Dr. rer. nat. Bingding Huang
EML Research gGmbH
Schloss-Wolfsbrunnenweg 33
69118 Heidelberg
Germany

Tel: +49-6221-533 269
Fax: +49-6221-533 298
Email: bingding.huang@eml-r.villa-bosch.de
http://projects.villa-bosch.de/mcm/people/huang
http://www.biotec.tu-dresden.de/~bhuang

monthly report (only available to MCM members)

Currently I am working on the Prosurf project: developing a computational toolbox for Protein-Surface Docking.

Compact course in Structural Bioinformatics at Heidelberg Graduate School of Mathematical and Computational Methods for the Sciences. 30.11--02.12, 2009.

Sino-German Workshop on Computational systems biology approaches for cancer research and biomarker discovery, 11-15 January 2010, Hangzhou, China

Software and webserver:
  • BDOCK: a grid-based protein-protein docking software
  • LIGSITEcsc: a protein ligand-binding sites predictor using geometric and conservation
  • metaPPI: a meta approach for protein-protein binding sites prediction
  • metaPocket: a meta approach for protein ligand-binding sites prediction
  • sdaCC: a C++ framework for modeling protein-protein/surface interaction using Brownian Dynamics simulations

Research Interest:

Bioinformatics: protein-protein interaction, protein-protein/ligand binding site prediction, protein-protein/ligand docking, protein-surface docking, computer-aided drug design etc.
Computer science: machine learning, support vector machine, grid computing, design pattern, software engineering.

Publications:
  • Stefan Henrich, Outi Salo-Ahen, Bingding Huang, Friedrich Rippman, Gabriele Cruciani, Rebecca Wade (2009), Computational approaches to identifying and characterizing protein binding sites for ligand design. Journal of Molecular Recognition, link, pdf.
  • Bingding Huang (2009), metaPocket: a meta approach to improve protein ligand binding site prediction , Omics, 13(4), 325-330. link, pdf.
  • D.B. Kokh, B. Huang, R. C. Wade, and P.J. Winn (2009), Modeling of Protein Adsorption on a Metal Surface: Brownian Dynamics Simulations, Biophysical Journal, 96(3), 298a-299a, link
  • PhD thesis: Improving protein docking with binding site prediction, Technical University of Dresden. link , pdf.
  • Bingding Huang and Michael Schroeder(2008), Using protein binding site to improve protein-protein docking, Gene, Epub 1;422(1-2):14-21. link, pdf
  • Bingding Huang and Michael Schroeder (2006), LIGSITEcsc: predicting protein binding sites using the Connolly surface and degree of conservation, BMC Structural Biology, 6:19. link, pdf.
  • Bingding Huang and Michael Schroeder (2005), Using residue propensities and tightness of fit to improve rigid-body protein-protein docking. In Matthias Rarey, Andrew Torda, Stefan Kurtz, and Ute Willhoeft, editors, Proceedings of German Bioinformatics Conference. Pages:159-173, Springer. PDF.

Education:

  • 09,2008 -- present: Visiting Scientist, EML Research gGmbH and Heidelberg University.
  • 01,2008 -- 08.2009: Research Associate, MCM group, EML Research gGmbH, Heidelberg.
  • 02, 2004 -- 01,2008: PhD student, Bioinformatics group, Biotec, Technical University Dresden, Germany.
  • 10, 2002 -- 01, 2004: Msc, IMPRS, Max Planck Institute for Informatics, Saarbruecken, Germany.
  • 09, 2001 -- 07, 2002: Bioinformatics Center of Shanghai Institute for Life Science (SCBIT ), Shanghai, China.
  • 09, 1997 -- 07, 2002: Bsc, School of Life Science, University of Technology and Science of China (USTC), Hefei, China.
  • 09, 1994 -- 06, 1997: High School, Zhanjiang No.1 High School, Zhanjiang, Guangdong, China.

Awards:
  • Chinese Government Award for Outstanding Self-financed Students Abroad (2007)
  • ISMB Travel Fellowship, 07/2007, ISCB , Vienna, Austria
  • ICSG Young Scientist Travel Fellowship, 10/2006, ISGO, Beijing, China
  • IMPRS Fellowship, 10/2002--10/2003, Max Planck Institute for Informatics, Saarbruecken, Germany

Last update: 23th, September, 2009


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