrey J. Tabor / Christopher A. Voigt / Zach Zundel / Chris Myers / Jacob BealORCID iD: http://orcid.org/0000-0002-1663-5102 / Anil Wipat
Published Online: 2018-03-19 | DOI: https://doi.org/10.1515/jib-2017-0074

Abstract

People who are engineering biological organisms often find it useful to communicate in diagrams, both about the structure of the nucleic acid sequences that they are engineering and about the functional relationships between sequence features and other molecular species. Some typical practices and conventions have begun to emerge for such diagrams. The Synthetic Biology Open Language Visual (SBOL Visual) has been developed as a standard for organizing and systematizing such conventions in order to produce a coherent language for expressing the structure and function of genetic designs. This document details version 2.0 of SBOL Visual, which builds on the prior SBOL Visual 1.0 standard by expanding diagram syntax to include functional interactions and molecular species, making the relationship between diagrams and the SBOL data model explicit, supporting families of symbol variants, clarifying a number of requirements and best practices, and significantly expanding the collection of diagram glyphs.

Keywords: SBOL Visual; Standards; Diagrams

About the article

Received: 2017-12-01

Accepted: 2018-02-01

Published Online: 2018-03-19


Citation Information: Journal of Integrative Bioinformatics, Volume 15, Issue 1, 20170074, ISSN (Online) 1613-4516, DOI: https://doi.org/10.1515/jib-2017-0074.

Export Citation

©2018, Robert Sidney Cox et al., published by De Gruyter, Berlin/Boston. This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0

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Jacob Beal, Tramy Nguyen, Thomas E. Gorochowski, Angel Goñi-Moreno, James Scott-Brown, James Alastair McLaughlin, Curtis Madsen, Benjamin Aleritsch, Bryan Bartley, Shyam Bhakta, Mike Bissell, Sebastian Castillo Hair, Kevin Clancy, Augustin Luna, Nicolas Le Novère, Zach Palchick, Matthew Pocock, Herbert Sauro, John T. Sexton, Jeffrey J. Tabor, Christopher A. Voigt, Zach Zundel, Chris Myers, and Anil Wipat
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[2]
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