SILVER helps assign peptides to tandem mass spectra using intensity-based scoring
SILVER helps assign peptides to tandem mass spectra using intensity-based scoring
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DOI：
10.1016/j.jasms.2004.02.011
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发表时间：
2004-06-01
影响因子：
3.2
通讯作者：
Roth, FP
中科院分区：
文献类型：
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作者：
Gibbons, FD;Elias, JE;Roth, FP
串联质谱法通常用于鉴定复杂混合物中存在的肽（从而鉴定蛋白质）。来自串联质谱的肽鉴定是部分自动化的，但仍然需要人工管理来解决“边界”肽谱匹配（PSM）。银是一种基于网络的软件，可帮助手动管理串联质谱，使用最近开发的基于强度的机器学习方法对PSM进行评分，Elias等人[4]。在该方法中，匹配和失配PSM的肽、片段和峰强度性质的大训练集用于开发测量候选肽的每个预测片段离子与其对应的观察到的光谱峰强度之间的一致性的评分。银界面提供了每个候选碎片离子与观察到的光谱之间匹配质量的可视化表示，从而加快了串联质谱的手动管理。银可在http://llama.med.harvard.edu/Software.html在线获得。(C)2004年美国质谱学会。
Tandem mass spectrometry is commonly used to identify peptides (and thereby proteins) that are present in complex mixtures. Peptide identification from tandem mass spectra is partially automated, but still requires human curation to resolve "borderline" peptide-spectrum matches (PSMs). SILVER is web-based software that assists manual curation of tandem mass spectra, using a recently developed intensity-based machine-learning approach to scoring PSMs, Elias et al. [4]. In this method, a large training set of peptide, fragment, and peak-intensity properties for both matched and mismatched PSMs was used to develop a score measuring consistency between each predicted fragment ion of a candidate peptide and its corresponding observed spectral peak intensity. The SILVER interface provides a visual representation of match quality between each candidate fragment ion and the observed spectrum, thereby expediting manual curation of tandem mass spectra. SILVER is available online at http://llama.med.harvard.edu/Software.html. (C) 2004 American Society for Mass Spectrometry.