Yang Pengshuo, Lang Jidong, Li Hongjun, Lu Jinxiang, Lin Hanyang, Tian Geng, Bai Hong, Yang Jialiang, Ning Kang
Key Laboratory of Molecular Biophysics of the Ministry of Education, Hubei Key Laboratory of Bioinformatics and Molecular-imaging, Center for Artificial Intelligence Biology, Department of Bioinformatics and Systems Biology College of Life Science and Technology, Huazhong University of Science and Technology Wuhan China.
Geneis Beijing Co., Ltd. Beijing China.
Imeta. 2022 Aug 15;1(4):e47. doi: 10.1002/imt2.47. eCollection 2022 Dec.
DNA-based biological ingredient identification and downstream pharmacology network analysis are commonly used in research for Traditional Chinese Medicine preparations (TCM formulas). Advancements in bioinformatics tools and the accumulation of related data have become driving forces for progress in this field. However, a lack of a platform integrating biological ingredient identification and downstream pharmacology network analysis hinders the deep understanding of TCM. In this study, we developed the TCM-Suite platform composed of two sub-databases, Holmes-Suite and Watson-Suite, for TCM biological ingredient identification and network pharmacology investigation, respectively, both are among the most complete: In the Holmes-Suite, we collected and processed six types of marker gene sequences, accounting for 1,251,548 marker gene sequences. In the Watson-Suite, we curated and integrated a massive number of entries from more than 10 public databases. Importantly, we developed a comprehensive pipeline to integrate TCM biological ingredient identification and downstream network pharmacology research, allowing users to simultaneously identify components of a TCM formula and analyze its potential pharmacology mechanism. Furthermore, we designed search engines and a user-friendly platform to better search and visualize these rich resources. TCM-Suite is a comprehensive and holistic platform for TCM-based drug discovery and repurposing. TCM-Suite website: http://TCM-Suite.AImicrobiome.cn.
基于DNA的生物成分鉴定和下游药理学网络分析常用于中药制剂（中药配方）的研究。生物信息学工具的进步和相关数据的积累已成为该领域发展的驱动力。然而，缺乏一个整合生物成分鉴定和下游药理学网络分析的平台阻碍了对中药的深入理解。在本研究中，我们开发了中药套件平台，它由两个子数据库，即福尔摩斯套件和华生套件组成，分别用于中药生物成分鉴定和网络药理学研究，这两个数据库都是最完整的之一：在福尔摩斯套件中，我们收集并处理了六种标记基因序列，共计1,251,548条标记基因序列。在华生套件中，我们整理并整合了来自10多个公共数据库的大量条目。重要的是，我们开发了一个综合流程来整合中药生物成分鉴定和下游网络药理学研究，允许用户同时鉴定中药配方的成分并分析其潜在的药理机制。此外，我们设计了搜索引擎和用户友好的平台，以便更好地搜索和可视化这些丰富的资源。中药套件是一个用于基于中药的药物发现和重新利用的综合全面的平台。中药套件网站：http://TCM-Suite.AImicrobiome.cn。
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