Feng Zhao

About Me
I am a fourth year PhD student in Toyota Technological Institute at Chicago. I work with Professor Jinbo Xu on mathematical modeling in computational biology. My other research interests include NLP and image processing.

I received my bachelor's degrees from Peking University and my master's from University of Waterloo both in computer science.

Our team RaptorX ranked 2nd place among all server groups and 1st place in human TBM category in CASP9 in 2010; and RAPTOR ranked 2nd place among all servers in the CASP8 competition in 2008.

1. RaptorX: low-homology protein threading and multiple-template threading.
   Jinbo Xu, Jian Peng and Feng Zhao.
   CASP9 meeting 2010 Web Server .
   
   
2. Protein 8-class Secondary Structure Prediction Using Conditional Neural Fields.
   Zhiyong Wang, Feng Zhao, Jian Peng, and Jinbo Xu.
   The 2010 IEEE International Conference on Bioinformatics & Biomedicine (BIBM 2010).
   
   
3. Fragment-free Approach to Protein Folding Using Conditional Neural Fields
   Feng Zhao, Jian Peng and Jinbo Xu
   The Eighteenth Annual International Conference on Intelligent System for Molecular Biology (ISMB2010)
   Software Download     User Guide
   
   
4. Efficient Fragment-free Approach to Protein Folding.
   Feng Zhao, Jian Peng and Jinbo Xu.
   The Eighteenth Annual International Conference on Intelligent System for Molecular Biology (ISMB2010), poster.
   
   
5. A probabilistic and continuous model of protein conformational space for template-free modeling.
   Feng Zhao, Jian Peng, Joe DeBartolo, Karl F. Freed, Tobin R. Sosnick and Jinbo Xu.
   Journal of Computational Biology, 2010. Highlight article of Volume 17(6). An early version appears at RECOMB 2009.
   
   
6. A Probabilistic Graphical Model for Ab Initio Folding
   Feng Zhao*, Jian Peng*, Joe DeBartolo, Karl F. Freed, Tobin R. Sosnick and Jinbo Xu
   (*: The first two authors contribute equally to the paper.)
   The 13th Int'l Conference on Research in Comp. Mol. Biol (RECOMB 2009)
   
   
7. Template-based and free modeling by RAPTOR++ in CASP8
   Jinbo Xu, Jian Peng and Feng Zhao
   The CASP8 special issue of PROTEINS. 2009 (invited paper)
   
   
8. Structure prediction combining the template-based RAPTOR algorithm with the ItFix ab initio method
   J. DeBartolo, G. Hockey, F. Zhao, J. Peng, A. Augustyn, A. Adhikar, J. Xu, K. F. Freed and T. R. Sosnick
   Critical Assessment of Techniques for Protein Structure Prediction (CASP8) Meeting, 2008
   (Best Poster Award)
   
   
9. RAPTOR: protein structure prediction by multiple techniques
   Jinbo Xu, Jian Peng and Feng Zhao
   Critical Assessment of Techniques for Protein Structure Prediction (CASP8) Meeting, 2008 (Poster)
   
   
10. Discriminative Learning for Protein Conformation Sampling
    Feng Zhao, ShuaiCheng Li, Beckett W. Sterner and Jinbo Xu.
    PROTEINS: Structure, Function and Bioinformatics, 2008.
    
    

Fan and Player of Table Tennis:
Champion of class F in Schaumburg January Open JanuaryOpenResults-2010 at Schaumburg Table Tennis Club