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pValid 2: A deep learning based validation method for peptide identification in shotgun proteomics with increased discriminating power 期刊论文
JOURNAL OF PROTEOMICS, 2022, 卷号: 251, 页码: 9
作者:  Zhou, Wen-Jing;  Wei, Zhuo-Hong;  He, Si-Min;  Chi, Hao
收藏  |  浏览/下载：31/0  |  提交时间：2022/06/21
Proteomics  Tandem mass spectrometry  Retention time  Validation method  Deep learning  
pDeepXL: MS/MS Spectrum Prediction for Cross-Linked Peptide Pairs by Deep Learning 期刊论文
JOURNAL OF PROTEOME RESEARCH, 2021, 卷号: 20, 期号: 5, 页码: 2570-2582
作者:  Chen, Zhen-Lin;  Mao, Peng-Zhi;  Zeng, Wen-Feng;  Chi, Hao;  He, Si-Min
收藏  |  浏览/下载：39/0  |  提交时间：2021/12/01
cross-linking mass spectrometry  spectrum prediction  deep learning  transfer learning  online fine-tuning  
A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides 期刊论文
NATURE COMMUNICATIONS, 2019, 卷号: 10, 页码: 12
作者:  Chen, Zhen-Lin;  Meng, Jia-Ming;  Cao, Yong;  Yin, Ji-Li;  Fang, Run-Qian;  Fan, Sheng-Bo;  Liu, Chao;  Zeng, Wen-Feng;  Ding, Yue-He;  Tan, Dan;  Wu, Long;  Zhou, Wen-Jing;  Chi, Hao;  Sun, Rui-Xiang;  Dong, Meng-Qiu;  He, Si-Min
收藏  |  浏览/下载：91/0  |  提交时间：2019/12/10
Comprehensive identification of peptides in tandem mass spectra using an efficient open search engine 期刊论文
NATURE BIOTECHNOLOGY, 2018, 卷号: 36, 期号: 11, 页码: 1059-+
作者:  Chi, Hao;  Liu, Chao;  Yang, Hao;  Zeng, Wen-Feng;  Wu, Long;  Zhou, Wen-Jing;  Wang, Rui-Min;  Niu, Xiu-Nan;  Ding, Yue-He;  Zhang, Yao;  Wang, Zhao-Wei;  Chen, Zhen-Lin;  Sun, Rui-Xiang;  Liu, Tao;  Tan, Guang-Ming;  Dong, Meng-Qiu;  Xu, Ping;  Zhang, Pei-Heng;  He, Si-Min
收藏  |  浏览/下载：84/0  |  提交时间：2019/08/16
pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning 期刊论文
ANALYTICAL CHEMISTRY, 2017, 卷号: 89, 期号: 23, 页码: 12690-12697
作者:  Zhou, Xie-Xuan;  Zeng, Wen-Feng;  Chi, Hao;  Luo, Chunjie;  Liu, Chao;  Zhan, Jianfeng;  He, Si-Min;  Zhang, Zhifei
收藏  |  浏览/下载：67/0  |  提交时间：2019/12/10
pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification 期刊论文
NATURE COMMUNICATIONS, 2017, 卷号: 8, 页码: 14
作者:  Liu, Ming-Qi;  Zeng, Wen-Feng;  Fang, Pan;  Cao, Wei-Qian;  Liu, Chao;  Yan, Guo-Quan;  Zhang, Yang;  Peng, Chao;  Wu, Jian-Qiang;  Zhang, Xiao-Jin;  Tu, Hui-Jun;  Chi, Hao;  Sun, Rui-Xiang;  Cao, Yong;  Dong, Meng-Qiu;  Jiang, Bi-Yun;  Huang, Jiang-Ming;  Shen, Hua-Li;  Wong, Catherine C. L.;  He, Si-Min;  Yang, Peng-Yuan
收藏  |  浏览/下载：79/0  |  提交时间：2019/12/12
pFind-Alioth: A novel unrestricted database search algorithm to improve the interpretation of high-resolution MS/MS data (Reprinted from vol 125, pg 89-97, 2015) 期刊论文
JOURNAL OF PROTEOMICS, 2015, 卷号: 129, 页码: 33-41
作者:  Chi, Hao;  He, Kun;  Yang, Bing;  Chen, Zhen;  Sun, Rui-Xiang;  Fan, Sheng-Bo;  Zhang, Kun;  Liu, Chao;  Yuan, Zuo-Fei;  Wang, Quan-Hui;  Liu, Si-Qi;  Dong, Meng-Qiu;  He, Si-Min
收藏  |  浏览/下载：53/0  |  提交时间：2019/12/13
Unrestricted database search  Ion index  In-depth interpretation  High resolution MS/MS  
pFind-Alioth: A novel unrestricted database search algorithm to improve the interpretation of high-resolution MS/MS data 期刊论文
JOURNAL OF PROTEOMICS, 2015, 卷号: 125, 页码: 89-97
作者:  Chi, Hao;  He, Kun;  Yang, Bing;  Chen, Zhen;  Sun, Rui-Xiang;  Fan, Sheng-Bo;  Zhang, Kun;  Liu, Chao;  Yuan, Zuo-Fei;  Wang, Quan-Hui;  Liu, Si-Qi;  Dong, Meng-Qiu;  He, Si-Min
收藏  |  浏览/下载：60/0  |  提交时间：2019/12/13
Unrestricted database search  Ion index  In-depth interpretation  High resolution MS/MS  
Improved Peptide Identification for Proteomic Analysis Based on Comprehensive Characterization of Electron Transfer Dissociation Spectra 期刊论文
JOURNAL OF PROTEOME RESEARCH, 2010, 卷号: 9, 期号: 12, 页码: 6354-6367
作者:  Sun, Rui-Xiang;  Dong, Meng-Qiu;  Song, Chun-Qing;  Chi, Hao;  Yang, Bing;  Xiu, Li-Yun;  Tao, Li;  Jing, Ziu-Yi;  Liu, Chao;  Wang, Le-Heng;  Fu, Yan;  He, Si-Min
收藏  |  浏览/下载：61/0  |  提交时间：2019/12/16
ETD  hydrogen rearrangement  peptide sequencing  search engine  
An efficient parallelization of phosphorylated peptide and protein identification 期刊论文
RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 2010, 卷号: 24, 期号: 12, 页码: 1791-1798
作者:  Wang, Leheng;  Wang, Wenping;  Chi, Hao;  Wu, Yanjie;  Li, You;  Fu, Yan;  Zhou, Chen;  Sun, Ruixiang;  Wang, Haipeng;  Liu, Chao;  Yuan, Zuofei;  Xiu, Liyun;  He, Si-Min
收藏  |  浏览/下载：53/0  |  提交时间：2019/12/16