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Synthetic Biology Open Language Visual (SBOL Visual) Version 2.1

Research output: Contribution to journalArticle

  • Curtis Madsen
  • Angel Goni Moreno
  • Zachary Palchick
  • Umesh P
  • Nicholas Roehner
  • Bryan Bartley
  • Swapnil Bhatia
  • Shyam Bhakta
  • Mike Bissell
  • Kevin Clancy
  • Robert Sidney Cox
  • Thomas Gorochowskihttp://orcid.org/0000-0003-1702-786X
  • Raik Grunberg
  • Augustin Luna
  • James McLaughlin
  • Tramy Nguyen
  • Nicolas Le Novere
  • Matthew Pocock
  • Herbert Sauro
  • James Scott-Brown
  • John T. Sexton
  • Guy-Bart Stan
  • Jeffrey J. Tabor
  • Christopher A. Voigt
  • Zach Zundel
  • Chris Myers
  • Jacob Beal
  • Anil Wipat
Original languageEnglish
Article number20180101
Number of pages78
JournalJournal of Integrative Bioinformatics
DOIs
DateAccepted/In press - 20 May 2019
DatePublished (current) - 13 Jun 2019

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 2.1 of SBOL Visual, which builds on the prior SBOL Visual 2.0 standard by expanding diagram syntax to include methods for showing modular structure and mappings between elements of a system, interactions arrows that can split or join (with the glyph at the split or join indicating either superposition or a chemical process), and adding new glyphs for indicating genomic context (e.g., integration into a plasmid or genome) and for stop codons.

    Structured keywords

  • BrisSynBio
  • Bristol BioDesign Institute

    Research areas

  • Synthetic Biology, SBOL Visual, Standards, Diagrams, Visualisation

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  • Full-text PDF (final published version)

    Rights statement: This is the final published version of the article (version of record). It first appeared online via De Gruyter at https://www.degruyter.com/view/j/jib.ahead-of-print/jib-2018-0101/jib-2018-0101.xml?rskey=kHVBbc&result=2&q=%22Synthetic+Biology+Open+Language+Visual+%28SBOL+Visual%29+Version+2.1%22. Please refer to any applicable terms of use of the publisher.

    Final published version, 2 MB, PDF document

    Licence: CC BY

DOI

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