N. Roehner, J. Beal, K. Clancy, B. Bartley, G. Misirli, R. Gruenberg, E. Oberortner, M. Pocock, M. Bissell, C. Madsen, T. Nguyen, M. Zhang, Z. Zhang, Z. Zundel, D. Densmore, J. Gennari, A. Wipat, H. Sauro, and C. J. Myers, “Sharing Structure and Function in Biological Design with SBOL 2.0,” ACS Synthetic Biology, 2016. doi:10.1021/acssynbio.5b00215
Shows a good example of exchanging genetic designs using multiple BDA tools from different institutions.
P. Vaidyanathan, B. S. Der, S. Bhatia, N. Roehner, R. Silva, C. A. Voigt, and D. Densmore, “A Framework for Genetic Logic Synthesis,” Proceedings of the IEEE, vol. 103, iss. 11, pp. 2196-2207, 2015. doi:10.1109/JPROC.2015.2443832
Describes details of how to build up a framework for performing genetic logic synthesis along with some examples.
M. W. Lux, B. W. Bramlett, D. A. Ball, and J. Peccoud, “Genetic design automation: engineering fantasy or scientific renewal?,” Trends in Biotechnology, Volume 30, Issue 2, February 2012, Pages 120-126, ISSN 0167-7799. doi:10.1016/j.tibtech.2011.09.001
This paper talks about some of the challenges in BDA and gives some thoughts on how to address them.
E. Oberortner, J. Cheng, N. J. Hillson, and S. Deutsch, “Streamlining the Design-to-Build Transition with Build-Optimization Software Tools,” ACS Synthetic Biology, 2016. doi:10.1021/acssynbio.6b00200
This paper shows an example of an entire BDA workflow.