使用PSEA-Quant进行基于定量质谱的蛋白质组学的蛋白质集富集分析。
Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics.
作者信息
Lavallée-Adam Mathieu, Yates John R
机构信息
Department of Chemical Physiology, The Scripps Research Institute, La Jolla, California.
Department of Chemical Physiology and Molecular and Cellular Neurobiology, The Scripps Research Institute, La Jolla, California.
出版信息
Curr Protoc Bioinformatics. 2016 Mar 24;53:13.28.1-13.28.16. doi: 10.1002/0471250953.bi1328s53.
Abstract
PSEA-Quant analyzes quantitative mass spectrometry-based proteomics datasets to identify enrichments of annotations contained in repositories such as the Gene Ontology and Molecular Signature databases. It allows users to identify the annotations that are significantly enriched for reproducibly quantified high abundance proteins. PSEA-Quant is available on the Web and as a command-line tool. It is compatible with all label-free and isotopic labeling-based quantitative proteomics methods. This protocol describes how to use PSEA-Quant and interpret its output. The importance of each parameter as well as troubleshooting approaches are also discussed. © 2016 by John Wiley & Sons, Inc.
摘要
PSEA-Quant分析基于定量质谱的蛋白质组学数据集，以识别诸如基因本体论和分子特征数据库等存储库中所含注释的富集情况。它允许用户识别在可重复定量的高丰度蛋白质中显著富集的注释。PSEA-Quant可通过网络获取，也有命令行工具版本。它与所有基于无标记和同位素标记的定量蛋白质组学方法兼容。本方案描述了如何使用PSEA-Quant并解读其输出结果。还讨论了每个参数的重要性以及故障排除方法。© 2016约翰威立父子公司版权所有
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