Research Interests:
I am generally interested in development and application of computational tools for modeling protein structures and interactions with other biomolecules. My past and ongoing projects include:
- High-resolution protein tertiary structure prediction
- Transmembrane protein structure prediction
- Protein-protein interaction & quaternary structure prediction
- Structure-based drug design
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Education:
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Work Experience:
| 2007 - present |
Postdoc Research Associate / Group Leader, Structural Bioinformatics Group, Computational Systems Biology Lab, University of Georgia (with Dr. Ying Xu ) |
| 2005 - 2007 |
Postdoctoral Fellow, Center for the Study of Systems Biology, Georgia Institute of Technology (with Dr. Jeffrey Skolnick, lab moved from New York State Center of Excellence in Bioinformatics & Life Sciences in 2006) |
| 1999 - 2005 |
Research/Teaching Assistant, Dept. of Physics, Drexel University |
| 1996 - 1998 |
Technical Support Engineer, Shanghai Fudan Kingstar Computer Co.,Ltd. (now Sungard Kingstar) |
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Awards & Honors:
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Publications:
Journal articles
| [8] | F. Mao, Y. Yin, F. Zhou, W. Chou, C. Zhou, H. Chen, Y. Xu (2009). "pDAWG: an integrated database for plant cell-wall genes." BioEnergy Research (in press). [Website] |
| [7] | F. Zhou, H. Chen, Y. Xu (2009). "GASdb: a large-scale and comparative exploration database
of glycosyl hydrolysis systems." submitted |
| [6] | Y. Yin, H. Chen, M. Hahn, D. Mohnen, Y. Xu (2009). "Plant galacturonosyltransferase (GAUT) related genes have a different origin than the other glycosyltransferase family 8 genes and may be anciently acquired from Cyanobacteria." submitted |
| [5] | H. Chen and J. Skolnick (2008). "M-TASSER: An Algorithm for Protein Quaternary Structure Prediction." Biophysical Journal, 94:918-928. ( IF 2007: 4.63, Citations ) |
| [4] | H. Zhou, S. B. Pandit, S. Lee, J. Borreguerro, H. Chen, L. Wroblewska and J. Skolnick (2007). "Analysis of TASSER based CASP7 protein structure prediction results." Proteins, 69 Suppl 8:90-97. ( invited paper for CASP. Citations ) |
| [3] | H. Chen and H.-X. Zhou (2005). "Prediction of solvent accessibility and sites of deleterious mutation from protein sequences." Nucl. Acids Res., 33: 3193-3199. [Server] [Download] ( IF 2005: 7.55, Citations )
( An expanded version for real-value solvent accessibility predictoin is available here. The program is incorporated in the No.1 protein structure prediction server I-TASSER) |
| [2] | A. D. J. van Dijk , S. J. de Vries, C. Dominguez, H. Chen, H.-X. Zhou, and A. M. J. J. Bonvin (2005). "Data-driven docking: HADDOCK's adventures in CAPRI." Proteins, 60:232-238. ( invited paper for CAPRI. Citations ) |
| [1] | H. Chen and H.-X. Zhou (2005). "Prediction of interface residues in protein-protein complexes by a consensus neural network method: Test against NMR data." Proteins, 61:21-35. [Server] ( IF 2005: 4.68, Citations ) |
Conference papers/presentations
| [10] | Y. Yin, H. Chen, B. Cantwell, I. Jouline, M. Hahn, D. Mohnen, Y. Xu. "The plant cell wall biosynthesis related Galacturonosyltransferase (GAUT) and GAUT like (GATL) genes have a different origin than the other Glycosyltransferase family 8 genes." Genomics:GTL Awardee Workshop VII, Bethesda, Maryland, February 8-11, 2009. |
| [9] | F. Mao, F. Zhou, W. Chou, Y. Yin, H. Chen, C. Zhou, Y. Xu. "pDAWG: plant Database of Annotated cell Wall Genome." BioEnergy Science Center 2nd retreat, Chattanooga, TN, December 1-3, 2008. |
| [8] | Y. Yin, H. Chen, B. Cantwell, I. Jouline, M. Hahn, D. Mohnen, Y. Xu. "Computational study of the plant GT8 genes: insight about their origin and function." BioEnergy Science Center 2nd retreat, Chattanooga, TN, December 1-3, 2008. |
| [7] | H. Zhou, S. Y. Lee, S. Pandit, H. Chen, J. Borreguero and J. Skolnick. "TASSER for protein structure prediction in CASP7." The Seventh Meeting on the Critical Assessment of Techniques for Protein Structure Prediction (CASP7), Asilomar Conference Center, California, November 26-30, 2006. |
| [6] | S. B. Pandit, H. Zhou, J. Borreguero, S. Lee, H. Chen and J. Skolnick. "MetaTasser: A 3D-jury threading approach with TASSER model assembly/refinement." The Seventh Meeting on the Critical Assessment of Techniques for Protein Structure Prediction (CASP7), Asilomar Conference Center, California, November 26-30, 2006. |
| [5] | H. Chen, H.-X. Zhou, X. Hu and I. Yoo. "Classification Comparison of Prediction of Solvent Accessibility From Protein Sequences." Proceedings of the Second Asia-Pacific Bioinformatics Conference (APBC2004), Dunedin, New Zealand, vol. 29, page 333-338. |
| [4] | H. Chen and H-X Zhou. "Prediction of interface residues in protein-protein complexes. Test against NMR data." The Second Conference in Modeling of Protein Interactions in Genomes, Stony Brook, June 27-30, 2003. |
| [3] | H. Chen and H-X Zhou. "Prediction of interface residues in protein-protein complexes." Biophysical Society 47th Annual Meeting, San Antonio, March 1-5, 2003. |
| [2] | H. Chen and H.-X. Zhou. "Improving Fold Recognition and Query-Template Alignment by Combining PSI-Blast and Sequence-Structure Threading." The Fifth Meeting on the Critical Assessment of Techniques for Protein Structure Prediction (CASP5), Asilomar Conference Center, California, December 1-5, 2002. |
| [1] | H. Chen and H.-X. Zhou. "Prediction of Solvent Accessibility and Sites of Deleterious Mutations from Protein Sequences." Biophysical Society 46th Annual Meeting, San Francisco, February 23-27, 2002. |
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Services:
- Seminar Coordinator, CSBL,UGA , 2008 -
- Program Committee Member, The 7th International Bioinformatics Workshop (IBW2009)
- Reviewer:
Proteins: Structure, Function, and Bioinformatics
Bioinformatics
International Journal of Bioinformatics Research and Applications
International Conference on Computational Systems Bioinformatics (CSB2008, CSB2009)
Asia Pacific Bioinformatics Conference (APBC2009)
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last updated: January 23, 2009
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