Drew Gross and Marlee Feltham
Genetic circuit design program for modifying custom Eco1C1G1T1.UCF.json and Eco1C1G1T1.input.json files
docker pull cidarlab/cello-dnacompiler:latest
git clone https://github.com/CIDARLAB/homework1-template
├── input
│ ├── and.v
│ ├── Eco1C1G1T1.input.json
│ ├── Eco1C1G1T1.output.json
│ ├── Eco1C1G1T1.UCF.json
│ ├── nand.v
│ ├── options.csv
│ ├── struct.v
│ └── xor.v
├── main.py
├── output
└── README.md
- Vaidyanathan, P., Der, B. S., Bhatia, S., Roehner, N., Silva, R., Voigt, C. A., & Densmore, D. (2015). A Framework for Genetic Logic Synthesis. Proceedings of the IEEE, 103(11), 2196-2207. (This Paper should help understand the basic framework, terms and definitions of Logic Synthesis applied for Genetic circuits. Specifically, Sections 1,2,3 as well as Fig 2 will be helpful)
- Yaman, F., Bhatia, S., Adler, A., Densmore, D., & Beal, J. (2012). Automated selection of synthetic biology parts for genetic regulatory networks. ACS synthetic biology, 1(8), 332-344. (The Results section as well as Fig 5 will be useful)
- Stanton, B. C., Nielsen, A. A., Tamsir, A., Clancy, K., Peterson, T., & Voigt, C. A. (2014). Genomic mining of prokaryotic repressors for orthogonal logic gates. Nature chemical biology, 10(2), 99-105.