PEAKS:: powerful software for peptide de novo sequencing by tandem mass spectrometry
PEAKS:: powerful software for peptide de novo sequencing by tandem mass spectrometry
复制标题
DOI：
10.1002/rcm.1196
复制
发表时间：
2003-01-01
影响因子：
2
通讯作者：
Lajoie, G
中科院分区：
文献类型：
--
作者：
Ma, B;Zhang, KZ;Lajoie, G
已经描述了许多不同的方法来从串联质谱 (MS/MS) 数据中识别蛋白质。最常见的方法依赖于可用的数据库来匹配实验 MS/MS 数据。这些方法存在一些缺点，不能用于识别未知基因组中的蛋白质。在本次交流中，我们描述了一种新的从头测序软件包 PEAKS，可以在不使用数据库的情况下提取氨基酸序列信息。 PEAKS 使用新模型和新算法来有效计算最佳肽序列，其碎片离子可以最好地解释 MS/MS 谱图中的峰。软件的输出给出了氨基酸序列以及整个序列的置信度评分，以及序列部分的额外新颖的位置评分方案。使用从标准蛋白质中获得的几种胰蛋白酶肽的四极杆飞行时间 (Q-TOF) 数据，将 PEAKS 的性能与著名的从头测序软件 Lutefisk 进行比较。版权所有 (C) 2003 John Wiley Sons, Ltd.
A number of different approaches have been described to identify proteins from tandem mass spectrometry (MS/MS) data. The most common approaches rely on the available databases to match experimental MS/MS data. These methods suffer from several drawbacks and cannot be used for the identification of proteins from unknown genomes. In this communication, we describe a new de novo sequencing software package, PEAKS, to extract amino acid sequence information without the use of databases. PEAKS uses a new model and a new algorithm to efficiently compute the best peptide sequences whose fragment ions can best interpret the peaks in the MS/MS spectrum. The output of the software gives amino acid sequences with confidence scores for the entire sequences, as well as an additional novel positional scoring scheme for portions of the sequences. The performance of PEAKS is compared with Lutefisk, a well-known de novo sequencing software, using quadrupole-time-of-flight (Q-TOF) data obtained for several tryptic peptides from standard proteins. Copyright (C) 2003 John Wiley Sons, Ltd.