Code repository for "Programmable mammalian translational modulators by CRISPR-associated proteins"
- python > 3.3
- viennarna
- numpy
- pandas/openpyxl
- matplotlib/seaborn
- scipy
CaRTRIDGE
├── LICENSE
├── README.md
├── datasets
│ ├── Crosstalk-ON.xlsx
│ ├── Orthogonal OFF-3.xlsx
│ └── gRNA list for MFE2.xlsx
├── notebooks
│ ├── calcMFE.ipynb
│ └── orthogonality_check.ipynb
└── outputs
└── gRNA list for MFE2_RNAfold.xlsx
datasets/Crosstalk-ON.xlsx
: normalized fold change information of on-switches.datasets/Orthogonal OFF-3.xlsx
: normalized fold change information of off-switches.datasets/gRNA list for MFE2.xlsx
: sequences of switches used for MFE calculation.
Kawasaki, S., Ono, H., Hirosawa, M., Kuwabara, T., & Saito, H. (2021). Programmable mammalian translational modulators by CRISPR-associated proteins. bioRxiv.