pNovo 3: precise de novo peptide sequencing using a learning-to-rank framework

por Yang, Hao, Chi, Hao, Zeng, Wen-Feng, Zhou, Wen-Jing, He, Si-Min
Publicado 2019

Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3

por Zeng, Wen-Feng, Cao, Wei-Qian, Liu, Ming-Qi, He, Si-Min, Yang, Peng-Yuan
Publicado 2021

Deep Learning in Proteomics

por Wen, Bo, Zeng, Wen‐Feng, Liao, Yuxing, Shi, Zhiao, Savage, Sara R., Jiang, Wen, Zhang, Bing
Publicado 2020

AlphaPeptDeep: a modular deep learning framework to predict peptide properties for proteomics

por Zeng, Wen-Feng, Zhou, Xie-Xuan, Willems, Sander, Ammar, Constantin, Wahle, Maria, Bludau, Isabell, Voytik, Eugenia, Strauss, Maximillian T., Mann, Matthias
Publicado 2022

Inhibition of Connexin 36 attenuates HMGB1‐mediated depressive‐like behaviors induced by chronic unpredictable mild stress

por Jiang, Qian, Li, Chao‐Ran, Zeng, Wen‐Feng, Xu, Hui‐Jing, Li, Jia‐Mei, Zhang, Ting, Deng, Guang‐Hui, Wang, Yun‐Xia
Publicado 2022

The structural context of posttranslational modifications at a proteome-wide scale

por Bludau, Isabell, Willems, Sander, Zeng, Wen-Feng, Strauss, Maximilian T., Hansen, Fynn M., Tanzer, Maria C., Karayel, Ozge, Schulman, Brenda A., Mann, Matthias
Publicado 2022

A note on the false discovery rate of novel peptides in proteogenomics

por Zhang, Kun, Fu, Yan, Zeng, Wen-Feng, He, Kun, Chi, Hao, Liu, Chao, Li, Yan-Chang, Gao, Yuan, Xu, Ping, He, Si-Min
Publicado 2015

N6-methyladenosine Regulator-Mediated Immune Genes Identify Breast Cancer Immune Subtypes and Predict Immunotherapy Efficacy

por Zhang, Meng-Meng, Lin, Yi-Lin, Zeng, Wen-Feng, Li, Yang, Yang, Yang, Liu, Miao, Ye, Ying-Jiang, Jiang, Ke-Wei, Wang, Shu, Wang, Shan
Publicado 2021

Quantitative multiorgan proteomics of fatal COVID‐19 uncovers tissue‐specific effects beyond inflammation

por Schweizer, Lisa, Schaller, Tina, Zwiebel, Maximilian, Karayel, Özge, Müller‐Reif, Johannes Bruno, Zeng, Wen‐Feng, Dintner, Sebastian, Nordmann, Thierry M, Hirschbühl, Klaus, Märkl, Bruno, Claus, Rainer, Mann, Matthias
Publicado 2023

Deep-Learning-Derived Evaluation Metrics Enable Effective Benchmarking of Computational Tools for Phosphopeptide Identification

por Jiang, Wen, Wen, Bo, Li, Kai, Zeng, Wen-Feng, da Veiga Leprevost, Felipe, Moon, Jamie, Petyuk, Vladislav A., Edwards, Nathan J., Liu, Tao, Nesvizhskii, Alexey I., Zhang, Bing
Publicado 2021

In-depth mapping of the mouse brain N-glycoproteome reveals widespread N-glycosylation of diverse brain proteins

por Fang, Pan, Wang, Xin-jian, Xue, Yu, Liu, Ming-qi, Zeng, Wen-feng, Zhang, Yang, Zhang, Lei, Gao, Xing, Yan, Guo-quan, Yao, Jun, Shen, Hua-li, Yang, Peng-yuan
Publicado 2016

pGlycoQuant with a deep residual network for quantitative glycoproteomics at intact glycopeptide level

por Kong, Siyuan, Gong, Pengyun, Zeng, Wen-Feng, Jiang, Biyun, Hou, Xinhang, Zhang, Yang, Zhao, Huanhuan, Liu, Mingqi, Yan, Guoquan, Zhou, Xinwen, Qiao, Xihua, Wu, Mengxi, Yang, Pengyuan, Liu, Chao, Cao, Weiqian
Publicado 2022

pGlyco: a pipeline for the identification of intact N-glycopeptides by using HCD- and CID-MS/MS and MS3

por Zeng, Wen-Feng, Liu, Ming-Qi, Zhang, Yang, Wu, Jian-Qiang, Fang, Pan, Peng, Chao, Nie, Aiying, Yan, Guoquan, Cao, Weiqian, Liu, Chao, Chi, Hao, Sun, Rui-Xiang, Wong, Catherine C. L., He, Si-Min, Yang, Pengyuan
Publicado 2016

Robust dimethyl‐based multiplex‐DIA doubles single‐cell proteome depth via a reference channel

por Thielert, Marvin, Itang, Ericka CM, Ammar, Constantin, Rosenberger, Florian A, Bludau, Isabell, Schweizer, Lisa, Nordmann, Thierry M, Skowronek, Patricia, Wahle, Maria, Zeng, Wen‐Feng, Zhou, Xie‐Xuan, Brunner, Andreas‐David, Richter, Sabrina, Levesque, Mitchell P, Theis, Fabian J, Steger, Martin, Mann, Matthias
Publicado 2023

A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides

por 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
Publicado 2019

pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification

por 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
Publicado 2017