# T-Pro

**Repository Path**: wangtianze23/T-Pro

## Basic Information

- **Project Name**: T-Pro
- **Description**: T-Pro: the Transcriptional regulation optimizer for prokaryotic cells
- **Primary Language**: Unknown
- **License**: GPL-3.0
- **Default Branch**: main
- **Homepage**: None
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2025-04-09
- **Last Updated**: 2026-02-05

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

# T-Pro: the Transcriptional regulation optimizer for prokaryotic cells

## Publication

Tianze Wang, Ronghui Xie, Zhuo Ma, Ye Chen, A unified computational framework for quantitative design and optimization of transcriptional regulation across bacterial species, Nucleic Acids Research, Volume 54, Issue 1, 13 January 2026, gkaf1472, [https://doi.org/10.1093/nar/gkaf1472]

## Extra models

Following predictor models were adapted from the previous research:

| Author | Link | Commit | Licence | Adapted module |
| --- | --- | --- | --- | --- |
| LaFleur et al | [Github](https://github.com/hsalis/SalisLabCode/tree/master/Promoter_Calculator) | 561990e2278f8da80207f721f05b0c1b935c7a97 | GNU GPLv3 | [ActivityPredictorLafleur.py](./src/model/designer/predictor/ActivityPredictorLafleur.py) |
| Zhang et al | [Github](https://github.com/WangLabTHU/deepseed/tree/main/Predictor) | 3e65a8ea044e0073f3ebe3d1360014f3fc54553e | MIT | [ActivityPredictorZhang.py](./src/model/designer/predictor/ActivityPredictorZhang.py) |
| Guharajan et al | [DOI](https://dx.doi.org/10.1016/j.celrep.2021.109952) | | | [PromoterGuharajan.py](./src/model/designer/simulator/PromoterGuharajan.py), <br>[RegulationPredictorGuharajan](./src/model/designer/predictor/RegulationPredictorGuharajan.py) |

## Install

See [INSTALL.md](./INSTALL.md) for instructions of setting up the environment.

## License

The project is licensed under the [GNU GPLv3](./LICENSE).