1. Ran Zhang*, Menghua Wu*, Dan Xiang*, Jieying Zhu*, Qi Zhang*, Hui Zhong*, Yuling Peng, Zhenhua Wang, Gang Ma, Guihuan Li, Fengping Liu, Weipeng Ye, Ruona Shi, Xuemeng Zhou, Isaac A. Babarinde, Huanxing Su, Jiekai Chen, Xiaofei Zhang＃, Dajiang Qin＃, Andrew P. Hutchins＃, Duanqing Pei＃, Dongwei Li＃. A primate-specific endogenous retroviral envelope protein sequesters SFRP2 to regulate human cardiomyocyte development. Cell Stem Cell., 10.1016/j.stem.2024.07.006
2. Yufei Wang*, Wanlin Zhang*, Ruona Shi*, Yanran Luo, Zhenhuan Feng, Yanhong Chen, Qiuting Zhang, Yan Zhou, Jingtong Liang, Xiaoping Ye, Qisheng Feng, Xiaofei Zhang＃, Miao Xu＃. Identification of HLA-A*11:01 and A*02:01-Restricted EBV Peptides Using HLA Peptidomics. Viruses., 2024 Apr; 10.3390/v16050669
3. Xue Shi, Xiaofei Zhang＃. Control of ATG14 solubility and autophagy by MARCHF7/MARCH7-mediated ubiquitination. Autophagy., 2023 Nov; 10.1080/15548627.2023.2278414
4. Zhenhuan Feng*, Peiyang Fang*, Hui Zheng, Xiaofei Zhang＃. DEP2: an upgraded comprehensive analysis toolkit for quantitative proteomics data. Bioinformatics., 2023 Aug 1;39(8):btad526
5. Xue Shi, Wenfeng Wu, Zhenhuan Feng, Peiyang Fan, Ruona Shi, Xiaofei Zhang＃. MARCH7-Mediated Ubiquitination Decreases the Solubility of ATG14 to Inhibit Autophagy. Cell Reports., 2023 Aug 25;42(9):113045
6. Mingwei Sun*, Qing Zhang*, Baofeng Zhao, Qiuling Huang, Wenfeng Wu, Peiyang Fan, Lihua Zhang＃, Xiaofei Zhang＃. Antibody-free approach for ubiquitination profiling by selectively clicking the ubiquitination sites. Analytica Chimica Acta., 2023, Mar 15; 1246:340877
7. Xiaotong Cen, Qing Chen, Bin Wang, Hongjie Xu, Xu Wang, Yixia Ling, Xiaofei Zhang＃ and Dajing Qin＃. UBE2O ubiquitinates PTRF/CAVIN1 and inhibits the secretion of exosome-related PTRF/CAVIN1. Cell Communication and Signaling., 2022, Nov 28;20(1):191
8. Yaping Chen, Xiaofei Zhang＃. TRABID targets DDB2 for deubiquitination to promote proliferation  of hepatocellular carcinoma cells. Biochemical and Biophysical Research Communications., 2022, Oct 15;625:23-30
9. Mingwei Sun, Xiaofei Zhang＃. Current Methodologies in Protein UbiquitinationCharacterization: from Ubiquitinated Protein to Ubiquitin Chain Architecture. 2022, Cell & Bioscience., Aug;12(1):126
10. Qiuling Huang, Dajiang Qin, Duanqing Pei, Michiel Vermeulen, Xiaofei Zhang＃. UBE2O and USP7 co-regulate RECQL4 ubiquitination and homologous recombination-mediated DNA repair. FASEB J., 2022 Jan;36(1):e22112
11. Yuling Qi, Zhenhuan Feng, Xu Wang, Yaping Chen, Xiaofei Zhang＃. Characterization of the USP10 protein interactome idenfies UPF1 as a USP10-associated protein. Chinese Journal of Biochemistry and Molecular Biology (中国生物化学与分子生物学学报)., 2021 Dec 37(12):1638-1647
12. Ruona Shi*, Zhenhuan Feng*, Xiaofei Zhang＃. Integrative Multi-omics Landscape of Non-structural Protein 3 of Severe Acute Respiratory Syndrome Coronaviruses. Genomics, Proteomics & Bioinformatics., 2021; Nov 10;S1672-0229(21)00241-2
13. Ruona Shi, Xue Shi, Dajiang Qin, Shibing Tang, Michiel Vermeulen, Xiaofei Zhang＃. SNX27-driven membrane localisation of OTULIN antagonises linear ubiquitination and NF-κB signalling activation. Cell & Bioscience., 2021 Jul 27;11(1):146
14. Pingping Chen*, Hexige Saiyin*, Ruona Shi, Bin Liu, Xu Han, Yuping Gao, Xiantao Ye, Xiaofei Zhang＃, Yu Sun＃.  Loss of SPACA1 function causes autosomal recessive globozoospermia by damaging the acrosome-acroplaxome complex. Human reproduction., 2021 Aug 18;36(9):2587-2596
15. Qiuling Huang, Xiaofei Zhang＃. Emerging Roles and Research Tools of Atypical Ubiquitination. Proteomics., 2020 May; 20 (9)
16. Xiaofei Zhang*＃, Arne H. Smits*＃, Gabrielle B.A. van Tilburg*, Huib Ovaa, Wolfgang Huber, Michiel Vermeulen＃. Proteome-wide identification of ubiquitin interactions using UbIA-MS. Nature Protocols., 13, 530-550 (2018)
17. Xiaofei Zhang*＃, Arne H. Smits*, Gabrielle B.A. van Tilburg*, Pascal W.T.C. Jansen, Matthew M. Makowski, Huib Ovaa＃, Michiel Vermeulen＃. An Interaction Landscape of Ubiquitin Signaling. Molecular Cell., 65, 941–955 (2017)
18. Xiaofei Zhang, Juan Zhang, Andreas Bauer, Long Zhang, Douglas W Selinger, Chris X. Lu, and Peter ten Dijke. Fine-tuning BMP7 signalling in adipogenesis by UBE2O/E2-230K-mediated monoubiquitination of SMAD6. EMBO. J., 2013 Apr 3;32(7):996-1007
19. Xiaofei Zhang*, Juan Zhang*, Hans van Dam, Peter ten Dijke. UBE2O negatively regulates TRAF6-mediated NF-κB activation by inhibiting TRAF6 polyubiquitination.  Cell Research., 2013 Mar; 23(3):366-77
20. Juan Zhang*, Xiaofei Zhang*, Long Zhang, Fangfang Zhou, Maarten van Dinther, Peter ten Dijke. LRP8 mediates Wnt/β-catenin signaling and controls osteoblast differentiation. J Bone Miner Res., 2012 Oct;27(10):2065-74
21. Juan Zhang*, Xiaofei Zhang*, Yunqian Guo*, Liangliang Xu* and Duanqing Pei. Sorting nexin 33 induces mammalian cell micronucleated phenotype and actin polymerization by interacting with wiskott-aldrich syndrome protein. J. Biol. Chem., 2009; 284(32):21659-69
22. Juan Zhang*, Xiaofei Zhang*, and Duanqing Pei. Mutations of Nuclear Localization Signals in mNANOG generate Dominant Negative Mutants. Chinese Science Bulletin., 2009, Vol. 54 (8): 1361-1368
23. Xiaofei Zhang*, Juan Zhang*, Tao Wang, Miguel A. Esteban, and Duanqing Pei. Esrrb activates oct4 transcription and sustains self-renewal and pluripotency in embryonic stem cells. J. Biol. Chem., 2008; 283(51):35825-33

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