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Michael Thorpe

Michael.Thorpe@asu.edu

Professor
Physics Department
Faculty
Mail Code: 1504

PSF 354 (Map)
(480)965-3085

Bio

Foundation Professor, Department of Physics, College of Liberal Arts and Sciences

Office: PSF-354
Phone: 480-965-3085
Fax: 480-965-2747

Education

D. Phil, University of Oxford, U.K., 1968

Research Area

Materials Physics and Biophysics

Research and Teaching Interests

In 2003, Michael Thorpe joined  Arizona State University as Foundation Professor , and later became the Founding Director of the Center for Biological Physics. He previously had faculty appointments at Yale University and Michigan State University where he was University Distinguished Professor. His research interests are in the theory of disordered systems, with a special emphasis on properties that are determined by geometry and topology. He has a research background in condensed matter theory, and in recent years has developed the mathematical theory of flexibility and mobility for use in glassy networks, and also in crystalline materials with disorder. His most recent work has been in biological physics. The flexible regions in proteins and protein complexes are determined from the x-ray crystallographic structure. These are used to determine dynamical pathways between different protein conformations using geometric simulation techniques. Proteins are stable enough to maintain a three-dimensional structure, but flexible enough for biological function. 

 The aim of all his research work is to find underlying topological and structural principles and unifying concepts. He is currently Visiting Professor of Physics at Oxford University in England for part of each year.

Selected Publications

1.
Mark Wilson, Avishek Kumar, David Sherrington and M.F. Thorpe
Modeling vitreous silica bilayers
Phys. Rev. B 87, 214108, pages 1-9 (2013) 
  
2.
M.F. Thorpe and A. Wright
Eighty years of random networks
Phys. Status Solidi B, 1-6, 10.1002/pssb.201248500 (2013) 
  
3.
Eric I. Corwin, Robin Stinchcombe and M.F Thorpe
Universal Behavior for Bond Percolation
Phys. Rev E 88, 014102, pages 1-4 (2013) 
  
4.
T.J. Glembo, D.W. Farrell, M.F. Thorpe and S. B. Ozkan
Collective dynamics differentiates functional divergence in protein evolution.
PLoS Computational Biology, 8, e1002428 (2012) 
 

Courses

Spring 2016

Courses Taught This Semester
Course Number Course Title
PHY 792 Research
PHY 799 Dissertation

Fall 2015

Courses Taught This Semester
Course Number Course Title
PHY 792 Research
PHY 799 Dissertation

Spring 2015

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Fall 2014

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Summer 2014

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics

Spring 2014

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Fall 2013

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Summer 2013

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics

Spring 2013

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Fall 2012

Courses Taught This Semester
Course Number Course Title
PHY 792 Research
PHY 799 Dissertation

Spring 2012

Courses Taught This Semester
Course Number Course Title
PHY 112 General Physics
PHY 792 Research
PHY 799 Dissertation

Fall 2011

Courses Taught This Semester
Course Number Course Title
PHY 792 Research
PHY 799 Dissertation

Publications and Other Intellectual ContributionsGoogle Scholar

  1. Avishek Kumar, Paul Campitelli, M.F. Thorpe and S.Banu Ozkan. Partial Unfolding and Refolding for Structure Refinement: A Unified Approach of Geometrical Simulation and Molecular Dynamics.. Proteins: Structure, Function, and Bioinformatics (2015).

  2. Louis Theran, Anthony Nixon, Elissa Ross, Mahdi Sadjadi, Brigitte Servatius and M.F. Thorpe. Anchored boundary conditions for locally isostatic networks. Physical Review E92, 053306 (2015). 9 pages. (2015).

  3. Sean L. Seyler and Avishek Kumar and M. F. Thorpe and Oliver Beckstein. Path Similarity Analysis: a Method for Quantifying Macromolecular Pathways. PLOS Computational Biology (2015).

  4. Avishek Kumar, David Sherrington, Mark Wilson and M. F. Thorpe. Ring statistics of silica bilayers. J. Phys.: Condens. Matter (2014).

  5. Wouter G Ellenbroek, Varda H. Hagh, Avishek Kumar, M.F. Thorpe and Martin van Hecke. Rigidity Loss in Disordered Systems: Three Scenarios. Physical Review Letters (2014).

  6. A.J. Mott, S. P. Thirumuruganandham, M. F. Thorpe and Peter Rez. Fast Calculation of the Infrared Spectra of Large Biomolecules. European Biophysics Journal (2013).

  7. Eric I. Corwin, Robin Stinchcombe and M.F Thorpe. Universal Behavior for Bond Percolation. Phys. Rev E (2013).

  8. M.F. Thorpe and A. Wright. Eighty years of random networks. Phys. Status Solidi B (2013).

  9. Mark Wilson, Avishek Kumar, David Sherrington and M.F. Thorpe. Modeling vitreous silica bilayers. Phys. Rev. B (2013).

  10. R.B. Stinchcombe and M.F. Thorpe. Two exactly soluble models of rigidity percolation. Phil. Trans. R. Soc. A (2013).

  11. B. Servatius, H. Servatius and M.F. Thorpe. Zeolites: Geometry and Combinatorics. International Journal of Chemical Modeling (2012).

  12. Colby Dawson, Vitaliy Kapko, M.F. Thorpe, Martin D. Foster and Michael M.J. Treacy. Flexibility as an indicator of Feasibility of Zeolite Formation. Journal of Physical Chemistry (2012).

  13. Dinh Van Tuan, Avishek Kumar, Stephan Roche, Frank Ortmann, M.F. Thorpe and Pablo Ordejon.. Electronic Transport in Amorphous Graphene. Physical Review B (2012).

  14. Justin Spiriti, Hiqmet Kamberaj, Adam de Graff, M. F. Thorpe and Arjan van der Vaart. DNA bending through large angles is aided by ionic screening. Journal of Chemical Theory and Computation (2012).

  15. Mark Wilson, Avishek Kumar and M.F. Thorpe. Amorphous graphene: a realization of Zachariasen's glass. J. Phys.: Condens. Matter (2012).

  16. T.J. Glembo, D.W. Farrell, M.F. Thorpe and S. B. Ozkan. Collective dynamics differentiates functional divergence in protein evolution.. PLoS Computational Biology (2012).

  17. Adam M. R. de Graff, Gareth Shannon, Dan Farrell, Phil Williams and M. F. Thorpe. Protein Unfolding Under Force: Crack Propagation in a Network.. Biophysical Journal (2011).

  18. Daniel W. Farrell, Ming Lei and M. F. Thorpe. Comparison of pathways from geometric targeting method and targeted molecular dynamics in Nitrogen Regulatory Protein C. Physical Biology (2011).

  19. Y. Li, F. Inam. Avishek Kumar, M.F. Thorpe and D.A Drabold. Pentagonal puckering in a sheet of amorphous graphene. Phys. Status Solidi (2011).

  20. Adam M.R. de Graff and M.F. Thorpe. The long-wavelength limit of the structure factor of amorphous silicon and vitreous silica. Acta Cryst. (2010).

  21. Daniel W. Farrell, Kirill Speranskiy and M. F. Thorpe. Generating Stereochemically Acceptable Protein Pathways. Proteins; Structure, Function and Bioinformatics (2010).

  22. V. Kapko, C. Dawson, M.M.J. Treacy and M.F. Thorpe. Flexibility of Ideal Zeolite Frameworks. Flexibility of Ideal Zeolite Frameworks (2010).

  23. V. Kapko, D. A. Drabold and M. F. Thorpe. Electronic structure of a realistic model of amorphous graphene. Physica Status Solidi (Editor's choice article) (2010).

  24. M.F. Thorpe. Flexibility and Mobility in Networks. Encyclopedia of Complexity and Systems Science, Ed. by Robert A. Meyers, Springer, New York (2009).

  25. Ming Lei, Adam M. R. de Graff, M.F. Thorpe, Stephen A. Wells and Asel Sartbaeva. Uncovering the intrinsic geometry from the atomic pair distribution function of nanomaterials. Physical Review (2009).

  26. S.A. Menor, Adam M.R. de Graff and M.F. Thorp. Hierarchical plasticity from pair distance fluctuations. Physical Biology (2009).

  27. Vitaliy Kapko, M.M.J. Treacy, M.F. Thorpe and S.D. Guest. On the Collapse of Locally Isostatic Networks. Proc. Roy . Soc. A, 465, 3517-3530, (2009). (2009).

  28. C. Jolley, Petra Fromme, Stephen Wells, Petra Fromme, Michael Thorpe. Flexible Low-Resolution Cyo-EM maps of Proteins using using constrained geometric simulations. Biophysical Journal (2008).

  29. E.S. Bozin, A Sartbaeva, H. Zheng, S.A. Wells, J.F. Mitchell, Th. Proffen, M.F. Thorpe and S.J.L. Billinge. Structure of CaMnO3 in the range 10K < T < 550K from neutron time-of-flight total scattering.. J. Phys. Chem. Solids (2008).

  30. Monneeb T.M. Shatnawi, Christopher L. Farrow, Ping Chen, Punit Boolchand, Asel Sartbaeva, M.F. Thorpe and Simon J. L. Billinge. Search for a Structural Response to the Intermediate Phase in GexSe1-x Glasses. Physical Review B (2008).

  31. Mykyta Chubynsky, Brandon Hespenheide, Donald J. Jacobs, Leslie A. Kuhn, Ming Lei, Scott Menor, A.J. Rader, M.F. Thorpe, Walter Whiteley and Maria I. Zavodszky. Constraint Theory applied to Proteins. Nanotechnology Research Journal (2008).

  32. A Sartbaeva, S Wells, A Huerta, Michael Thorpe. Local structural variability and the intermediate phase window in network glasses. Physical Review B (2007).

  33. A. Sartbaeva, S.A. Wells, E. Z. Bozin, S.J.L. Billinge and M.F. Thorpe. Quadruploar Ordering revealed from Scattering and Geometrical Modelling. Physical Review Letters (2007).

  34. M Chubynsky, Michael Thorpe. Algorithms for 3D rigidity analysis and a first order percolation transition. Physical Review E (2007).

  35. Michael Thorpe. Comment on Elastic Network Models and Proteins. Journal of Physical Biology (2007).

  36. V Levashov, S Billinge, Michael Thorpe. Quantum Correction to the Pair Distribution Function. Journal of Computational Chemistry (2007).

  37. A Sartbaeva, S Wells, Michael Thorpe, E Bozin, S Billinge. Geometric modeling of perovskite frameworks with Jahn-Teller distortions: application to cubic manganites. Phys. Rev. Letters (2006).

  38. A Sartbaeva, S Wells, Michael Treacy, Michael Thorpe. The flexibility window in zeolites. Nature Materials (2006).

  39. Craig Jolley, Stephen Wells, Brandon Hespenheide, Michael Thorpe, Petra Fromme. Docking of Photosystem I subunit C using a constrained geometric simulation. Journal of the American Chemical Society (2006).

  40. Holger Gohlke, Michael Thorpe. A Natural Coarse Graining for Simulating Large Biomolecular Motion. Biophysics Journal (2006).

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Research Activity Research Awards

  1. Thorpe,Michael F * , Ozkan,Sefika Banu , . Workshop on Protein Folding Pathways. NSF-MPS (6/1/2010 - 5/31/2011).
  2. Thorpe,Michael F * Thorpe,Michael F * . Geometrical Simulation of Biomolecular Mobility. NSF-MPS-DMS (9/1/2007 - 8/31/2012).
  3. Thorpe,Michael F * Thorpe,Michael F * . Collaborative Research: FRG: Beyond Crystallography: Structure of Nanostructure Materials. NSF-MPS-DMR (8/1/2007 - 7/31/2013).
  4. Woodbury,Neal Walter * Lohr,Dennis Evan Thorpe,Michael F Thorpe,Michael F . SGER: Merging Single Molecule Spectroscopy and Molecular Simulation. NSF-MPS-PHY (6/1/2006 - 5/31/2007).
  5. Thorpe,Michael F * Thorpe,Michael F * . Diffusion and Flexibility in Networks. NSF-MPS (7/15/2004 - 6/30/2007).
  6. Thorpe,Michael F * Thorpe,Michael F * . The Role of Theory in Biological Physics and Materials (Workshop). NSF-MPS (4/1/2004 - 3/31/2005).
  7. Thorpe,Michael F * . Local Atomic Structure of Functional Materials Using Pair Distribution Function Analysis of Neutron and X-ray Data. MICHIGAN STATE UNIV (9/1/2003 - 8/31/2004).
  8. Thorpe,Michael F * . THE INTERMEDIATE PHASE IN NETWORK GLASSES. NSF-MPS (8/16/2003 - 6/30/2004).
  9. Thorpe,Michael F * Thorpe,Michael F * . NIRT: STRUCTURE OF NANOCRYSTALS. MICHIGAN STATE UNIV (8/1/2003 - 7/31/2008).
  10. Thorpe,Michael F * Thorpe,Michael F * . NEW ALGORIHMS FOR MODELING FLEXIBILITY IN PROTEINS. HHS-NIH-NIGMS (7/1/2002 - 1/31/2007).

* principal investigator

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