The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology

Michal Galdzicki; Kevin P Clancy; Ernst Oberortner; Matthew Pocock; Jacqueline Y Quinn; Cesar A Rodriguez; Nicholas Roehner; Mandy L Wilson; Laura Adam; J Christopher Anderson; Bryan A Bartley; Jacob Beal; Deepak Chandran; Joanna Chen; Douglas Densmore; Drew Endy; Raik Grünberg; Jennifer Hallinan; Nathan J Hillson; Jeffrey D Johnson; Allan Kuchinsky; Matthew Lux; Goksel Misirli; Jean Peccoud; Hector A Plahar; Evren Sirin; Guy-Bart Stan; Alan Villalobos; Anil Wipat; John H Gennari; Chris J Myers; Herbert M Sauro

doi:10.1038/nbt.2891

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The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology

Journal article

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The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology

Michal Galdzicki, Kevin P Clancy, Ernst Oberortner, Matthew Pocock, Jacqueline Y Quinn, Cesar A Rodriguez, Nicholas Roehner, Mandy L Wilson, Laura Adam, J Christopher Anderson, …

Nature biotechnology, Vol.32(6), pp.545-550

06/01/2014

DOI: 10.1038/nbt.2891

PMID: 24911500

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Abstract

The re-use of previously validated designs is critical to the evolution of synthetic biology from a research discipline to an engineering practice. Here we describe the Synthetic Biology Open Language (SBOL), a proposed data standard for exchanging designs within the synthetic biology community. SBOL represents synthetic biology designs in a community-driven, formalized format for exchange between software tools, research groups and commercial service providers. The SBOL Developers Group has implemented SBOL as an XML/RDF serialization and provides software libraries and specification documentation to help developers implement SBOL in their own software. We describe early successes, including a demonstration of the utility of SBOL for information exchange between several different software tools and repositories from both academic and industrial partners. As a community-driven standard, SBOL will be updated as synthetic biology evolves to provide specific capabilities for different aspects of the synthetic biology workflow.

Information Dissemination - methods

Internationality

Reference Standards

Research Design - standards

Software - standards

Synthetic Biology - standards

Terminology as Topic

Vocabulary, Controlled

Details

Title: Subtitle: The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology
Creators: Michal Galdzicki - University of Washington
Kevin P Clancy - CrossLife Technologies
Ernst Oberortner - Boston University
Matthew Pocock - Newcastle University
Jacqueline Y Quinn - Autodesk
Cesar A Rodriguez - Autodesk
Nicholas Roehner - University of Utah
Mandy L Wilson - Virginia Tech
Laura Adam - Virginia Tech
J Christopher Anderson - University of California, Berkeley
Bryan A Bartley - University of Washington
Jacob Beal - RTX
Deepak Chandran - Autodesk
Joanna Chen - Joint BioEnergy Institute
Douglas Densmore - Boston University
Drew Endy - Stanford University
Raik Grünberg - Université de Montréal
Jennifer Hallinan - Newcastle University
Nathan J Hillson - Joint BioEnergy Institute
Jeffrey D Johnson - University of California, Berkeley
Allan Kuchinsky - Agilent Technologies
Matthew Lux - Virginia Tech
Goksel Misirli - Newcastle University
Jean Peccoud - Virginia Tech
Hector A Plahar - Joint BioEnergy Institute
Evren Sirin - Clark Art Institute
Guy-Bart Stan - Imperial College London
Alan Villalobos - ATUM
Anil Wipat - Newcastle University
John H Gennari - University of Washington
Chris J Myers - University of Utah
Herbert M Sauro - University of Washington
Resource Type: Journal article
Publication Details: Nature biotechnology, Vol.32(6), pp.545-550
DOI: 10.1038/nbt.2891
PMID: 24911500
ISSN: 1087-0156
eISSN: 1546-1696
Grant note: R41 LM010745 / NLM NIH HHS R42 HG006737 / NHGRI NIH HHS T15 LM007442 / NLM NIH HHS
Language: English
Date published: 06/01/2014
Academic Unit: Electrical and Computer Engineering
Record Identifier: 9984627289102771

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