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Guowei  Wei, PhD

Professor of Mathematics

Professor of Electrical & Computer Engineering

Adjunct Professor of Biochemistry & Molecular Biology

Affiliate member:  Quantitative Biology Initiative

Center for Mathematical Molecular Biosciences


Contact information:

Department  of  Mathematics
Michigan State University
D301 Wells Hall

619 Red Cedar Road
East Lansing, MI 48824, USA
Phone:  517 353 4689

Fax: 517 432 1562

Weiatmath.msu.edu                 

 

Research Interests:

 

Publication:

 

Selected lectures:

o   Topology based deep learning for drug design, The 3rd Annual Meeting of SIAM Central States Section, September 29 October 1, 2017, Colorado State University

o   Mathematics is the champion of biomolecular data challenges, MBI, Ohio State University, September 16, 2016

o   Persistent Homology for biomolecular systems, SIAM Life Conference, August 2014

o   PDE transform: A unified paradigm for image analysis and multiscale modeling, Courant Institute, 2012

o   Variational multiscale models for ion channel transport, University of Oxford, September 6, 2011

 

 

Software packages:

  MIBPB: Online server for electrostatic analysis using the second-order accurate Poisson-Boltzmann solver

  ESES: Open-source online server for the generation of Eulerian solvent excluded surface

  FRI: Online server for the flexibility analysis of biomolecules based on flexibility and rigidity index

  RI-Score: Online server for geometric graph theory or rigidity index (RI) based scoring function for protein ligand binding affinity prediction

  TML-BP: Online server for topological learning for protein-ligand binding affinity prediction

  TML-MP: Online server for topology based machine learning for the prediction of protein folding stability change upon mutation

  TDL-BP: Online server for topological deep learning for protein-ligand binding affinity prediction

  TDL-MP: Online server for topological deep learning for the prediction of protein folding stability change upon mutation

  TopP-S: Online server for topological learning of partition coefficient (LogP) and aqueous solubility (LogS)

  TopTox: Online server for computing element-specific topological descriptors (ESTDs) for toxicity endpoint predictions

 

Journal Editorship:

o   Editor, International Journal for Numerical Methods in Biomedical Engineering

o   Founding Editor-in-Chief, Molecular Based Mathematical Biology

o   Advisory Editor, Journal of Theoretical and Computational Chemistry

o   Honorary Editor, International Journal of Engineering and Applied Sciences

o   Associate Editor, Frontiers in Molecular Biosciences, Biomolecular Modeling and Simulation

o   Member of Editorial Board, International Journal of Modern Nonlinear Theory and Application

o   Member of Editorial Board, International Journal of Biomedical Imaging

o   Member of Editorial Board, Journal of Modeling in Mechanics and Materials

o   Editor-in-Chief, Journal of Theoretical and Computational Chemistry , 2012-2016

o   Associate Editor, Frontiers in Molecular Biosciences, Mathematics of Biomolecules, 2014-2017

o   Member of Editorial Board, International Journal for Numerical Methods in Biomedical Engineering, 2010-2013

o   Member of Editorial Board, Modeling and Simulation in Engineering, 2012-2103

o   Member of Editorial Board, Communications for Numerical Methods in Engineering, 2008-2010

 

Recent grant support:

Teaching:

       Fall 2017: MTH994-001, Machine learning for biological and biomedical data I: Basic algorithms, TueThu: 2:40-4:00pm, C517WH

       Spring 2018: MTH994-001, Machine learning for biological and biomedical data II: Applications, TueThu: 1:00-2:20pm, C517WH

       Spring 2018: MTH496, Machine learning.

 

 

 

Students, postdocs and visiting scholars:

 

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2016

 

Some recent group alumni:

*    Yin Cao, Progressive Insurance, (PhD 2017)

*    Zhixiong Zhao, Assistant Professor, Foshan University (Postdoc, 2014-2016)

*    Bao Wang, Postdoc, University of California, Los Angeles (PhD 2016).

*    Kristopher Opron, Senior analyst, University of Michigan Health System (PhD 2016).

*    Lin Mu, Oak Ridge National Laboratory (Postdoc, 2012-2015).

*    Jin Kyoung Park, Assistant Professor (Tenure-track), Ivy Tech Community College, Indiana (PhD 2014).

*    Langhua Hu, Analyst (first job), Discover Financial Services, RiverwoodsIL (PhD 2013).

*    Kelin Xia, Assistant Professor (tenure-track), Nanyang Technological University (PhD 2012 and postdoc 2013-2016).

*    Zhan Chen, Assistant Professor (tenure-track), Georgia Southern University (PhD 2011).

*    Duan Chen, Assistant Professor (tenure-track), University of North Carolina, Charlotte (PhD 2010).

*    Siyang Yang, Assistant Professor (tenure-track), City University of Hong Kong (Declined due to family reasons) (Visiting assistant professor, 2010-2012).

*    Weihua Geng, Assistant Professor (tenure-track), South Methodist University (PhD 2008).

*    Manfeng Hu, Professor, Jiangnan University (Visiting scholar, 2008-2009).

*    Yuhui Sun, Analyst (first job), Eli Lilly, Indianapolis, IN (PhD 2007).

*    Sining Yu, Structured transaction analyst (first job), International Power America (PhD 2007).

*    Yongcheng  Zhou, Associate Professor, Colorado State University (PhD 2006).

*    Yibao  Zhao, Senior Lecturer, Singapore Management University (PhD 2004).

*    Shan Zhao, Professor, University of Alabama (Ph.D 2003 and postdoc 2003-2006).

*    Zujun Hou, Research Scientist, Singapore Bioimaging Consortium (PhD 2003).

*    Shuguang Guan, Professor, East China Normal University (PhD 2002).

*    Meng Zhan, Professor, Huazhong University of Science and Technology (Postdoc, 2001-2002).

*    Zhenhai Shao, Professor, University of Electronic Science Technology of China (Postdoc, 2000-2001).

*    Baofeng Feng, Professor, University of Texas Pan American (Postdoc, 2000-2001).

*    Prasad Patnaik, Professor, Indian Institute of Technology, Madras (Postdoc, 1999-2001).

*    Decheng Wan, Professor, Shanghai Jiao Tong University, China  (Postdoc, 1999-2001).

 

Positions available:

 

Mathematical Biology Seminars

 

Conferences organized: 

o   Mathematics of Drug Design/Discovery, The Fields Institute for Research in Mathematical Sciences, Toronto, Canada, June 4 - 8, 2018.

o   Topology of the biomolecular world, America Institute of Mathematics, San Jose, California. July 24-28, 2017.

o   Mathematical Biophysics and Molecular Biosciences, Tsinghua Sanya International Mathematics Forum (TSIMF), Sanya, China, December 19-23, 2016.

o   SIAM Conference on the Life Sciences (LS16), The Westin Boston Waterfront, Boston, Massachusetts, USA, July 11-14, 2016.

o   MBI Emphasis Year on Mathematical Molecular Biosciences Fall 2015, MBI, Columbus, August 16-December 31, 2015.

o   Mathematics of Biological Charge Transport: Molecular and Beyond, IMA, University of Minnesota, July 20-24, 2015.

o   Workshop on Persistent Homology for Biosciences, East Lansing, October 18, 2014.

o   International Conference on Mathematical Modeling and Computation, Wuhan, China, May 16-19, 2013,

o   CTW: Mathematical Challenges in Biomolecular/Biomedical Imaging and Visualization, MBI, Columbus, Feb 18-22, 2013

o   2nd Midwest Conference on Mathematical Methods for Images and Surfaces, Lansing, August 27-28, 2011.

o   Modeling and computation of biomolecular structure and dynamics, Mathematical Bioscience Institute, Columbus, April 25-29, 2011.

o   Workshop on Nano-Bio Mathematics and Mechanics, East Lansing, August 5, 2010.

o   Workshop on Nano-Bio Mathematics, East Lansing, August 4, 2009.

o   Midwest Conference on Mathematical Methods for Images and Surfaces, Lansing, April 18-19, 2009

o   MSU-UM  Math-Biology  Day,  Dec.  1,  2007

o   MSU-UM  Math-Biology  Day,  Ann Arbor, Dec.  2,  2006

o   Midwest  Quantitative  Biology  Conference,  Mackinac Island, Michigan, Sept 29-Oct. 1,  2006

o   Workshop on Advanced Algorithms for Science and Engineering, Singapore, March, 2000

Links:

  Mathematics Genealogy Project 

  Mathematical Biology

  Drug Design Data Resource Grand Challenge 2

In the Stage 2 of D3R Grand Challenge 2 world-wide competition in drug design, our prediction of protein-drug binding free ranking (Kendall's Tau) was ranked 1st, and our prediction of protein-ligand binding free energies was ranked 2nd for Set 1