Synthetic Biology Open Language (SBOL) Version 2.2.0

Handle URI:
http://hdl.handle.net/10754/627543
Title:
Synthetic Biology Open Language (SBOL) Version 2.2.0
Authors:
Cox, Robert Sidney; Madsen, Curtis; McLaughlin, James Alastair; Nguyen, Tramy; Roehner, Nicholas; Bartley, Bryan; Beal, Jacob; Bissell, Michael; Choi, Kiri; Clancy, Kevin; Grunberg, Raik; Macklin, Chris; Misirli, Goksel; Oberortner, Ernst; Pocock, Matthew; Samineni, Meher; Zhang, Michael; Zhang, Zhen; Zundel, Zach; Gennari, John H.; Myers, Chris; Sauro, Herbert; Wipat, Anil
Abstract:
Synthetic biology builds upon the techniques and successes of genetics, molecular biology, and metabolic engineering by applying engineering principles to the design of biological systems. The field still faces substantial challenges, including long development times, high rates of failure, and poor reproducibility. One method to ameliorate these problems would be to improve the exchange of information about designed systems between laboratories. The synthetic biology open language (SBOL) has been developed as a standard to support the specification and exchange of biological design information in synthetic biology, filling a need not satisfied by other pre-existing standards. This document details version 2.2.0 of SBOL that builds upon version 2.1.0 published in last year's JIB special issue. In particular, SBOL 2.2.0 includes improved description and validation rules for genetic design provenance, an extension to support combinatorial genetic designs, a new class to add non-SBOL data as attachments, a new class for genetic design implementations, and a description of a methodology to describe the entire design-build-test-learn cycle within the SBOL data model.
KAUST Department:
Biological and Environmental Sciences and Engineering (BESE) Division; King Abdullah University for Science and Technology, Thuwal, Saudi Arabia.
Citation:
Cox RS, Madsen C, McLaughlin JA, Nguyen T, Roehner N, et al. (2018) Synthetic Biology Open Language (SBOL) Version 2.2.0. Journal of Integrative Bioinformatics 0. Available: http://dx.doi.org/10.1515/jib-2018-0001.
Publisher:
Walter de Gruyter GmbH
Journal:
Journal of Integrative Bioinformatics
Issue Date:
4-Apr-2018
DOI:
10.1515/jib-2018-0001
Type:
Article
ISSN:
1613-4516
Additional Links:
https://www.degruyter.com/view/j/jib.ahead-of-print/jib-2018-0001/jib-2018-0001.xml
Appears in Collections:
Articles; Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorCox, Robert Sidneyen
dc.contributor.authorMadsen, Curtisen
dc.contributor.authorMcLaughlin, James Alastairen
dc.contributor.authorNguyen, Tramyen
dc.contributor.authorRoehner, Nicholasen
dc.contributor.authorBartley, Bryanen
dc.contributor.authorBeal, Jacoben
dc.contributor.authorBissell, Michaelen
dc.contributor.authorChoi, Kirien
dc.contributor.authorClancy, Kevinen
dc.contributor.authorGrunberg, Raiken
dc.contributor.authorMacklin, Chrisen
dc.contributor.authorMisirli, Gokselen
dc.contributor.authorOberortner, Ernsten
dc.contributor.authorPocock, Matthewen
dc.contributor.authorSamineni, Meheren
dc.contributor.authorZhang, Michaelen
dc.contributor.authorZhang, Zhenen
dc.contributor.authorZundel, Zachen
dc.contributor.authorGennari, John H.en
dc.contributor.authorMyers, Chrisen
dc.contributor.authorSauro, Herberten
dc.contributor.authorWipat, Anilen
dc.date.accessioned2018-04-16T11:27:45Z-
dc.date.available2018-04-16T11:27:45Z-
dc.date.issued2018-04-04en
dc.identifier.citationCox RS, Madsen C, McLaughlin JA, Nguyen T, Roehner N, et al. (2018) Synthetic Biology Open Language (SBOL) Version 2.2.0. Journal of Integrative Bioinformatics 0. Available: http://dx.doi.org/10.1515/jib-2018-0001.en
dc.identifier.issn1613-4516en
dc.identifier.doi10.1515/jib-2018-0001en
dc.identifier.urihttp://hdl.handle.net/10754/627543-
dc.description.abstractSynthetic biology builds upon the techniques and successes of genetics, molecular biology, and metabolic engineering by applying engineering principles to the design of biological systems. The field still faces substantial challenges, including long development times, high rates of failure, and poor reproducibility. One method to ameliorate these problems would be to improve the exchange of information about designed systems between laboratories. The synthetic biology open language (SBOL) has been developed as a standard to support the specification and exchange of biological design information in synthetic biology, filling a need not satisfied by other pre-existing standards. This document details version 2.2.0 of SBOL that builds upon version 2.1.0 published in last year's JIB special issue. In particular, SBOL 2.2.0 includes improved description and validation rules for genetic design provenance, an extension to support combinatorial genetic designs, a new class to add non-SBOL data as attachments, a new class for genetic design implementations, and a description of a methodology to describe the entire design-build-test-learn cycle within the SBOL data model.en
dc.publisherWalter de Gruyter GmbHen
dc.relation.urlhttps://www.degruyter.com/view/j/jib.ahead-of-print/jib-2018-0001/jib-2018-0001.xmlen
dc.rightsThis work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License. BY-NC-ND 4.0en
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0en
dc.subjectSynthetic Biologyen
dc.subjectSynthetic Biology Open Languageen
dc.subjectStandardsen
dc.titleSynthetic Biology Open Language (SBOL) Version 2.2.0en
dc.typeArticleen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentKing Abdullah University for Science and Technology, Thuwal, Saudi Arabia.en
dc.identifier.journalJournal of Integrative Bioinformaticsen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionProspect Bio, Brisbane, CA, USA.en
dc.contributor.institutionBoston University, Boston, MA, USA.en
dc.contributor.institutionNewcastle University, Newcastle, United Kingdom of Great Britain and Northern Ireland.en
dc.contributor.institutionUniversity of Utah, Salt Lake City, UT, USA.en
dc.contributor.institutionRaytheon BBN Technologies, Cambridge, MA, USA.en
dc.contributor.institutionUniversity of Washington, Seattle, WA, USA.en
dc.contributor.institutionAmyris, Inc., Emeryville, CA, USA.en
dc.contributor.institutionThermoFisher Scientific, San Diego, CA, USA.en
dc.contributor.institutionKeele University, Keele, Staffordshire, United Kingdom of Great Britain and Northern Ireland.en
dc.contributor.institutionDOE Joint Genome Institute, Walnut Creek, CA, USA.en
dc.contributor.institutionTuring Ate My Hamster LTD, Newcastle, UK.en
dc.contributor.institutionUtah State University, Logan, UT, USA.en
kaust.authorGrunberg, Raiken
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