Shanghai Key Lab of Modern Optical Systems, University of Shanghai for Science and Technology, Shanghai, China.
College of Fisheries and Life Science, Shanghai Ocean University, Shanghai, China.
J Comput Biol. 2020 May;27(5):729-737. doi: 10.1089/cmb.2019.0157. Epub 2019 Aug 28.
In the past 20 years, zebrafish has gradually become an important animal model for studying the function of human genes. At the same time, identification of zebrafish reference genome sequences and >10,000 protein-coding genes indicates that they are at least 75% homologous to human genes, further validating its utility as a research model for growth and developments (GDs). However, the molecular mechanism of zebrafish GDs has almost no molecular interactions, so a protein-protein interaction (PPI) network is highly desirable. The project extracted 58 genes on the fifth chromosome of the model organism, and studied and modeled its GDs mechanisms, which encompassed 296 interactions between the 58 proteins involved in GDs. This includes not only accurate predictions of PPI but also those molecular interactions collected from the literature and experimentally derived. These molecules then interact, modularize, look for central genes, analyze, and predict their GDs processes, and hope to help scholars study the process of GDs, providing hypotheses and help.
在过去的 20 年中，斑马鱼逐渐成为研究人类基因功能的重要动物模型。同时，斑马鱼参考基因组序列和 >10000 个蛋白编码基因的鉴定表明，它们与人类基因的同源性至少达到 75%，进一步证实了其作为生长发育（GDs）研究模型的实用性。然而，斑马鱼 GDs 的分子机制几乎没有分子相互作用，因此非常需要构建一个蛋白质-蛋白质相互作用（PPI）网络。该项目从模式生物的第五号染色体中提取了 58 个基因，并对其 GDs 机制进行了研究和建模，其中包含了 296 个参与 GDs 的 58 种蛋白质之间的相互作用。这不仅包括对 PPI 的准确预测，还包括从文献和实验中收集到的分子相互作用。然后这些分子相互作用、模块化、寻找核心基因、分析和预测它们的 GDs 过程，希望帮助学者研究 GDs 过程，提供假设和帮助。
