Cargando…
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...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , |
---|---|
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 |
_version_ | 1783360133211881472 |
---|---|
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. |
format | Online Article Text |
id | pubmed-6167039 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | De Gruyter |
record_format | MEDLINE/PubMed |
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 |
work_keys_str_mv | AT coxrobertsidney syntheticbiologyopenlanguagesbolversion220 AT madsencurtis syntheticbiologyopenlanguagesbolversion220 AT mclaughlinjamesalastair syntheticbiologyopenlanguagesbolversion220 AT nguyentramy syntheticbiologyopenlanguagesbolversion220 AT roehnernicholas syntheticbiologyopenlanguagesbolversion220 AT bartleybryan syntheticbiologyopenlanguagesbolversion220 AT bealjacob syntheticbiologyopenlanguagesbolversion220 AT bissellmichael syntheticbiologyopenlanguagesbolversion220 AT choikiri syntheticbiologyopenlanguagesbolversion220 AT clancykevin syntheticbiologyopenlanguagesbolversion220 AT grunbergraik syntheticbiologyopenlanguagesbolversion220 AT macklinchris syntheticbiologyopenlanguagesbolversion220 AT misirligoksel syntheticbiologyopenlanguagesbolversion220 AT oberortnerernst syntheticbiologyopenlanguagesbolversion220 AT pocockmatthew syntheticbiologyopenlanguagesbolversion220 AT saminenimeher syntheticbiologyopenlanguagesbolversion220 AT zhangmichael syntheticbiologyopenlanguagesbolversion220 AT zhangzhen syntheticbiologyopenlanguagesbolversion220 AT zundelzach syntheticbiologyopenlanguagesbolversion220 AT gennarijohnh syntheticbiologyopenlanguagesbolversion220 AT myerschris syntheticbiologyopenlanguagesbolversion220 AT sauroherbert syntheticbiologyopenlanguagesbolversion220 AT wipatanil syntheticbiologyopenlanguagesbolversion220 |