LFQ-Analyst: An Easy-To-Use Interactive Web Platform To Analyze and Visualize Label-Free Proteomics Data Preprocessed with MaxQuant
LFQ-Analyst: An Easy-To-Use Interactive Web Platform To Analyze and Visualize Label-Free Proteomics Data Preprocessed with MaxQuant
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DOI：
10.1021/acs.jproteome.9b00496
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发表时间：
2020-01-01
影响因子：
4.4
通讯作者：
Schittenhelm, Ralf B.
中科院分区：
文献类型：
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作者：
Shah, Anup D.;Goode, Robert J. A.;Schittenhelm, Ralf B.
使用前体（MS1）信号强度的散弹枪蛋白质组学数据的相对无标记定量（LFQ）是在生物样品和条件下全面和全局定量蛋白质的最常用应用之一。由于这项技术的普及，已经开发了一些软件包，例如流行的软件套件MaxQuant，用于提取，分析和比较光谱特征，并报告肽，蛋白质甚至翻译后修饰位点的定量信息。然而，对于这些复杂数据集的解释和下游统计分析仍然缺乏可访问的工具，特别是对于没有或只有有限的蛋白质组学，生物信息学和统计学经验的研究人员和生物学家。因此，我们创建了LFQ-Analyst，这是一个易于使用的交互式web应用程序，用于“一键”执行差异表达分析，并可视化使用MaxQuant预处理的无标签定量蛋白质组学数据集。LFQ-Analyst提供了丰富的用户分析功能，并提供了许多出版质量的结果图形，以促进无标签定量数据集的统计和探索性分析。LFQ-Analyst，包括一个深入的用户手册，可在https://bioinformatics.erc.monash.edu/apps/LFQ-Analyst免费获得。
Relative label-free quantification (LFQ) of shotgun proteomics data using precursor (MS1) signal intensities is one of the most commonly used applications to comprehensively and globally quantify proteins across biological samples and conditions. Due to the popularity of this technique, several software packages, such as the popular software suite MaxQuant, have been developed to extract, analyze, and compare spectral features and to report quantitative information of peptides, proteins, and even post-translationally modified sites. However, there is still a lack of accessible tools for the interpretation and downstream statistical analysis of these complex data sets, in particular for researchers and biologists with no or only limited experience in proteomics, bioinformatics, and statistics. We have therefore created LFQ-Analyst, which is an easy-to-use, interactive web application developed to perform differential expression analysis with "one click" and to visualize label-free quantitative proteomic data sets preprocessed with MaxQuant. LFQ-Analyst provides a wealth of user-analytic features and offers numerous publication-quality result graphics to facilitate statistical and exploratory analysis of label-free quantitative data sets. LFQ-Analyst, including an in-depth user manual, is freely available at https://bioinformatics.erc.monash.edu/apps/LFQ-Analyst.