Dr. Chen Yu Zong

Professor

Department of Pharmacy , Science Faculty
National University of Singapore
Blk S16, Level 8, 08-14, 2 Science Drive 2,
Singapore 117543

Office: Blk S16 Room 08-14
Tel.: 65-6516-6877. Fax: 65-6774-6756.
E-mail: phacyz@nus.edu.sg

Opportunities for M.Sc. and Ph.D. studies and Postdoc positions in bioinformatics, modeling and drug-design.

Curriculum Vitae (PDF version)


Research Interests:

• Computer aided drug design: virtual screening, ADME-Tox prediction, target discovery, pharmainformatics ;
• Computational biology: bioinformatics, microarray biomarker discovery, immunology, proteomics, systems biology;
• Herbal medicine: TCM informatics, molecular mechanism, multi-herb recipes;
• Others: Computer prediction of drug resistant mutations, Drug-nucleic acid interactions, Protein dynamics, Digital art of proteins, Protein music.
  
  

Publication List:

I have published 147 papers in biology, biophysics, chemistry and physics journals, and 8 more in conference proceedings

Representative publications

1. Mechanisms of drug combinations from interaction and network perspectives. J. Jia, F. Zhu, X.H. Ma, Z.W. Cao, Y.X. Li and Y.Z. Chen.Nat. Rev. Drug Discov. 2008 (accepted).
2. Derivation of Stable Microarray Cancer-differentiating Signatures by a Feature-selection Method Incorporating Consensus Scoring of Multiple Random Sampling and Gene-Ranking Consistency Evaluation.Z.Q. Tang, L.Y. Han, H.H. Lin, J. Cui, J. Jia, B.C. Low, B.W. Li, Y.Z. Chen. Cancer Res. 67(20):9996-10003 (2007).Pubmed
3. Support vector machines approach for predicting druggable proteins: recent progress in its exploration and investigation of its usefulness. L.Y. Han, C.J. Zheng, B. Xie, J. Jia, X.H. Ma, F. Zhu, H.H. Lin, X. Chen, and Y.Z. Chen. Drug Discov. Today 12(7-8): 304-313 ( 2007).Pubmed
4. PharmGED: Pharmacogenetic Effect Database B. Xie, C.J. Zheng, L. Y. Han, S. Ong, J. Cui, H.L. Zhang, L. Jiang, X. Chen and Y. Z. Chen. Clin. Pharmacol. Ther. 81(1): 29 (2007).Pubmed
5. Therapeutic Targets: Progress of Their Exploration and Investigation of Their Characteristics. C.J. Zheng, L.Y. Han, C. W. Yap, Z. L. Ji, Z. W. Cao and Y. Z. Chen. Pharmacol. Rev. 58:259-279(2006)Pubmed.
6. Prediction of p-glycoprotein substrates by support vector machine approach.Xue, Y.; Yap, C. W.; Sun, L. Z.; Cao, Z. W.; Wang, J. F.; Chen, Y. Z. J.Chem. Inf. Comput. Sci. 44(4), 1497-505 (2004).Pubmed.
7. SVM-Prot: Web-Based Support Vector Machine Software for Functional Classification of a Protein from Its Primary Sequence.C.Z.Cai, L.Y. Han, Z.L. Ji, X. Chen, Y.Z. Chen. Nucleic Acids Res., 31(13),3692-3697. (2003).Pubmed.
8. TTD: Therapeutic Target Database. X. Chen, Z.L. Ji, and Y. Z. Chen, Nucleic. Acids. Res., 30, 412-415 (2002).Pubmed.
9. Ligand-Protein Inverse Docking and Its Potential Use in Computer Search of Putative Protein Targets of a Small Molecule. Y. Z. Chen and D. G. Zhi, Proteins, 43, 217-226 (2001).Pubmed.

Inventions and developments:

Patents:

• Target identification method (Sole inventor, US Patent 6,519,611).
• Biological pathway and molecular simulation system (Principal inventor, U.S. Regular Patent Appl.10/674,586)
• Herb/food effects and consumption information system (Principal inventor, U.S. Provisional Appl. 60/512,479)

Products:

• Target discovery software INVDOCK, jointly developed and marketed by Bridgeway Hypersystems Co Ltd China
• Microarray biomarker discovery software MASDA, jointly developed and marketed by Bridgeway Co Ltd China
• Oligonucleotide toxicity prediction software ONSET, jointly developed with ISIS Pharmaceuticals USA
• Machine learning software for virtual screening, ADMET prediction, target discovery, applied in separate joint drug discovery projects with Asia Medicine Co Ltd (Hainan), SiChuan Univ, Shanghai CDC, China
• Web-based protein function prediction software SVMProt (http://jing.cz3.nus.edu.sg/cgi-bin/svmprot.cgi)
• Databases of therapeutic & ADMET targets, binding kinetics (http://bidd.nus.edu.sg/group/cjttd/TTD_ns.asp)
• Web-based protein art and music servers (http://amas.cz3.nus.edu.sg/art/ )

Awards, honours, editorships, conference chairmanships, invited speakers:

• Outstanding Scientist Award 2007, Science Faculty, National Univ of Singapore
• Marquis Who's Who in Science and Engineering. 7th, 8th, 9th edition 2003-2006; Marquis Who's Who in Medicine and Health Care 6th edition 2006; Marquis Who's Who in Asia 1st edition 2007
• Editorial board of Current Proteomics, Protein and Peptide Lett, Bioinformation, Int J of Integrative Biology
• Featured in "Protein art and music" Singapore Unified Morning News, 6/5/2005;"Protein music". Shanghai Evening News, 3/7/2005;"Computer study of Chinese medicine". Singapore Unified Morning News, 19/8/2002
• Invited podium speaker, PSWC 2007 Pharmaceutical Sciences World Congress, Amsterdam, 23 April 2007
• Invited speaker, Symposium on Chem Vision in Life Science, KRICT, Korea, 25 August 2006
• Co-chair, platform session computational methods & molecular dynamics, 45th Annual Meeting of American Biophysical Society, Boston, USA. February 21, 2001.
• Organizer and chair, Minisymposium in math modeling in molecular biology and drug design, Pacific Rim Dynamics Systems Conferences, Hawaii, USA. 9-13 August, 2000
• Invited speaker, AIMECS'99 International Medicinal Chemistry Symposium, Beijing, China. 13 Sept. 1999.
• Invited speaker, Annual meeting of American physical society, San Jose, USA. 24 March, 1995.
• Member, Singapore TCM Taskforce, Singapore Science Center TCM exhibition committee
• Member, National Univ of Singapore Taskforces on Computational Biology, medicinal chemistry program development committee, life science curriculum committee, bioengineering program development committee

Funding:

PI of 11 Singapore ARF grants; 1 China NSF, 1 Hong Kong K.C.Wong grant; Co-PI of 1 China 863 grant

Experience:

Academic qualifications:
B.Sc. 1982 Dalian University of Technology, China
M.Sc 1985 Institute of Theoretical Physics, Academia Sinica, China
Ph.D. 1989 University of Manchester, Institute of Science and Technology, U.K

Career history:
2007 Jan- Present    Tenured Professor, Dept. of Pharmacy, National Univ of Singapore
2006 Jan-2006 Dec   Tenured Associate Professor, Dept. of Pharmacy, National Univ. of Singapore
2004-Present    Adjunct Professors, Shanghai Center Bioinfo Tech, Xiamen Univ, SiChuan Univ, ChongQing Univ
2003-2005    Head, Dept of Computational Science, National Univ of Singapore
2000-2005    Tenured Associate Professor, Dept of Computational Science, National Univ of Singapore
2000-Present   Fellow, Singapore-MIT alliance.
1998-2000   Senior Lecturer, Dept of Computational Science, National Univ of Singapore
1997-1998   Lecturer, Dept of Computational Science, National Univ of Singapore
1997-1997   Research Scientist, ISIS Pharmaceuticals, Carlsbad, CA, USA
1994-1996   Research Assistant Scientist, Biophysics Group, Dept of Phys, Purdue University, Indiana, USA
1989-1993   Post-Doc Fellow, Biophysics Group, Dept of Phys, Purdue University, Indiana, USA

Teaching:

Graduate courses taught: Computer aided drug design, Molecular modelling, Bioinformatics, Computational biology, Biotechnology, Simulation Methods, Biophysics

Undergraduate courses taught:
Computer aided drug design, Medicinal chemistry, Computational chemistry, Bioinformatics, Simulations, Parallel and Distributed Computing, Computational physics, Computational Science (On-line lecture notes adopted byEducation Curriculum Center, The Mathworks, UK in 2004-2006)

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