JOURNAL PAPERS

01. F. Zhu, X.H. Ma, C. Qin, L. Tao, X. Liu, Z. Shi, C.L. Zhang, C.Y. Tan, Y.Y. Jiang and Y.Z. Chen. Drug Discovery Prospect from Untapped Species: Indications from Approved Natural Product Drugs. PLoS ONE. Accepted (2012).

02. F. Zhu, Z. Shi, C. Qin, L. Tao, F. Xu, L. Zhang, X.H. Liu, J.X. Zhang, B.C. Han, P. Zhang and Y.Z. Chen. Therapeutic Target Database Update 2012: A Resource for Facilitating Target-Oriented Drug Discovery. Nucleic Acids Res. 40(D1):D1128-D1136 (2012).

 

03. F. Zhu, C. Qin, L. Tao, X. Liu, Z. Shi, X.H. Ma, J. Jia, Y. Tan, C. Cui, J.S. Lin, C.Y. Tan, Y.Y. Jiang and Y.Z. Chen. Clustered patterns of species origins of nature-derived drugs and clues for future bioprospecting. PNAS. 108(31): 12943-8. (2011).

This work has been highlighted and reported by:

The following media have covered this work:

04. H.B. Rao, X.Y. Zeng, Y.Y. Wang, H. He, F. Zhu, Z.R. Li and Y.Z. Chen. Identification of DNA-Adduct formation of small molecules by molecular descriptors and machine learning methods. Mol Simul. (Accepted on Sep 5th, 2011).

05. H.B. Rao*, F. Zhu* (Joint First Author), G.B. Yang, Z.R. Li and Y.Z. Chen. Update of PROFEAT: a web server for computing structural and physicochemical features of proteins and peptides from amino acid sequences. Nucleic Acids Res. 39(suppl 2):W385-90. (2011).

06. X. Liu, F. Zhu, X.H. Ma, L. Tao, S.Y. Yang, Y.Q. Wei and Y.Z. Chen. The Therapeutic Target Database: an Internet resource for the primary targets of approved, clinical trial and experimental drugs. Expert Opin. Ther. Targets. 15(8):903-12(2011).

07. F. Zhu, B.C. Han, P. Kumar, X.H. Liu, X.H. Ma, X.N. Wei, L. Huang, Y.F. Guo, L.Y. Han, C.J. Zheng and Y.Z. Chen. Update of TTD: Therapeutic Target Database. Nucleic Acids Res. 38(suppl 1):D787-91. (2010).

08. F. Zhu, L.Y. Han, C.J. Zheng, B. Xie, M.T. Tammi, S.Y. Yang, Y.Q. Wei and Y.Z. Chen. What are next generation innovative therapeutic targets? Clues from genetic, structural, physicochemical and system profile of successful targets. J Pharmacol Exp Ther. 330(1):304-15(2009).

09. J. Jia, F. Zhu, X.H. Ma, Z.W. Cao, Y.X. Li and Y.Z. Chen. Mechanisms of drug combinations from interaction and network perspectives. Nat. Rev. Drug Discov. 8(2):111-28 (2009).

10. X.H. Ma, J. Jia, F. Zhu, Y. Xue, Z.R. Li and Y.Z. Chen. Comparative analysis of machine learning methods in ligand-based virtual screening of large compound libraries. Comb. Chem. High Throughput Screen. 12(4):344-357(2009).

11. F. Zhu, L.Y. Han, X. Chen, H.H. Lin, S. Ong, B. Xie, H.L. Zhang and Y.Z. Chen. Homology-Free Prediction of Functional Class of Proteins and Peptides by Support Vector Machines. Curr. Protein Pept. Sci. 9:70-95 (2008).

12. F. Zhu, C.J. Zheng, L.Y. Han, B. Xie, J. Jia, X. Liu, M.T. Tammi, S.Y. Yang, Y.Q. Wei and Y.Z. Chen. Trends in the Exploration of Anticancer Targets and Strategies in Enhancing the Efficacy of Drug Targeting. Curr Mol Pharmacol. 1(3):213-232 (2008).

13. L.Y. Han, X.H. Ma, H.H. Lin, J. Jia, F. Zhu, Y. Xue, Z.R. Li, Z.W. Cao, Z.L. Ji and Y.Z. Chen. A support vector machines approach for virtual screening of active compounds of single and multiple mechanisms from large libraries at an improved hit-rate and enrichment factor. J. Mol. Graph. Mod. 26(8):1276-1286 (2008).

14. L.Y. Han, C.J. Zheng, B. Xie, J. Jia, X.H. Ma, F. Zhu, H.H. Lin, X. Chen, and Y.Z. Chen. Support vector machines approach for predicting druggable proteins: recent progress in its exploration and investigation of its usefulness. Drug Discov. Today. 12(7-8): 304-313 (2007).

15. H.H Lin, L.Y. Han, C.W. Yap, Y. Xue, X.H. Liu, F. Zhu and Y.Z Chen. Prediction of Factor Xa Inhibitors by Machine Learning Methods. J. Mol. Graph. Mod. 26(2):505-518 (2007).

16. R. Li, Y. Chen, L.B. Cui, F. Zhu, J. Zhou, D.H. Liu, S. Liu and X.S. Zhang. Effect of number of unit cells of FCC photonic crystal on property of band gaps. Acta Physica Sinica. 55(01):0188-04 (2006).

INVITED CONFERENCE PRESENTATIONS

17. F. Zhu, Y.Y. Jiang and Y.Z. Chen. Future bioprospecting: from the clustered patterns of species origins of nature-derived drugs. The 6th International Conference of Molecular Simulation and Applied Information Technologies (6th-ICMS&I). Nanjing, China. (2012).

CONFERENCE PAPERS

18. F. Zhu, Y.Y. Jiang and Y.Z. Chen. Clustered patterns of species origins of nature-derived drugs and clues for future bioprospecting. The 6th International Conference of Molecular Simulation and Applied Information Technologies (6th-ICMS&I). Nanjing, China. (2012).

CONFERENCE POSTERS

19. F. Zhu, and Y.Z. Chen. Identification of next generation innovative therapeutic targets: clues from genetic, structural, physicochemical and system profile of successful ones. Singapore Symposium on Computational Biology 2009 (SYMBIO2009). Singapore. (2009).