PeakSelect: preprocessing tandem mass spectra for better peptide identification
文献类型：期刊论文
| 作者 | Zhang, J; He, S; Ling, CX; Ca, X; Zeng, R; Gao, W |
| 刊名 | RAPID COMMUNICATIONS IN MASS SPECTROMETRY
 |
| 出版日期 | 2008 |
| 卷号 | 22期号:8页码:1203-1212 |
| 通讯作者 | Zhang, J (reprint author), Chinese Acad Sci, Inst Comp Technol, Beijing 100080, Peoples R China.,zhangjingf@missouri.edu ; wgao@ict.ac.cn |
| 英文摘要 | We present a new preprocessing method, PeakSelect, to improve the accuracy and efficiency of Tandem Mass-Spec peptide (protein) identification. The fundamental difference between noise and fragment ions in spectra is that ions have isotopes but noise does not. We propose a new and important concept of an Isotope Pattern Vector (IPV) which characterizes the isotope cluster of fragment ions. Then the noise and real peaks can be distinguished by the quantitative IPV values. PeakSelect first uses a new method of the Gaussian Mixture Model and Expectation-Maximization (EM) algorithm to find the base intensity level (baseline) in a spectrum. Then PeakSelect selects features based on the IPV and baseline, and constructs a decision tree to automatically classify the peaks into different categories such as noise, single ion peaks, and overlapping peaks. Experiments show that PeakSelect can help to reduce the Mascot searching time and increase the reliability of peptide identifications. In particular, PeakSelect performs well on complex spectra with a large number of peaks from large peptides, and supports more sequence identification than other well-known systems. Copyright (c) 2008 John Wiley & Sons, Ltd. |
| 学科主题 | Chemistry; Spectroscopy |
| 类目[WOS] | Chemistry, Analytical ; Spectroscopy |
| 关键词[WOS] | COLLISION-INDUCED DISSOCIATION ; PROTEIN IDENTIFICATION ; SPECTROMETRY ; IONS ; PROTEOMICS ; DATABASE |
| 收录类别 | SCI |
| 语种 | 英语 |
| WOS记录号 | WOS:000255362300016 |
| 版本 | 出版稿 |
| 源URL | [http://202.127.25.143/handle/331003/1422]  |
| 专题 | 上海生化细胞研究所_上海生科院生化细胞研究所 |
| 推荐引用方式 GB/T 7714 | Zhang, J,He, S,Ling, CX,et al. PeakSelect: preprocessing tandem mass spectra for better peptide identification[J]. RAPID COMMUNICATIONS IN MASS SPECTROMETRY,2008,22(8):1203-1212. |
| APA | Zhang, J,He, S,Ling, CX,Ca, X,Zeng, R,&Gao, W.(2008).PeakSelect: preprocessing tandem mass spectra for better peptide identification.RAPID COMMUNICATIONS IN MASS SPECTROMETRY,22(8),1203-1212. |
| MLA | Zhang, J,et al."PeakSelect: preprocessing tandem mass spectra for better peptide identification".RAPID COMMUNICATIONS IN MASS SPECTROMETRY 22.8(2008):1203-1212. |
入库方式： OAI收割
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