Baumbach Jan, Tauch Andreas, Rahmann Sven
International Computer Science Institute, Berkeley, USA.
Brief Bioinform. 2009 Jan;10(1):75-83. doi: 10.1093/bib/bbn055. Epub 2008 Dec 12.
To handle changing environmental surroundings and to manage unfavorable conditions, microbial organisms have evolved complex transcriptional regulatory networks. To comprehensively analyze these gene regulatory networks, several online available databases and analysis platforms have been implemented and established. In this article, we address the typical cycle of scientific knowledge exploration and integration in the area of procaryotic transcriptional gene regulation. We briefly review five popular, publicly available systems that support (i) the integration of existing knowledge, (ii) visualization capabilities and (iii) computer analysis to predict promising wet lab targets. We exemplify the benefits of such integrated data analysis platforms by means of four application cases exemplarily performed with the corynebacterial reference database CoryneRegNet.
为了应对不断变化的环境以及应对不利条件，微生物进化出了复杂的转录调控网络。为了全面分析这些基因调控网络，已经实施并建立了几个在线可用的数据库和分析平台。在本文中，我们阐述了原核生物转录基因调控领域科学知识探索与整合的典型循环。我们简要回顾了五个流行的、公开可用的系统，这些系统支持（i）现有知识的整合，（ii）可视化功能以及（iii）计算机分析以预测有前景的湿实验室靶点。我们通过使用棒状杆菌参考数据库CoryneRegNet示例性地进行的四个应用案例来说明此类综合数据分析平台的优势。
