Rapid proteome profiling using positional signature peptides

使用位置特征肽进行快速蛋白质组分析

• 批准号: BB/F004605/1
• 负责人: Simon Hubbard
• 金额: $ 23.71万
• 依托单位: University of Manchester
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2008
• 资助国家: 英国
• 起止时间: 2008 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FF004605%2F1
• 关键词: Rapid; proteome; profiling; using; positional

The proteome defines the entire complement of proteins expressed by a cell in a particular state. The 'protein world' is a challenging area to study, and if we are to conquer this world, currently we use a strategy based on 'divide and conquer', breaking up the proteome into smaller fragments to make them amenable to analysis. But, if we increase the intrinsic complexity of the protein world by fragmentation, aren't we making it even more difficult to analyse? At first glance, yes, but suppose we could capture just one, information rich fragment that was able to report on the parent protein - recovering information just became 50 times easier! This strategy for proteome simplification is exactly what we propose. We have worked out a way to reduce the complexity of a proteome (perhaps 500,000 fragments) to a highly information-rich subset (perhaps 5,000 fragments) using novel chemical tricks. We now need to develop and refine our approach, and build the matching informatics tools to make the most effective use of this limited set of fragments - there is a wealth of information buried in these. An approach such as this would be of great value to the community of scientists who study proteomes. The methodology is simple to deliver, cheap, and requires no sophisticated instrumentation over and above that which we would find in a typical proteomics laboratory. It has the potential to revolutionise the way in which we study proteomes

蛋白质组定义了细胞在特定状态下表达的全部蛋白质。“蛋白质世界”是一个具有挑战性的研究领域，如果我们要征服这个世界，目前我们使用基于“分而治之”的策略，将蛋白质组分解为更小的片段，使其易于分析。但是，如果我们通过碎片化来增加蛋白质世界的内在复杂性，我们不是更难分析吗？乍一看，是的，但假设我们可以捕获一个，信息丰富的片段，能够报告的父母蛋白质-恢复信息只是变得容易50倍！这种蛋白质组简化的策略正是我们所提出的。我们已经找到了一种方法，可以使用新的化学技巧将蛋白质组的复杂性（可能有50万个片段）降低到信息丰富的子集（可能有5,000个片段）。我们现在需要发展和完善我们的方法，并建立匹配的信息学工具，以最有效地利用这组有限的片段-其中埋藏着丰富的信息。像这样的方法对研究蛋白质组的科学家社区具有很大的价值。该方法是简单的交付，便宜，不需要复杂的仪器，我们会发现在一个典型的蛋白质组学实验室以上。它有可能彻底改变我们研究蛋白质组的方式

项目成果

The mzIdentML data standard for mass spectrometry-based proteomics results.

• DOI: 10.1074/mcp.m111.014381
• 发表时间: 2012-07
• 期刊: Molecular & cellular proteomics : MCP
• 作者: Jones AR;Eisenacher M;Mayer G;Kohlbacher O;Siepen J;Hubbard SJ;Selley JN;Searle BC;Shofstahl J;Seymour SL;Julian R;Binz PA;Deutsch EW;Hermjakob H;Reisinger F;Griss J;Vizcaíno JA;Chambers M;Pizarro A;Creasy D
• 通讯作者: Creasy D

FDRAnalysis: a tool for the integrated analysis of tandem mass spectrometry identification results from multiple search engines.

• DOI: 10.1021/pr101157s
• 发表时间: 2011-04-01
• 期刊: JOURNAL OF PROTEOME RESEARCH
• 影响因子: 4.4
• 作者: Wedge, David C.;Krishna, Ritesh;Blackhurst, Paul;Siepen, Jennifer A.;Jones, Andrew R.;Hubbard, Simon J.
• 通讯作者: Hubbard, Simon J.

Improving sensitivity in proteome studies by analysis of false discovery rates for multiple search engines.

• DOI: 10.1002/pmic.200800473
• 发表时间: 2009-03
• 期刊: PROTEOMICS
• 影响因子: 3.4
• 作者: Jones, Andrew R.;Siepen, Jennifer A.;Hubbard, Simon J.;Paton, Norman W.
• 通讯作者: Paton, Norman W.

Getting a grip on proteomics data - Proteomics Data Collection (ProDaC).

掌握蛋白质组数据 - 蛋白质组数据收集 (ProDaC)。

• DOI: 10.1002/pmic.200900247
• 发表时间: 2009
• 期刊: Proteomics
• 影响因子: 3.4
• 作者: Eisenacher M

Investigating protein isoforms via proteomics: a feasibility study.

• DOI: 10.1002/pmic.200900445
• 发表时间: 2010-03
• 期刊: PROTEOMICS
• 影响因子: 3.4
• 作者: Blakeley, Paul;Siepen, Jennifer A.;Lawless, Craig;Hubbard, Simon J.
• 通讯作者: Hubbard, Simon J.