周耀旗课题组 
蛋白药物设计及分子检测研究

English Version
​詹剑

学习经历

2004年获得中国科学技术大学学士学位

2010年获得中国科学技术大学博士学位



工作经历

2005年在中国科学院上海植物生理生态研究所作为访问研究助理

2010-2013年在美国印第安纳大学与普渡大学印第安纳波里斯联合分校作为博士后;

2013-2021年在澳大利亚格里菲斯大学糖组学研究所作为研究人员;

现在是深圳湾实验研究员。



研究方向

抗病毒药物筛选和蛋白药物设计

RNA病毒的基因组结构

RNA病毒的传播途径和易感性预测



发表文章

1.Sheng Yang, Huabao Zheng, Shiyuan Hu, Junjie Yang, Zhoutong Sun, Wenchaofan, He Huang, Jian Zhan, Yinhua Lu, Shimin Jiang, Jingang Wang, Yuwei Li, Lei Chen, Chunhong Guan, Lijun Shao, Liuyang Dao, Jun Chen, Yunliu Yang, Weihong Jiang. A Novel Shikimic Acid Production Strain and its Construction Method. Patent Application Number: CN200610030985.8.

2.Jian Zhan#, Bo Ding#, Rui Ma, Xiaoyu Ma, Xiaofeng Su, Yun Zhao, Ziqing Liu, Jiarui Wu & Haiyan Liu. Develop Reusable and Combinable Designs for Transcriptional Logic Gates. Molecular Systems Biology Jul 13;6:388, 2010.

3.S. J. Fleishman, T. A. Whitehead, E.-M. Strauch, J. E. Corn, S. Qin, H.-X. Zhou, J. C. Mitchell, O. N. Demerdash, M. Takeda-Shitaka, G. Terashi, I. H. Moal, X. Li, P. A. Bates, M. Zacharias, H. Park, J. Ko, H. Lee, C. Seok, T. Bourquard, J. Bernauer, A. Poupon, J. Aze, S. Soner, S. K. Ovali, P. Ozbek, N. Ben Tal, T. Haliloglu, H. Hwang, T. Vreven, B. G. Pierce, Z. Weng, L. Perez-Cano, C. Pons, J. Fernadez-Recio, F. Jiang, F. Yang, X. Gong, L. Cao, X. Xu, B. Liu, P. Wang, C. Li, C. Wang, C. H. Robert, M. Guharoy, S. Liu, Y. Huang, L. Li , D. Guo, Y. Chen, Y. Xiao, N. London, Z. Itzhaki, O. Schueler-Furman, Y. Inbar, V. Patapov, M. Cohen, G. Schreiber, Y. Tsuchiya, E. Kanamori, D. M. Standley, H. Nakamura, K. Kinoshita, C. M. Driggers, R. G. Hall, J. L. Morgan, V. L. Hsu, J. Zhan, Y. Yang, Y. Zhou, P. L. Kastritis, A. M. J. J. Bonvin, W. Zhang, C. J. Camacho, K. P. Kilambi, A. Sircar, J. J. Gray, M, Ohue, N. Uchikoga, Y. Matsuzaki, T. Ishida, Y. Akiyama, R. Khashan, S. Bush, D. Fouches, A. Tropsha, J. Esquivel-Rodrigez, D. Kihara, P. B. Stranges, R. Jacak, B. Kuhlman, S. Huang, X. Zou, S. J. Wodak, J. Janin, and D. Baker, Community-wide assessment of protein-interface modeling suggests improvements to design methodology, J. Molec. Biol. 114, 289-302, 2011.

4.YuedongYang, Jian Zhan, Huiying Zhao, and Yaoqi Zhou, A new size-independent score for pairwise protein structure alignment and its assessment by structure classification and nucleic-acid binding prediction, Proteins 80, 2080-2088, 2012.

5.Zhixiu Li, Yuedong Yang, Jian Zhan, Liang Dai, Yaoqi Zhou. Energy Functions in De Novo Protein Design: Current Challenges and Future Prospects. Ann. Rev. Biophysics 42, 315-335 (2013).

6.Z. Li, Y. Yang, E. Faraggi, J. Zhan, and Y. Zhou, Direct prediction of the profile of sequences compatible to a protein structure by neural networks with fragment-based local and energy-based nonlocal profiles., Proteins, 82, 2565-2573 (2014).

7.Y. Yang, J. Zhan and Y. Zhou, "SPOT-Ligand: Fast and effective structure-based virtual screening by binding homology search according to ligand and receptor similarity", Journal of Computational Chemistry, 37, 1734-1739, (2016).

8.G. Ni, S. Chen, Y. Yang, S. F. Cummins, J. Zhan, Z. Li, B. Zhu, K. Mounsey, S. Walton, M. Q. Wei, Y. Wang, Y. Zhou, T. Wang, and X. Liu, "Investigation the Possibility of Using Peptides with a Helical Repeating Pattern of Hydrophobic and Hydrophilic Residues to Inhibit IL-10", PLoS ONE, 11, e0153939 (2016).

9.W. Zhang, M. Yang, Y. Yang, J. Zhan, Y. Zhou and X. Zhao, Optimal Secretion of Alkali-tolerant Xylanase in Bacillus subtilis by Signal Peptide Screening, Applied Microbiology and Biotechnology, 100, 8745-8756 (2016).

10.Y. Yang, X. Li, H. Zhao, J. Zhan, J. Wang and Y. Zhou, Genome-scale characterization of RNA tertiary structures and their functional impact by RNA solvent accessibility prediction, RNA, 23: 14-22 (2017).

11.S. Xu, J. Zhan, B. Man, S. Jiang, W. Yue, S. Gao, C. Guo, H. Liu, Z. Li, J. Wang, and Y. Zhou, Real-time reliable determination of binding kinetics of DNA hybridization using a multi-channel graphene biosensor., Nature Communications 8, 14902 (2017). 

12.C. Jegousse, Y. Yang, J. Zhan, J. Wang, and Y. Zhou, Structural signatures of thermal adaptation of bacterial ribosomal RNA, transfer RNA, and messenger RNA, PLOS One 12, e0184722 (2017).

13.I. Guruge, G. Taherzadeh, J. Zhan, Y. Zhou, and Y. Yang, B-factor profile prediction for RNA flexibility using support vector machines, J. Comput. Chem. 39, 407-411 (2018)

14.J. Zhan#, H. Jia#, E. A. Semchenko, Y. Bian, A. M. Zhou, Z. Li, Y. Yang, J. Wang, S. Sarkar, M. Totsika, H. Blanchard, F. E.-C. Jen, Q. Ye, T. Haselhorst, M. P. Jennings, K. L. Seib, and Y. Zhou, “Self-derived structure-disrupting peptides targeting methionine aminopeptidase in pathogenic bacteria; a new strategy to generate antimicrobial peptides.”, FASEB J. , 33: 2095–2104 (2019).

15.B. Zhou, Y. Yang, J. Zhan, X. Dou, J. Wang, and Y. Zhou, Predicting functional long non-coding RNAs validated by low throughput experiments., RNA Biology, 16: 1555-1564 (2019).

16.Z. Zhang, P. Xiong, T. Zhang, J. Wang, J. Zhan*, and Y. Zhou*, Accurate inference of the full base-pairing structure of RNA by deep mutational scanning and covariation-induced deviation of activity., Nucleic Acids Research, 48:1451-1465 (2020).

17.Hao Zhang#, Haiyi Gong#, Da Xu#, Jing Wang#, Zhixiu Li, , Zifu Li, Xingang CuiJianru Xiao, Jian Zhan*, Tong Meng*, Wang Zhou*, Jianmin Liu*, Huji Xu*. The digestive system is a potential route of COVID-19: an analysis of single-cell co-expression pattern of key proteins in viral entry process. Gut 69, 1010–1018 (2020).

18.P. Xiong, R. Wu, J. Zhan* & Y. Zhou*. Pairing a high-resolution statistical potential with a nucleobase-centric sampling algorithm for improving RNA model refinement. Nature Communications 2777 (2021).