Computational approaches to selected reaction monitoring assay design.
Computational approaches to selected reaction monitoring assay design.
复制标题
选定反应监测测定设计的计算方法。
DOI：
10.1007/978-1-62703-392-3_9
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发表时间：
2013
期刊：
影响因子：
--
通讯作者：
Bessant C
中科院分区：
文献类型：
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作者：
Bessant C
选择反应监测（SRM）正在成为靶向定量蛋白质组学的首选工具，其应用范围广泛，如临床诊断和系统生物学。分析设计对于每个SRM实验的成功至关重要。对于每种感兴趣的蛋白质，有必要找到一组可以作为该蛋白质的替代物进行监测的肽。这些肽必须满足许多标准，包括蛋白质组的独特性、质谱法的可检测性和产物离子系列的适用性。寻找符合所有这些标准的肽是耗时的，特别是当试图在一次运行中定量多种蛋白质时。为了应对这些挑战，许多研究小组已经开发出免费的工具来帮助SRM检测设计过程，包括数据库、在线工具和独立软件。本章介绍了其中的一些工具，并解释了它们如何有助于促进可靠的SRM实验。
Selected reaction monitoring (SRM) is becoming the tool of choice for targeted quantitative proteomics, with applications as diverse as clinical diagnostics and systems biology. Assay design is critical to the success of every SRM experiment. For each protein of interest it is necessary to find a set of peptides that can be monitored as surrogates for that protein. These peptides must satisfy a number of criteria, including uniqueness in the proteome, detectability by mass spectrometry, and suitability of product ion series. Finding peptides that meet all these criteria is time consuming, especially when seeking to quantify multiple proteins in a single run. In response to these challenges, a number of groups have developed freely available tools to assist in the process of SRM assay design—these include databases, online tools, and stand-alone software. This chapter introduces some of these tools and explains how they can help to facilitate reliable SRM experiments.