Journal article
The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering
Frontiers in bioengineering and biotechnology, Vol.8, pp.1009-1009
09/11/2020
DOI: 10.3389/fbioe.2020.01009
PMCID: PMC7516281
PMID: 33015004
Abstract
The Synthetic Biology Open Language (SBOL) is a community-developed data standard that allows knowledge about biological designs to be captured using a machine-tractable, ontology-backed representation that is built using Semantic Web technologies. While early versions of SBOL focused only on the description of DNA-based components and their sub-components, SBOL can now be used to represent knowledge across multiple scales and throughout the entire synthetic biology workflow, from the specification of a single molecule or DNA fragment through to multicellular systems containing multiple interacting genetic circuits. The third major iteration of the SBOL standard, SBOL3, is an effort to streamline and simplify the underlying data model with a focus on real-world applications, based on experience from the deployment of SBOL in a variety of scientific and industrial settings. Here, we introduce the SBOL3 specification both in comparison to previous versions of SBOL and through practical examples of its use.
Details
- Title: Subtitle
- The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering
- Creators
- James Alastair McLaughlin - Newcastle UniversityJacob Beal - RTXRaik Grunberg - King Abdullah University of Science and TechnologyBryan A. Bartley - RTXJames Scott-Brown - University of OxfordPrashant Vaidyanathan - Microsoft ResearchPedro Fontanarrosa - University of UtahErnst Oberortner - Joint Genome InstituteAnil Wipat - Newcastle UniversityThomas E. Gorochowski - University of BristolChris J. Myers - University of Colorado BoulderGoksel Misirli - Keele University
- Resource Type
- Journal article
- Publication Details
- Frontiers in bioengineering and biotechnology, Vol.8, pp.1009-1009
- Publisher
- Frontiers Media Sa
- DOI
- 10.3389/fbioe.2020.01009
- PMID
- 33015004
- PMCID
- PMC7516281
- ISSN
- 2296-4185
- eISSN
- 2296-4185
- Number of pages
- 15
- Grant note
- 1939892 / Direct For Computer & Info Scie & Enginr; Office of Advanced Cyberinfrastructure (OAC); National Science Foundation (NSF); NSF - Directorate for Computer & Information Science & Engineering (CISE) FA8750-17-C-0229; FA875017CO184 / DARPA; United States Department of Defense; Defense Advanced Research Projects Agency (DARPA) CCF-1748200; 1939892 / National Science Foundation; National Science Foundation (NSF) DE-AC02-05CH11231 / U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research; United States Department of Energy (DOE) EP/J02175X/1; EP/R003629/1; EP/N031962/1; EP/R019002/1 / Engineering and Physical Sciences Research Council; UK Research & Innovation (UKRI); Engineering & Physical Sciences Research Council (EPSRC) Air Force Research Laboratory (AFRL); United States Department of Defense; US Air Force Research Laboratory EP/N031962/1 / EPSRC; UK Research & Innovation (UKRI); Engineering & Physical Sciences Research Council (EPSRC) FUJIFILM DioSynth Biotechnologies DSTL EP/L016494/1 / EPSRC & BBSRC Centre for Doctoral Training in Synthetic Biology; UK Research & Innovation (UKRI); Biotechnology and Biological Sciences Research Council (BBSRC); Engineering & Physical Sciences Research Council (EPSRC) UF160357 / Royal Society University Research Fellowship; Royal Society BB/L01386X/1 / BrisSynBio, a BBSRC/EPSRC Synthetic Biology Research Centre; UK Research & Innovation (UKRI); Biotechnology and Biological Sciences Research Council (BBSRC); Engineering & Physical Sciences Research Council (EPSRC) 1522074 / NSF Expeditions in Computing Program Award as part of the Living Computing Project BB/L01386X/1 / BBSRC; UK Research & Innovation (UKRI); Biotechnology and Biological Sciences Research Council (BBSRC)
- Language
- English
- Date published
- 09/11/2020
- Academic Unit
- Electrical and Computer Engineering
- Record Identifier
- 9984627219402771
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