SBOL 2.0 Examples

Z. Zhang, T. Nguyen, N. Roehner, G. Misirli, M. Pocock, E. Oberortner, M. Samineni, Z. Zundel, J. Beal, K. Clancy, A. Wipat, and C. Myers. “libSBOLj 2.0: A Java Library to Support SBOL 2.0,IEEE Life Sciences Letters, vol. 1, no. 4, pp. 34-37, Mar. 2016. doi:10.1109/LLS.2016.2546546


J.A. McLaughlin, M. Pocock, G. Mısırlı, C. Madsen, and A. Wipat. “VisBOL: Web-Based Tools for Synthetic Biology Design Visualization,” ACS Synthetic Biology, Jan. 2016. doi: 10.1021/acssynbio.5b00244


T. Nguyen, N. Roehner, Z. Zundel, and C. Myers. “A Converter from the Systems Biology Markup Language to the Synthetic Biology Open Language,” ACS Synthetic Biology, vol. 5, no. 6, pp. 479-486, Dec. 2015. doi: 10.1021/acssynbio.5b00212


B. Bartley, J. Beal, K. Clancy, N. Hillson, G. Misirli, N. Roehner, H. Sauro, E. Oberortner, C. Madsen, M. Pocock, A. Wipat, T. Nguyen, Z. Zhang, C. Myers, J. Gennari, and M. Bissell. “Synthetic Biology Open Language (SBOL) Version 2.0.0,” Journal of Integrative Bioinformatics, vol. 12, no. 2, pp. 272, Sep. 2015. doi: 10.2390/biecoll-jib-2015-272..


N. Roehner, Z. Zhang, T. Nguyen, C. Myers. “Generating Systems Biology Markup Language Models from the Synthetic Biology Open Language, ” ACS Synthetic Biology, vol. 4, no. 8, pp. 873-879, Apr. 2015. doi: 10.1021/sb5003289 


N. Roehner and C. Myers. “Directed acyclic graph-based technology mapping of genetic circuit models, ” ACS Synthethic Biology, Mar. 2014. doi: 10.1021/sb400135t

Further SBOL 2.0 examples are located here. This comprehensive set of data files includes in addition to more SBOL 2.0 files, SBOL 1.1 files used to test conversion to SBOL 2.0, GenBank files used to test conversion to SBOL 2.0, and invalid SBOL 2.0 files used to test validation.

SBOL 1.1 Examples

M. Galdzicki, K. Clancy, E. Oberortner, M. Pocock, J. Quinn, C. Rodriguez, N. Roehner, M. L. Wilson, L. Adam, C. Anderson, B. Bartley, J. Beal, D. Chandran, J. Chen, D. Densmore, D. Endy, R. Grünberg, J. Hallinan, N.J. Hillson, J. D. Johnson, A. Kuchinsky, M. Lux, G. Misirli, J. Peccoud, H. Plahar, E. Sirin, G.B Stan, A. Villalobos, A. Wipat, J. Gennari, C. Myers, and H. Sauro. “The Synthetic Biology Open Language (SBOL) provides a community standard for communicating designs in synthetic biology,” Nature Biotechnology, vol. 32, pp. 545-550, Jun. 2014. doi:10.1038/nbt.2891