Computational analysis of unassigned high-quality MS/MS spectra in proteomic data sets
Computational analysis of unassigned high-quality MS/MS spectra in proteomic data sets
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DOI：
10.1002/pmic.200900473
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发表时间：
2010-07-01
期刊：
影响因子：
3.4
通讯作者：
Nesvizhskii, Alexey I.
中科院分区：
文献类型：
--
作者：
Ning, Kang;Fermin, Damian;Nesvizhskii, Alexey I.
在典型的鸟枪法蛋白质组学实验中，大量的高质量MS/MS光谱仍然“未分配”。“这项工作的主要重点是提高我们对未分配的高质量光谱的各种来源的理解。为了实现这一目标，我们设计了一种迭代计算方法，以更有效地询问MS/MS数据。该方法包括多个阶段的数据库搜索与不同的搜索参数，光谱库搜索，盲搜索修饰肽，和基因组数据库搜索。该方法应用于大型公开的猎枪蛋白质组数据集。
In a typical shotgun proteomics experiment, a significant number of high-quality MS/MS spectra remain "unassigned." The main focus of this work is to improve our understanding of various sources of unassigned high-quality spectra. To achieve this, we designed an iterative computational approach for more efficient interrogation of MS/MS data. The method involves multiple stages of database searching with different search parameters, spectral library searching, blind searching for modified peptides, and genomic database searching. The method is applied to a large publicly available shotgun proteomic data set.