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dc.contributor.authorCox, Robert Sidney
dc.contributor.authorMcLaughlin, James Alastair
dc.contributor.authorGrunberg, Raik
dc.contributor.authorBeal, Jacob
dc.contributor.authorWipat, Anil
dc.contributor.authorSauro, Herbert M.
dc.date.accessioned2017-08-14T06:41:37Z
dc.date.available2017-08-14T06:41:37Z
dc.date.issued2017-03-07
dc.identifier.citationCox RS, McLaughlin JA, Grünberg R, Beal J, Wipat A, et al. (2017) A Visual Language for Protein Design. ACS Synthetic Biology 6: 1120–1123. Available: http://dx.doi.org/10.1021/acssynbio.6b00286.
dc.identifier.issn2161-5063
dc.identifier.issn2161-5063
dc.identifier.doi10.1021/acssynbio.6b00286
dc.identifier.urihttp://hdl.handle.net/10754/625328
dc.description.abstractAs protein engineering becomes more sophisticated, practitioners increasingly need to share diagrams for communicating protein designs. To this end, we present a draft visual language, Protein Language, that describes the high-level architecture of an engineered protein with easy-to draw glyphs, intended to be compatible with other biological diagram languages such as SBOL Visual and SBGN. Protein Language consists of glyphs for representing important features (e.g., globular domains, recognition and localization sequences, sites of covalent modification, cleavage and catalysis), rules for composing these glyphs to represent complex architectures, and rules constraining the scaling and styling of diagrams. To support Protein Language we have implemented an extensible web-based software diagram tool, Protein Designer, that uses Protein Language in a
dc.description.sponsorshipThe authors thank Steven Schkolne for consultation on glyph design and Matthew Pocock and Christopher Voigt for helpful discussions. J.A.M. is supported by FUJIFILM DioSynth Technologies. A.W. is supported by the Engineering and Physical Sciences Research Council grant EP/J02175X/1 and EP/N031962/1. RS.C. is supported in part by US DoD grant FA5209-16-P-0041 and National Science Foundation grant DBI-1355909. J.S.B. is supported in part by the National Science Foundation Expeditions in Computing Program Award #1522074 as part of the Living Computing Project. This document does not contain technology or technical data controlled under either the U.S. International Traffic in Arms Regulations or the U.S. Export Administration Regulations.
dc.publisherAmerican Chemical Society (ACS)
dc.relation.urlhttp://pubs.acs.org/doi/full/10.1021/acssynbio.6b00286
dc.rightsThis is an open access article published under a Creative Commons Attribution (CC-BY) License, which permits unrestricted use, distribution and reproduction in any medium, provided the author and source are cited.
dc.rights.urihttp://pubs.acs.org/page/policy/authorchoice_ccby_termsofuse.html
dc.subjectsynthetic biology
dc.subjectvisualization
dc.subjectSynthetic Biology Open Language
dc.subjectgenetic circuits
dc.subjectprotein engineering
dc.titleA Visual Language for Protein Design
dc.typeArticle
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.identifier.journalACS Synthetic Biology
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionMaterial Science Institute, University of Oregon, Eugene, OR, 97403, , United States
dc.contributor.institutionSchool of Computing Science, Newcastle University, Newcastle-upon-Tyne, NE1 7RU, , United Kingdom
dc.contributor.institutionRaytheon BBN Technologies, Cambridge, MA, 02138, , , United States
dc.contributor.institutionDepartment of Bioengineering, University of Washington, Seattle, WA, 98105, , United States
kaust.personGrunberg, Raik
refterms.dateFOA2018-06-14T03:06:22Z
dc.date.published-online2017-03-07
dc.date.published-print2017-07-21


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