{"id":29,"date":"2016-09-09T12:18:39","date_gmt":"2016-09-09T16:18:39","guid":{"rendered":"https:\/\/sites.bu.edu\/nroehner\/?page_id=29"},"modified":"2016-09-10T15:09:02","modified_gmt":"2016-09-10T19:09:02","slug":"publications","status":"publish","type":"page","link":"https:\/\/sites.bu.edu\/nroehner\/publications\/","title":{"rendered":""},"content":{"rendered":"\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n\n
Journal Articles<\/strong><\/td>\n<\/td>\n<\/tr>\n
2016<\/td>\nNicholas Roehner et al., “Sharing structure and function in biological design with SBOL 2.0,” in <\/span>ACS Synthetic Biology<\/em>, vol. 5, pp. 498-506, 2016.<\/span><\/td>\n<\/tr>\n
<\/td>\nNicholas Roehner, Eric M. Young, Christopher A. Voigt, D. Benjamin Gordon, and Douglas Densmore, “Double Dutch: a tool for designing combinatorial libraries of biological systems,” in <\/span>ACS Synthetic Biology<\/em>, vol. 5, pp. 507-517, 2016.<\/span><\/td>\n<\/tr>\n
<\/td>\nZhen Zhang et al., “libSBOLj 2.0: a Java library to support SBOL 2.0,” in <\/span>IEEE Life Sciences Letters<\/em>, vol. 1, pp. 34-37, 2016.<\/span><\/td>\n<\/tr>\n
<\/td>\nTramy Nguyen, Nicholas Roehner, Zach Zundel, and Chris J. Myers, “A converter from the Systems Biology Markup Language to the Synthetic Biology Open Language,” in <\/span>ACS Synthetic Biology<\/em>, vol. 5, pp. 479-486, 2016.<\/span><\/td>\n<\/tr>\n
2015<\/td>\nNicholas Roehner, Zhen Zhang, Tramy Nguyen, and Chris J. Myers, “Generating Systems Biology Markup Language models from the Synthetic Biology Open Language,” in <\/span>ACS Synthetic Biology<\/em>, vol. 4, pp. 873-879, 2015.<\/span><\/td>\n<\/tr>\n
<\/td>\nPrashant Vaidyanathan et al., “A framework for genetic logic synthesis,” in <\/span>Proceedings of the IEEE<\/em>, vol. 103, pp. 2196-2207, 2015.<\/span><\/td>\n<\/tr>\n
<\/td>\nBryan Bartley et al., “Synthetic Biology Open Language (SBOL) 2.0.0,” in <\/span>Journal of Integrative Bioinformatics<\/em>, vol. 12, pp. 272, 2015.<\/span><\/td>\n<\/tr>\n
<\/td>\nNicholas Roehner et al., “Proposed data model for the next version of the Synthetic Biology Open Language,” in <\/span>ACS Synthetic Biology<\/em>, vol. 4, pp. 57-71, 2015.<\/span><\/td>\n<\/tr>\n
2014<\/td>\nNicholas Roehner and Chris J. Myers, “Directed acyclic graph-based technology mapping of genetic circuit models,” in <\/span>ACS Synthetic Biology<\/em>, vol. 3, pp. 543-555, 2014.<\/span><\/td>\n<\/tr>\n
<\/td>\nNicholas Roehner and Chris. J Myers, “A methodology to annotate Systems Biology Markup Language models with the Synthetic Biology Open Language,” in ACS Synthetic Biology, vol. 3, pp. 57-66, 2014.<\/span><\/td>\n<\/tr>\n
<\/td>\nMichal Galdzicki et al., “The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology,” in Nature Biotechnology<\/em>, vol. 32, pp. 545-550, 2014.<\/span><\/span><\/td>\n<\/tr>\n
<\/td>\nCurtis Madsen, Zhen Zhang, Nicholas Roehner, Chris Winstead, and Chris Myers, “Stochastic model checking of genetic circuits,” in ACM Journal of Emerging Technologies in Computing Systems<\/em>, vol. 11, pp. 23:1-23:21, 2014.<\/span><\/span><\/td>\n<\/tr>\n
2012<\/td>\nCurtis Madsen, Chris J. Myers, Tyler Patterson, Nicholas Roehner, Jason T. Stevens, and Chris Winstead, “Design and test of genetic circuits using iBioSim,” in Design and Test of Computers<\/em>, vol. 29, pp. 32-39, 2012.<\/span><\/span><\/td>\n<\/tr>\n
Book Chapters<\/strong><\/td>\n<\/span><\/td>\n<\/tr>\n
2015<\/td>\nChris Myers et al., “The Synthetic Biology Open Language,” in <\/span>Computational Methods in Synthetic Biology<\/em> (Methods in Molecular Biology Series 1244), Mario Marchisio, Ed., New York City, Springer New York, 2015, ch. 11, pp. 323-336.<\/span><\/td>\n<\/tr>\n
<\/td>\nCurtis Madsen, Chris Myers, Nicholas Roehner, Chris Winstead, and Zhen Zhang, “Efficient analysis methods in synthetic biology,” in\u00a0Computational Methods in Synthetic Biology<\/em> (Methods in Molecular Biology Series 1244), Mario Marchisio, Ed., New York City, Springer New York, 2015, ch. 11, pp. 217-257.<\/span><\/span><\/td>\n<\/tr>\n
Conference Papers<\/strong><\/td>\n<\/span><\/td>\n<\/tr>\n
2012<\/td>\nCurtis Madsen, Chris J. Myers, Nicholas Roehner, Chris Winstead, and Zhen Zhang, “Utilizing stochastic model checking to analyze genetic circuits,” in <\/span>2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)<\/em>, San Diego, CA, 9-12 May 2012, pp. 379-386.<\/span><\/td>\n<\/tr>\n
Technical Reports<\/strong><\/td>\n<\/strong><\/td>\n<\/tr>\n
2015<\/td>\nBryan Bartley et al., “Synthetic Biology Open Language (SBOL) version 2.0.0,” BioBricks Foundation, BBF RFC 108, 2015, DOI: 1721.1\/98369.<\/span><\/span><\/td>\n<\/tr>\n
2012<\/td>\nMichal Galdzicki et al., “Synthetic Biology Open Language (SBOL) version 1.1.0,” BioBricks Foundation, BBF RFC 87, 2012, DOI: 1721.1\/73909.<\/span><\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n","protected":false},"excerpt":{"rendered":"

Journal Articles 2016 Nicholas Roehner et al., “Sharing structure and function in biological design with SBOL 2.0,” in ACS Synthetic Biology, vol. 5, pp. 498-506, 2016. Nicholas Roehner, Eric M. Young, Christopher A. Voigt, D. Benjamin Gordon, and Douglas Densmore, “Double Dutch: a tool for designing combinatorial libraries of biological systems,” in ACS Synthetic Biology, […]<\/p>\n","protected":false},"author":12430,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":[],"_links":{"self":[{"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/pages\/29"}],"collection":[{"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/users\/12430"}],"replies":[{"embeddable":true,"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/comments?post=29"}],"version-history":[{"count":17,"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/pages\/29\/revisions"}],"predecessor-version":[{"id":102,"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/pages\/29\/revisions\/102"}],"wp:attachment":[{"href":"https:\/\/sites.bu.edu\/nroehner\/wp-json\/wp\/v2\/media?parent=29"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}