GenoCAD for iGEM: a grammatical approach to the design of standard-compliant constructs

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dc.contributor.authorCai, Yizhien
dc.contributor.authorWilson, Mandy L.en
dc.contributor.authorPeccoud, Jeanen
dc.date.accessioned2019-04-15T14:27:15Zen
dc.date.available2019-04-15T14:27:15Zen
dc.date.issued2010-05en
dc.description.abstractOne of the foundations of synthetic biology is the project to develop libraries of standardized genetic parts that could be assembled quickly and cheaply into large systems. The limitations of the initial BioBrick standard have prompted the development of multiple new standards proposing different avenues to overcome these shortcomings. The lack of compatibility between standards, the compliance of parts with only some of the standards or even the type of constructs that each standard supports have significantly increased the complexity of assembling constructs from standardized parts. Here, we describe computer tools to facilitate the rigorous description of part compositions in the context of a rapidly changing landscape of physical construction methods and standards. A context-free grammar has been developed to model the structure of constructs compliant with six popular assembly standards. Its implementation in GenoCAD makes it possible for users to quickly assemble from a rich library of genetic parts, constructs compliant with any of six existing standards.en
dc.description.notesNational Science Foundation Award EF-0850100; Genetics, Bioinformatics and Computational Biology interdisciplinary graduate program at Virginia Tech (a graduate fellowship to Y.C.). Funding for open access charge: National Science Foundation Award EF-0850100.en
dc.description.sponsorshipNational Science Foundation [EF-0850100]; Genetics, Bioinformatics and Computational Biology interdisciplinary graduate program at Virginiaen
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1093/nar/gkq086en
dc.identifier.eissn1362-4962en
dc.identifier.issn0305-1048en
dc.identifier.issue8en
dc.identifier.pmid20167639en
dc.identifier.urihttp://hdl.handle.net/10919/88965en
dc.identifier.volume38en
dc.language.isoen_USen
dc.rightsCreative Commons Attribution-NonCommercial 2.0 Genericen
dc.rights.urihttp://creativecommons.org/licenses/by-nc/2.0/en
dc.subjectsynthetic biologyen
dc.subjectescherichia-colien
dc.subjectgene-expressionen
dc.subjectpartsen
dc.subjectcloningen
dc.subjectdnaen
dc.subjectmodelen
dc.subjecttoolen
dc.titleGenoCAD for iGEM: a grammatical approach to the design of standard-compliant constructsen
dc.title.serialNucleic Acids Researchen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

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