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Null-free False Discovery Rate Control Using Decoy Permutations 期刊论文
ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES, 2022, 卷号: 38, 期号: 2, 页码: 235-253
Authors:  He, Kun;  Li, Meng-jie;  Fu, Yan;  Gong, Fu-zhou;  Sun, Xiao-ming
Favorite  |  View/Download:170/0  |  Submit date:2022/06/21
multiple testing  false discovery rate  null distribution-free  p-value-free  decoy permutations  knockoff filter  
DeepDigest: Prediction of Protein Proteolytic Digestion with Deep Learning 期刊论文
ANALYTICAL CHEMISTRY, 2021, 卷号: 93, 期号: 15, 页码: 6094-6103
Authors:  Yang, Jinghan;  Gao, Zhiqiang;  Ren, Xiuhan;  Sheng, Jie;  Xu, Ping;  Chang, Cheng;  Fu, Yan
Favorite  |  View/Download:178/0  |  Submit date:2021/10/26
Unambiguous Phosphosite Localization through the Combination of Trypsin and LysargiNase Mirror Spectra in a Large-Scale Phosphoproteome Study 期刊论文
JOURNAL OF PROTEOME RESEARCH, 2020, 卷号: 19, 期号: 6, 页码: 2185-2194
Authors:  Xu, Feng;  Yu, Li;  Peng, Xuehui;  Zhang, Junling;  Li, Suzhen;  Liu, Shu;  Yin, Yanan;  An, Zhiwu;  Wang, Fuqiang;  Fu, Yan;  Xu, Ping
Favorite  |  View/Download:234/0  |  Submit date:2020/09/23
trypsin  LysargiNase  combined spectra  ion coverage  phosphosite localization  PTMiner  
Transfer posterior error probability estimation for peptide identification 期刊论文
BMC Bioinformatics, 2020, 卷号: 21, 期号: 1
Authors:  Yi,Xinpei;  Gong,Fuzhou;  Fu,Yan
Favorite  |  View/Download:178/0  |  Submit date:2020/05/24
Proteomics  Mass spectrometry  Quality control  Posterior error probability  Local false discovery rate  Transfer learning  
Large-scale Identification of N-linked Intact Glycopeptides in Human Serum using HILIC Enrichment and Spectral Library Search 期刊论文
MOLECULAR & CELLULAR PROTEOMICS, 2020, 卷号: 19, 期号: 4, 页码: 672-689
Authors:  Shu, Qingbo;  Li, Mengjie;  Shu, Lian;  An, Zhiwu;  Wang, Jifeng;  Lv, Hao;  Yang, Ming;  Cai, Tanxi;  Hu, Tony;  Fu, Yan;  Yang, Fuquan
Favorite  |  View/Download:209/0  |  Submit date:2020/05/24
AP3: An Advanced Proteotypic Peptide Predictor for Targeted Proteomics by Incorporating Peptide Digestibility 期刊论文
ANALYTICAL CHEMISTRY, 2019, 卷号: 91, 期号: 13, 页码: 8705-8711
Authors:  Gao, Zhiqiang;  Chang, Cheng;  Yang, Jinghan;  Zhu, Yunping;  Fu, Yan
Favorite  |  View/Download:234/0  |  Submit date:2020/01/10
GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes 期刊论文
GENOME RESEARCH, 2019, 卷号: 29, 期号: 4, 页码: 682-696
Authors:  Shao, Yi;  Chen, Chunyan;  Shen, Hao;  He, Bin Z.;  Yu, Daqi;  Jiang, Shuai;  Zhao, Shilei;  Gao, Zhiqiang;  Zhu, Zhenglin;  Chen, Xi;  Fu, Yan;  Chen, Hua;  Gao, Ge;  Long, Manyuan;  Zhang, Yong E.
Favorite  |  View/Download:236/0  |  Submit date:2020/01/10
PTMiner: Localization and Quality Control of Protein Modifications Detected in an Open Search and Its Application to Comprehensive Post-translational Modification Characterization in Human Proteome 期刊论文
MOLECULAR & CELLULAR PROTEOMICS, 2019, 卷号: 18, 期号: 2, 页码: 391-405
Authors:  An, Zhiwu;  Zhai, Linhui;  Ying, Wantao;  Qian, Xiaohong;  Gong, Fuzhou;  Tan, Minjia;  Fu, Yan
Favorite  |  View/Download:596/0  |  Submit date:2019/03/11
LFAQ: Toward Unbiased Label-Free Absolute Protein Quantification by Predicting Peptide Quantitative Factors 期刊论文
ANALYTICAL CHEMISTRY, 2019, 卷号: 91, 期号: 2, 页码: 1335-1343
Authors:  Chang, Cheng;  Gao, Zhiqiang;  Ying, Wantao;  Fu, Yan;  Zhao, Yan;  Wu, Songfeng;  Li, Mengjie;  Wang, Guibin;  Qian, Xiaohong;  Zhu, Yunping;  He, Fuchu
Favorite  |  View/Download:224/0  |  Submit date:2019/03/05
Quality control of single amino acid variations detected by tandem mass spectrometry 期刊论文
JOURNAL OF PROTEOMICS, 2018, 卷号: 187, 页码: 144-151
Authors:  Yi, Xinpei;  Wang, Bo;  An, Zhiwu;  Gong, Fuzhou;  Li, Jing;  Fu, Yan
Favorite  |  View/Download:331/0  |  Submit date:2018/11/16
Single amino acid variations  Mass spectrometry  Peptide identification  False discovery rate  Unrestrictive mass shift relocalization