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Journal of Proteomics|November 5, 2021
pValid 2: A deep learning based validation method for peptide identification in shotgun proteomics with increased discriminating powerWen-Jing Zhou, Zhuo-Hong Wei, Si-Min He, et al.Bioinformatics (Oxford, England)|September 13, 2019
pNovo 3: precise de novo peptide sequencing using a learning-to-rank frameworkHao Yang, Hao Chi, Wen-Feng Zeng, et al.Journal of Proteome Research|April 6, 2021
pDeepXL: MS/MS Spectrum Prediction for Cross-Linked Peptide Pairs by Deep LearningZhen-Lin Chen, Peng-Zhi Mao, Wen-Feng Zeng, et al.Bioinformatics (Oxford, England)|July 1, 2008
FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search spaceXiang Chen, Si-Min He, Dongbo Bu, et al.Nature Methods|November 26, 2021
Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3Wen-Feng Zeng, Wei-Qian Cao, Ming-Qi Liu, et al.Journal of Proteome Research|June 28, 2019
pValid: Validation Beyond the Target-Decoy Approach for Peptide Identification in Shotgun ProteomicsWen-Jing Zhou, Hao Yang, Wen-Feng Zeng, et al.Analytical Chemistry|July 9, 2019
MS/MS Spectrum Prediction for Modified Peptides Using pDeep2 Trained by Transfer LearningWen-Feng Zeng, Xie-Xuan Zhou, Wen-Jing Zhou, et al.Methods in Molecular Biology (Clifton, N.J.)|June 3, 2022
Accurate Proteoform Identification and Quantitation Using pTop 2.0Rui-Xiang Sun, Rui-Min Wang, Lan Luo, et al.Molecular & Cellular Proteomics : MCP|February 16, 2011
DeltAMT: a statistical algorithm for fast detection of protein modifications from LC-MS/MS dataYan Fu, Li-Yun Xiu, Wei Jia, et al.Bioinformatics (Oxford, England)|June 10, 2010
Open MS/MS spectral library search to identify unanticipated post-translational modifications and increase spectral identification rateDing Ye, Yan Fu, Rui-Xiang Sun, et al.Pageof 6