1.State Key Laboratory of Computer Architecture,Institute of Computing Technology(ICT),Chinese Academy of Sciences(CAS),Beijing 100190,China;2.University of Chinese Academy of Sciences,Beijing 100049,China;3.Key Laboratory of Intelligent Information Processing of Chinese Academy of Sciences,Institute of Computing Techology(ICT), Chinese Academy of Sciences(CAS),Beijing 100190,China;4.Department of Physiology and Pathophysiology,Capital Medical University,Beijing 100069,China
This work was supported by a grant from The National Key Research Program of China (2016YFB1000605).
Tandem mass spectrometry (MS/MS)-based proteomics has become one of the most important tools in bioscience, and researchers now pay much attention to the prediction of MS/MS spectra for protein identification and quantification. With the accumulation of massive high-quality spectrum data and the development of computing technology, quite a few new methods were emerged to solve this problem. These methods can be divided into two catagories:mobile proton model-based methods, such as MassAnalyzer and MS-Simulator; and machine learning-based methods, including traditional machine learning and deep learning, such as PeptideART, MS2PIP, MS2PBPI and pDeep. In this paper, we investigated a wide variety of corresponding methods, and briefly pointed out the deficiencies of existing software tools, and suggested the future work.
ZHOU Xie-Xuan, REN Rui, GAO Wan-Ling, HUANG Yun-You, ZENG Wen-Feng, KONG De-Fei, HAO Tian-Shu, ZHANG Zhi-Fei, ZHAN Jian-Feng. Trends on Methods for Prediction of Tandem Mass Spectra of Peptides[J]. Progress in Biochemistry and Biophysics,2019,46(2):169-180
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