UNIT 13.28 Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics

Mathieu Lavallée-Adam; John R. Yates III

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UNIT 13.28 Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics

机译：UNIT 13.28使用PSEA-Quant对基于质谱的定量蛋白质组学进行蛋白质组富集分析

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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.

机译：PSEA-Quant分析基于质谱的定量蛋白质组学数据集，以识别诸如基因本体论和分子签名数据库之类的存储库中所含注释的丰富性。它使用户可以识别可重复定量的高丰度蛋白质中显着富集的注释。 PSEA-Quant可在Web上使用，也可以作为命令行工具使用。它与所有无标记和基于同位素标记的定量蛋白质组学方法兼容。该协议描述了如何使用PSEA-Quant并解释其输出。还讨论了每个参数的重要性以及故障排除方法。

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《Current Protocols in Bioinformatics》 |2016年第53期|共16页
作者
Mathieu Lavallée-Adam; John R. Yates III;
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正文语种 eng
中图分类遗传学;
关键词
gene set enrichment analysis; gene ontology; quantitative proteomics; functional enrichment analysis; mass spectrometry;

机译：基因集富集分析;基因本体论;定量蛋白质组学;功能富集分析;质谱;

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1. UNIT 13.28 Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics [J] . Mathieu Lavallée-Adam, John R. Yates III Current Protocols in Bioinformatics . 2016,第Suppla53期

机译：UNIT 13.28使用PSEA-Quant对基于质谱的定量蛋白质组学进行蛋白质组富集分析
2. Label-Free Mass Spectrometry-Based Quantitative Proteomics Analysis of Serum Proteins During Early Pregnancy in Jennies (Equus asinus) [J] . Deng Liang, Han Yuwei, Tang Chi, Frontiers in Veterinary Science . 2020,第1期

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3. Mass spectrometry-based quantitative proteomic analysis of Salmonella enterica serovar Enteritidis protein expression upon exposure to hydrogen peroxide [J] . Kihoon Kim, Edward Yang, Gia-Phong Vu, BMC Microbiology . 2010,第1期

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4. Label-free quantitative mass spectrometry-based proteomics for comprehensive analysis of protein complex composition and dynamics in plants [C] . Uma K Aryal, Zachery McBride, Donglai Chen, ASMS Conference on Mass Spectrometry and Allied Topics . 2016

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5. Progress towards the human chromatome: Global and targeted analysis of chromatin proteins and their post-translational modifications using mass spectrometry-based proteomics. [D] . Plazas-Mayorca, Mariana De Jesus. 2010

机译：迈向人类染色体的进展：使用基于质谱的蛋白质组学对染色质蛋白及其翻译后修饰进行全面和有针对性的分析。
6. Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics [O] . Dr. Mathieu Lavallée-Adam, Dr. John R. Yates III -1

机译：使用PSEA-Quant对基于质谱的蛋白质组学进行蛋白质组富集分析
7. PSEA-Quant: A Protein Set Enrichment Analysis on Label-Free and Label-Based Protein Quantification Data [O] . Mathieu Lavallée-Adam, Navin Rauniyar, Daniel B. McClatchy, 2014

机译：PSEA-量子：蛋白质在无标签和基于标签的蛋白质量化数据上进行富集分析

UNIT 13.28 Using PSEA-Quant for Protein Set Enrichment Analysis of Quantitative Mass Spectrometry-Based Proteomics

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