Difference between revisions of "CH391L/S13/CAD"

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==Representing Synthetic Biology Designs ==
 
==Representing Synthetic Biology Designs ==
[[Image:TinkerCellSBOLRepresentation.png|thumb|right|TinkerCell representation of parts in a lactose-inducible GFP part]]
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[[Image:TinkerCellSBOLRepresentation.png|thumb|350 px|right|TinkerCell representation of parts in a lactose-inducible GFP part]]
 
The [http://www.sbolstandard.org Synthetic Biology Open Language] is an open-source standard for representing designs consisting of both DNA sequence information and higher level annotation of parts with defined roles and behaviors <cite>Galdzicki2011</cite>. The core specification of this system has been developed as an RFC <cite>SBOLRFC</cite>. Several different [http://www.sbolstandard.org/sbolstandard/software-tools-using-sbol synthetic biology CAD software programs] use this format. Representation at this higher level of parts can be visualized and simulated in some of these systems (e.g., [http://www.tinkercell.com/ TinkerCell]).
 
The [http://www.sbolstandard.org Synthetic Biology Open Language] is an open-source standard for representing designs consisting of both DNA sequence information and higher level annotation of parts with defined roles and behaviors <cite>Galdzicki2011</cite>. The core specification of this system has been developed as an RFC <cite>SBOLRFC</cite>. Several different [http://www.sbolstandard.org/sbolstandard/software-tools-using-sbol synthetic biology CAD software programs] use this format. Representation at this higher level of parts can be visualized and simulated in some of these systems (e.g., [http://www.tinkercell.com/ TinkerCell]).
  

Revision as of 09:57, 2 February 2013

Representing Synthetic Biology Designs

TinkerCell representation of parts in a lactose-inducible GFP part

The Synthetic Biology Open Language is an open-source standard for representing designs consisting of both DNA sequence information and higher level annotation of parts with defined roles and behaviors [1]. The core specification of this system has been developed as an RFC [2]. Several different synthetic biology CAD software programs use this format. Representation at this higher level of parts can be visualized and simulated in some of these systems (e.g., TinkerCell).

References

  1. Galdzicki M, Rodriguez C, Chandran D, Sauro HM, and Gennari JH. Standard biological parts knowledgebase. PLoS One. 2011 Feb 24;6(2):e17005. DOI:10.1371/journal.pone.0017005 | PubMed ID:21390321 | HubMed [Galdzicki2011]
    Standard biological parts knowledgebase
  2. http://dspace.mit.edu/handle/1721.1/66172 [SBOLRFC]
    Synthetic Biology Open Language (SBOL) Version 1.0.0