Zhou Xin, Su Zhen
College of Biological Sciences, China Agricultural University.
Bioinformatics. 2008 Nov 15;24(22):2639-40. doi: 10.1093/bioinformatics/btn494. Epub 2008 Sep 16.
Thermodynamic model has been proposed as a realistic model of gene transcriptional regulation in bacteria, in which transcription probability calculation is based on physical interpretation of biological knowledge. We extend the published results in this area, and derive a relatively new model which could serve as a generalized form of previous results. To facilitate the application in gene network modeling studies, we implement our model in a Python module, 'tCal'. With minimum programming efforts, user can use tCal to build transcription units, and either compute the transcription probabilities, or construct SBML models of regulatory networks.
tCal module and its online version can be found at: http://bioinformatics.cau.edu.cn/tCal.
Supplementary data are available at Bioinformatics online.
热力学模型已被提出作为细菌基因转录调控的一种现实模型，其中转录概率的计算基于生物学知识的物理解释。我们扩展了该领域已发表的结果，并推导了一个相对较新的模型，该模型可作为先前结果的广义形式。为便于在基因网络建模研究中应用，我们在Python模块“tCal”中实现了我们的模型。只需最少的编程工作，用户就可以使用tCal构建转录单元，计算转录概率，或构建调控网络的SBML模型。
tCal模块及其在线版本可在以下网址找到：http://bioinformatics.cau.edu.cn/tCal。
补充数据可在《生物信息学》在线获取。
