Moscow Institute of Physics and Technology , 9 Institutskiy per. , Dolgoprudny , Moscow Region 141700 , Russian Federation.
V.L. Talrose Institute for Energy Problems of Chemical Physics , Russian Academy of Sciences , 38 Leninsky Pr., Bld. 2 , Moscow 119334 , Russia.
J Proteome Res. 2018 Jul 6;17(7):2249-2255. doi: 10.1021/acs.jproteome.7b00640. Epub 2018 Jun 18.
We present an open-source, extensible search engine for shotgun proteomics. Implemented in Python programming language, IdentiPy shows competitive processing speed and sensitivity compared with the state-of-the-art search engines. It is equipped with a user-friendly web interface, IdentiPy Server, enabling the use of a single server installation accessed from multiple workstations. Using a simplified version of X!Tandem scoring algorithm and its novel "autotune" feature, IdentiPy outperforms the popular alternatives on high-resolution data sets. Autotune adjusts the search parameters for the particular data set, resulting in improved search efficiency and simplifying the user experience. IdentiPy with the autotune feature shows higher sensitivity compared with the evaluated search engines. IdentiPy Server has built-in postprocessing and protein inference procedures and provides graphic visualization of the statistical properties of the data set and the search results. It is open-source and can be freely extended to use third-party scoring functions or processing algorithms and allows customization of the search workflow for specialized applications.
我们展示了一个用于鸟枪法蛋白质组学的开源、可扩展的搜索引擎。IdentiPy 是用 Python 编程语言实现的，与最先进的搜索引擎相比，它具有竞争力的处理速度和灵敏度。它配备了一个用户友好的网络界面，即 IdentiPy Server，允许使用单个服务器安装，从多个工作站访问。使用简化版的 X!Tandem 评分算法及其新颖的“自动调谐”功能，IdentiPy 在高分辨率数据集上优于流行的替代方案。自动调谐调整特定数据集的搜索参数，从而提高搜索效率并简化用户体验。带有自动调谐功能的 IdentiPy 与评估的搜索引擎相比具有更高的灵敏度。IdentiPy Server 具有内置的后处理和蛋白质推断程序，并提供数据集和搜索结果的统计属性的图形可视化。它是开源的，可以自由扩展以使用第三方评分功能或处理算法，并允许自定义专门应用程序的搜索工作流程。
