无标题文档
ÎÞ±êÌâÎĵµ
  
首页 >> 计算化学研究组 >>
陈海峰博士介绍(PI)

 

chenhaifeng课题组长:陈海峰,男,博士,副教授,博士生导师,课题组长。1994年本科毕业于西安交通大学高分子材料系,获化工部科技兴化奖。1997年硕士毕业于四川大学化学纤维专业,师从吴大诚教授。2003年博士毕业于法国巴黎第七大学计算化学专业,博士论文为“计算机辅助的有机分子质谱模拟系统研究”,导师是巴黎第七大学的范波涛教授。2005年至2006年在美国加州大学尔湾分校Ray Luo课题组从事博士后研究,进行生物大分子的结构与功能关系的结构生物信息学研究。2007年1月加盟上海交通大学生命科学技术学院,上海生物信息技术研究中心课题组长。现已在JACS,NAR, RNA等国际著名学术期刊发表了60多篇SCI论文,其中本人为第一作者或通讯作者的SCI论文40篇,SCI影响因子累计超过150。申请四项专利,八项软件著作权,获2003年度上海市科技进步一等奖一项。2010年获得上海市浦江人才资助。

【课题组研究方向】
1)天然无规蛋白折叠机理及分子力场开发。
2)与老年痴呆相关的淀粉纤维蛋白错误折叠的分子机理。
3)利用生物信息学的方法研究microRNA上调蛋白翻译的作用机制。
4)计算机辅助创新药物设计。

【科研项目】
1)主持国家自然科学基金两项
“与重大疾病相关的淀粉纤维蛋白的聚集机理的理论研究” (项目编号30770502)
“microRNA上调蛋白质翻译分子机制的生物信息学研究与实验验证” (项目编号31271403)
2)主持上海市浦江人才计划
“蛋白翻译后修饰位点的标定及转录调控的分子机制” (项目编号10PJD010)
3)主持上海市自然科学基金一项
“导致老年痴呆的淀粉纤维蛋白错误折叠机理的理论研究” (项目编号10ZR1414500)
4)主持上海市教委创新重点项目一项
“microRNA翻译上调机制的生物信息学研究” (项目编号12ZZ023)

【申请专利】

1)彩色二维标识码、产生方法以及用途,申请号02136018,2002年
2)中药中化学成份中核心结构的产生及其可视化方法, 申请号02145270,  2002年
3)化学反应的分类和知识模型的建立及其可视化方法,  申请号03141642, 2003年
4)取代的三环香豆素类化合物、其制备及抗HIV的应用,申请号200410092970, 2004年

【主要论文】
1. Hong-Xin Zhang, Zi-Xing Liu, Yue-Ping Sun, Jiang Zhu, Shun-Yuan Lu, Xue-Song Liu, Qiu-Hua Huang,Yin-Yin Xie, Hou-Bao Zhu, Su-Ying Dang, Hai-Feng Chen, Guang-Yong Zheng, Yi-Xue Li, Ying Kuang, Jian Fei,Sai-Juan Chen, Zhu Chen, Zhu-Gang Wang. Rig-I regulates NF-κB activity through binding to Nf-κb1 3′-UTR mRNA. PNAS, 110:6459-6464, 2013.
2. Wei Wang, Wei Ye, Qingfen Yu, Cheng Jiang, Jian Zhang, Ray Luo, Hai-Feng Chen*.Conformational Selection and Induced Fit in Specific Antibody and Antigen Recognition: SPE7 as a Case Study. JPCB, 117 :4912-4923,2013.
3. S.Y. Ma, W. Ye, D. J. Ji, H.F. Chen*. Insight into the Binding Mode between HIV-1 Integrase and Pyrimidone Analogue Inhibitors with MD Simulation and 3D-QSAR. Medicinal Chem. 9: 420 – 433,2013.
4. Qingfen Yu, Wei Ye, Wei Wang, Haifeng Chen*. Global Conformational Selection and Local Induced Fit for the Recognition between Intrinsic Disordered p53 and CBP. PLoS ONE. 8 :e59627,2013.
5. Wei Ye, Wei Wang, Cheng Jiang, Qingfen Yu, Hai-Feng Chen*.Molecular Dynamics Simulations of Amyloid Fibrils: An in Silico Approach. ABBS. 45 :503-508,2013.
6. Wei Ye, Fang Qin, Jian Zhang, Ray Luo, Hai-Feng Chen*. Atomistic Mechanism of microRNA Translation Upregulation via Molecular Dynamics Simulations. PLoS ONE. 7 :e43788,2012.
7. Wei Ye, Yue Chen, Wei Wang, Qingfen Yu, Yixue Li, Jian Zhang, Hai-Feng Chen*. Insight into the Stability of cross-beta Amyloid Fibril from VEALYL Short Peptide with Molecular Dynamics Simulation. PLoS ONE. 7 :e36382,2012.
8. Fang Qin, Wei Ye, Yue Chen, Xiaodong Chen, Yixue Li, Jian Zhang, Hai-Feng Chen*. Specific Recognition between Intrinsically Disordered LEF and DNA. Phys. Chem. Chem. Phys. 14:538-545,2012.
9. Guanwen Yan, Yue Chen, Yixue Li, Hai-Feng Chen*. Revealing Interaction Mode between HIV-1 Protease and Mannitol Analog Inhibitor. Chem Biol Drug Des 79 :916-925,2012.
10. Hao Zhang, Fang Qin, Wei Ye, Zeng Li, Songyao Ma, Yuan Xia, Yu Jiang, Jiayi Zhu, Yi-Xue Li, Jian Zhang, Hai-Feng Chen*. Revealing the Drug-Resistant Mechanism for Diarylpyrimidine Analogue Inhibitors of HIV-1 Reverse Transcriptase. Chem Biol Drug Des 78 : 427-437,2011.
11. Fang Qin, Yaobing Jiang, Yue Chen, Maoying Wu, Guanwen Yan, Wenjun Ye, Yi-Xue Li, Jian Zhang, Hai-Feng Chen*. Conformational Selection or Induced Fit for Brinker and DNA Recognition. Phys. Chem. Chem. Phys. 13 : 1407-1412,2011.
12. JiXiong, Hu Wang, GuangmingGuo, Shunzeng Wang, Liqun He, Hai-Feng Chen*, Ji Wu. Male Germ Cell Apoptosis and Epigenetic Histone Modification Induced by Tripterygiumwilfordii Hook F. PLoS ONE 6: e20751,2011.
13. Zhi-Ming Huang, Liang Zhu, Yan Cao, Geng Wu, Xinyi Liu, Yingyi Chen, Qi Wang, Ting Shi, Yaxue Zhao, Yuefei Wang, Weihua Li, Yi-Xue Li, Hai-Feng Chen*, Guoqiang Chen, Jian Zhang. ASD: a comprehensive database of allosteric proteins and modulators. Nucleic Acids Research. 39 : D663–D669,2011.
14. Z. Li, H. Zhang, Y. Li, J. Zhang, H. F. Chen*. Drug Resistant Mechanism of Diaryltriazine Analog Inhibitors of HIV-1 Reverse Transcriptase Using Molecular Dynamics Simulation and 3D-QSAR. Chem Biol Drug Des77 :63-74, 2011.
15. F. Qin, Y. Chen, M. Wu, Y. X. Li, J. Zhang, H. F. Chen*. Induced Fit or Conformational Selection for RNA/U1A folding. RNA 16:1053-1061,2010.
16. H. F. Chen*. Post-translational Modification of Phosphorylated KID from Molecular Dynamics Simulation. PLoS ONE 4: e6516, 2009.
17. H. F. Chen*. Mechanism of Coupled Folding and Binding in the siRNA-PAZ Complex. J. Chem. Theory Comput. 4: 1360-1368, 2008.
18. J. Wang, C. Tan, H. F. Chen, Ray Luo. All-Atom Computer Simulations of Amyloid Fibrils Disaggregation. Biophysics Journal.  95:5037-5047, 2008.
19. H. F. Chen*.Quantitative predictions of gas chromatography retention indexes with support vector machines, radial basis neural networks and multiple linear regression. Analytica Chimica Acta 609:24-36, 2008.
20. H. F. Chen*.Computational study of histamine H3-receptor antagonist with support vector machines and three dimension quantitative structure activity relationship methods. Analytica Chimica Acta 624:203-209, 2008.
21. F. Qin, Y. Chen, Y. X. Li, H. F. Chen*. Induced Fit of mRNA/TIS11d Complex.J. Chem. Phys. 131: 115103, 2009.
22. Y. Chen, Y.J. He, M. Wu, G. Yan, Y.X. Li, J. Zhang, H. F. Chen*. Insight into the Stability of Cross-β Amyloid Fibril from Molecular Dynamics Simulation. Biopolymers 93: 578-586, 2010.
23. Y. Chen, Z. Li , H. F. Chen*. Computational Study of CCR5 Antagonist with Support Vector Machines and Three Dimensional Quantitative Structure Activity Relationship Methods. Chem Biol Drug Des75: 295-309, 2010.
24. H. F. Chen*. Aggregation Mechanism Investigation of the GIFQINS cross- Amyloid Fibril. Comput. Bio. Chem. 33: 41–45, 2009.
25. H. F. Chen.* In SilicologP Prediction for a Large Data Set with Support Vector Machines, Radial Basis Neural Networks and Multiple Linear Regression. Chem Biol Drug Des 74: 142–147, 2009.
26. H. F. Chen*. Computational Study of the Binding Mode of Epidermal Growth Factor Receptor Kinase Inhibitors. Chem. Biol. Drug Des.71:434-446, 2008.
27. Z. Li, J. Han, H. F. Chen*. Revealing Interaction Mode between HIV-1 Reverse Transcriptase and Diaryltriazine Analog Inhibitor. Chem. Biol. Drug Des.72:350-359, 2008.
28. H. F. Chen, R. Luo. Binding induced folding in p53-MDM2 complex. J. Am. Chem. Soc. 129:2930-2937, 2007.
29. H. F. Chen*, M.Y. Wu, Z. Wang, D.Q. Wei. Insight into the Metabolism Rate of Quinone Analogues from Molecular Dynamics Simulation and 3D-QSMR Methods. Chem Biol Drug Des. 70:290–301, 2007.