Standard Formats
Displaying: 2 Found: 2 Total: 18
SBOL v2.0
Synthetic Biology Open Language Version 2.0
Synopsis
Description
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.*
*(Michal Galdzicki et al. Nature Biotechnology 32, 545-550 (2014))
Publication Date
Authors
Organizations
Biological Scales
Scale | molecular | cellular | tissue | organ | organism | ecosystem |
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Support | intrinsic | unknown | unknown | unknown | unknown | unknown |
Spatial Representation
Spatial Representation Level | Compartment | Dimensions | Gradients | Spatial Structures |
---|---|---|---|---|
Support | potential | unknown | unknown | unknown |
Modularity: yes
Components Relation
Flat Network:
no
Supported Math
MathML Support: no
Full MathML Support: no
Description
Link to mathematical models written in other standards
Unit Support
Annotation Support
Miriram Support: no
identifiers.org Support: yes
Biological
Application
Format
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SBOL v2.0 |
Webpage
Specification
Software Repository
Output
Input
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SBOL v2.0 |
iBioSim |
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SBML L3V1 Core |
iBioSim |
Synthetic Biology Open Language (SBOL)
Description
SBOL is a language to describe synthetic biology constructs.
Publication date
Organizations
Links
Webpage
All formats for this class
Creative Commons Attribution 4.0 International Public License - The BioBricks Foundation
Description
Copyright (C) The BioBricks Foundation and all authors listed on this BBF RFC. This work is made available 2 under the Creative Commons Attribution 4.0 International Public License. To view a copy of this license visit 3 https://creativecommons.org/licenses/by/4.0/. 4 In addition to the listed authors, the following people are specifically recognized as additional contributors sharing 5 in the copyright (alphabetically by institution): Douglas Densmore (Boston University, USA), Jacqueline Quinn 6 (Google, USA), and Guy-Bart Stan (Imperial College London, UK).
Owner
The BioBricks FoundationLinks
SBOL Visual v1.0.0
Synthetic Biology Open Language Visual Version 1.0.0
Synopsis
Description
The Synthetic Biology Open Language Visual (SBOL Visual) project is an effort to create an open-source graphical notation to support the description and specification of genetic designs. SBOL Visual is intended for use by biological engineers in forward engineering projects. It aims to encourage and support model-driven engineering by establishing a common set of symbols.*
*(Specification (SBOL Visual) - Jacqueline Quinn, et al.: http://sbolstandard.org/downloads/specification-sbol-visual/ (date: 01.10.2015))
Publication Date
Authors
Organizations
Biological Scales
Scale | molecular | cellular | tissue | organ | organism | ecosystem |
---|---|---|---|---|---|---|
Support | intrinsic | unknown | unknown | unknown | unknown | unknown |
Spatial Representation
Spatial Representation Level | Compartment | Dimensions | Gradients | Spatial Structures |
---|---|---|---|---|
Support | unknown | unknown | unknown | unknown |
Advantage
- Standardized graphical layout of a model
Modularity: no
Components Relation
Flat Network:
no
Supported Math
Unit Support
Unit Required: no
Support: no support
Annotation Support
Biological
Application
Format
|
|||
---|---|---|---|
SBOL Visual v1.0.0 |
Webpage
Software Repository
Synthetic Biology Open Language (SBOL)
Description
SBOL is a language to describe synthetic biology constructs.
Publication date
Organizations
Links
Webpage
All formats for this class
Custom License
Description
Copyright © The BioBricks Foundation (2013). All Rights Reserved.