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Synthetic biology open language (SBOL) version 3.0.0.
Baig H, Fontanarrosa P, Kulkarni V, McLaughlin JA, Vaidyanathan P, Bartley B, Beal J, Crowther M, Gorochowski TE, Grünberg R, Misirli G, Scott-Brown J, Oberortner E, Wipat A, Myers CJ. Baig H, et al. Among authors: fontanarrosa p. J Integr Bioinform. 2020 Jun 25;17(2-3):20200017. doi: 10.1515/jib-2020-0017. J Integr Bioinform. 2020. PMID: 32589605 Free PMC article.
Synthetic biology open language visual (SBOL visual) version 2.2.
Baig H, Fontanarrosa P, Kulkarni V, McLaughlin J, Vaidyanathan P, Bartley B, Bhatia S, Bhakta S, Bissell M, Clancy K, Cox RS, Moreno AG, Gorochowski T, Grunberg R, Luna A, Madsen C, Misirli G, Nguyen T, Le Novere N, Palchick Z, Pocock M, Roehner N, Sauro H, Scott-Brown J, Sexton JT, Stan GB, Tabor JJ, Vilar MV, Voigt CA, Wipat A, Zong D, Zundel Z, Beal J, Myers C. Baig H, et al. Among authors: fontanarrosa p. J Integr Bioinform. 2020 Jun 10;17(2-3):20200014. doi: 10.1515/jib-2020-0014. J Integr Bioinform. 2020. PMID: 32543457 Free PMC article.
The Synthetic Biology Open Language (SBOL) Version 3: Simplified Data Exchange for Bioengineering.
McLaughlin JA, Beal J, Mısırlı G, Grünberg R, Bartley BA, Scott-Brown J, Vaidyanathan P, Fontanarrosa P, Oberortner E, Wipat A, Gorochowski TE, Myers CJ. McLaughlin JA, et al. Among authors: fontanarrosa p. Front Bioeng Biotechnol. 2020 Sep 11;8:1009. doi: 10.3389/fbioe.2020.01009. eCollection 2020. Front Bioeng Biotechnol. 2020. PMID: 33015004 Free PMC article.
Stochastic Hazard Analysis of Genetic Circuits in iBioSim and STAMINA.
Buecherl L, Roberts R, Fontanarrosa P, Thomas PJ, Mante J, Zhang Z, Myers CJ. Buecherl L, et al. Among authors: fontanarrosa p. ACS Synth Biol. 2021 Oct 15;10(10):2532-2540. doi: 10.1021/acssynbio.1c00159. Epub 2021 Oct 4. ACS Synth Biol. 2021. PMID: 34606710
Genetic Circuit Dynamics: Hazard and Glitch Analysis.
Fontanarrosa P, Doosthosseini H, Borujeni AE, Dorfan Y, Voigt CA, Myers C. Fontanarrosa P, et al. ACS Synth Biol. 2020 Sep 18;9(9):2324-2338. doi: 10.1021/acssynbio.0c00055. Epub 2020 Aug 22. ACS Synth Biol. 2020. PMID: 32786351
Investigating and Modeling the Factors That Affect Genetic Circuit Performance.
Zilberzwige-Tal S, Fontanarrosa P, Bychenko D, Dorfan Y, Gazit E, Myers CJ. Zilberzwige-Tal S, et al. Among authors: fontanarrosa p. ACS Synth Biol. 2023 Nov 17;12(11):3189-3204. doi: 10.1021/acssynbio.3c00151. Epub 2023 Nov 2. ACS Synth Biol. 2023. PMID: 37916512 Free PMC article.
Robustness and reproducibility of simple and complex synthetic logic circuit designs using a DBTL loop.
Cummins B, Vrana J, Moseley RC, Eramian H, Deckard A, Fontanarrosa P, Bryce D, Weston M, Zheng G, Nowak J, Motta FC, Eslami M, Johnson KL, Goldman RP, Myers CJ, Johnson T, Vaughn MW, Gaffney N, Urrutia J, Gopaulakrishnan S, Biggers V, Higa TR, Mosqueda LA, Gameiro M, Gedeon T, Mischaikow K, Beal J, Bartley B, Mitchell T, Nguyen TT, Roehner N, Haase SB. Cummins B, et al. Among authors: fontanarrosa p. Synth Biol (Oxf). 2023 Mar 28;8(1):ysad005. doi: 10.1093/synbio/ysad005. eCollection 2023. Synth Biol (Oxf). 2023. PMID: 37073283 Free PMC article.