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Synthetic Biology Open Language (SBOL) Version 2.2.0

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...

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Autores principales: Cox, Robert Sidney, Madsen, Curtis, McLaughlin, James Alastair, Nguyen, Tramy, Roehner, Nicholas, Bartley, Bryan, Beal, Jacob, Bissell, Michael, Choi, Kiri, Clancy, Kevin, Grünberg, 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: De Gruyter 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6167039/
https://www.ncbi.nlm.nih.gov/pubmed/29605823
http://dx.doi.org/10.1515/jib-2018-0001
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author Cox, Robert Sidney
Madsen, Curtis
McLaughlin, James Alastair
Nguyen, Tramy
Roehner, Nicholas
Bartley, Bryan
Beal, Jacob
Bissell, Michael
Choi, Kiri
Clancy, Kevin
Grünberg, 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
author_facet Cox, Robert Sidney
Madsen, Curtis
McLaughlin, James Alastair
Nguyen, Tramy
Roehner, Nicholas
Bartley, Bryan
Beal, Jacob
Bissell, Michael
Choi, Kiri
Clancy, Kevin
Grünberg, 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
author_sort Cox, Robert Sidney
collection PubMed
description 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.
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spelling pubmed-61670392019-01-28 Synthetic Biology Open Language (SBOL) Version 2.2.0 Cox, Robert Sidney Madsen, Curtis McLaughlin, James Alastair Nguyen, Tramy Roehner, Nicholas Bartley, Bryan Beal, Jacob Bissell, Michael Choi, Kiri Clancy, Kevin Grünberg, 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 J Integr Bioinform Article 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. De Gruyter 2018-04-02 /pmc/articles/PMC6167039/ /pubmed/29605823 http://dx.doi.org/10.1515/jib-2018-0001 Text en ©2018, Robert Sidney Cox et al., published by De Gruyter, Berlin/Boston http://creativecommons.org/licenses/by-nc-nd/4.0 This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.
spellingShingle Article
Cox, Robert Sidney
Madsen, Curtis
McLaughlin, James Alastair
Nguyen, Tramy
Roehner, Nicholas
Bartley, Bryan
Beal, Jacob
Bissell, Michael
Choi, Kiri
Clancy, Kevin
Grünberg, 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
Synthetic Biology Open Language (SBOL) Version 2.2.0
title Synthetic Biology Open Language (SBOL) Version 2.2.0
title_full Synthetic Biology Open Language (SBOL) Version 2.2.0
title_fullStr Synthetic Biology Open Language (SBOL) Version 2.2.0
title_full_unstemmed Synthetic Biology Open Language (SBOL) Version 2.2.0
title_short Synthetic Biology Open Language (SBOL) Version 2.2.0
title_sort synthetic biology open language (sbol) version 2.2.0
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6167039/
https://www.ncbi.nlm.nih.gov/pubmed/29605823
http://dx.doi.org/10.1515/jib-2018-0001
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