Muhammad H Zaman

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. pmc Computational model for cell migration in three-dimensional matrices
    Muhammad H Zaman
    Whitehead Institute for Biomedical Research, Biological Engineering Division, Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, 02142, USA
    Biophys J 89:1389-97. 2005
  2. ncbi request reprint Misfolding dynamics of human prion protein
    Muhammad H Zaman
    Whitehead Institute and Division of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Mol Cell Biomech 2:179-90. 2005
  3. pmc Microarchitecture of three-dimensional scaffolds influences cell migration behavior via junction interactions
    Brendan A C Harley
    Department of Mechanical Engineering and Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Biophys J 95:4013-24. 2008
  4. pmc Migration of tumor cells in 3D matrices is governed by matrix stiffness along with cell-matrix adhesion and proteolysis
    Muhammad H Zaman
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 103:10889-94. 2006
  5. ncbi request reprint How flexible is alpha-actinin's rod domain?
    Muhammad H Zaman
    Whitehead Institute, 9 Cambridge Center, Cambridge, MA 02142, USA
    Mech Chem Biosyst 1:291-302. 2004
  6. pmc A high-throughput migration assay reveals HER2-mediated cell migration arising from increased directional persistence
    Neil Kumar
    Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Biophys J 91:L32-4. 2006
  7. pmc Dependence of invadopodia function on collagen fiber spacing and cross-linking: computational modeling and experimental evidence
    Heiko Enderling
    Center of Cancer Systems Biology, Caritas St Elizabeth s Medical Center, Tufts University School of Medicine, Boston, Massachusetts 02135, USA
    Biophys J 95:2203-18. 2008
  8. ncbi request reprint Understanding effects of matrix protease and matrix organization on directional persistence and translational speed in three-dimensional cell migration
    Muhammad H Zaman
    Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX 78712, USA
    Ann Biomed Eng 35:91-100. 2007
  9. ncbi request reprint Investigations into sequence and conformational dependence of backbone entropy, inter-basin dynamics and the Flory isolated-pair hypothesis for peptides
    Muhammad H Zaman
    Department of Chemistry, The University of Chicago, Chicago, IL 60637, USA
    J Mol Biol 331:693-711. 2003
  10. ncbi request reprint Free energy landscape of receptor-mediated cell adhesion
    Tianyi Yang
    Department of Physics, The University of Texas at Austin, Austin, Texas 78712, USA
    J Chem Phys 126:045103. 2007

Collaborators

Detail Information

Publications16

  1. pmc Computational model for cell migration in three-dimensional matrices
    Muhammad H Zaman
    Whitehead Institute for Biomedical Research, Biological Engineering Division, Department of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, 02142, USA
    Biophys J 89:1389-97. 2005
    ..As one particular sample manifestation of these effects, the optimal levels of cell receptor expression and matrix ligand density yielding maximal migration are dependent on matrix mechanical compliance...
  2. ncbi request reprint Misfolding dynamics of human prion protein
    Muhammad H Zaman
    Whitehead Institute and Division of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Mol Cell Biomech 2:179-90. 2005
    ....
  3. pmc Microarchitecture of three-dimensional scaffolds influences cell migration behavior via junction interactions
    Brendan A C Harley
    Department of Mechanical Engineering and Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Biophys J 95:4013-24. 2008
    ..Strut junction interactions affect local directional persistence as well as cell speed at and away from the junctions, providing a new biophysical mechanism for the governance of cell motility by the extracellular microstructure...
  4. pmc Migration of tumor cells in 3D matrices is governed by matrix stiffness along with cell-matrix adhesion and proteolysis
    Muhammad H Zaman
    Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA
    Proc Natl Acad Sci U S A 103:10889-94. 2006
    ..Our experimental findings here represent, to our knowledge, discovery of a previously undescribed set of balances of cell and matrix properties that govern the ability of tumor cells to migration in 3D environments...
  5. ncbi request reprint How flexible is alpha-actinin's rod domain?
    Muhammad H Zaman
    Whitehead Institute, 9 Cambridge Center, Cambridge, MA 02142, USA
    Mech Chem Biosyst 1:291-302. 2004
    ..Amino acid composition analysis of most flexible and most rigid regions of the molecule reveals that the rigid regions are rich in Ser, Val and Ile whereas the flexible regions are rich in Ala, Leu and Glu...
  6. pmc A high-throughput migration assay reveals HER2-mediated cell migration arising from increased directional persistence
    Neil Kumar
    Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
    Biophys J 91:L32-4. 2006
    ..Observed consistent increases in persistence associated with HER2 overexpression indicate a prospective mechanism for invasiveness previously documented in HER2-overexpressing human breast tumors...
  7. pmc Dependence of invadopodia function on collagen fiber spacing and cross-linking: computational modeling and experimental evidence
    Heiko Enderling
    Center of Cancer Systems Biology, Caritas St Elizabeth s Medical Center, Tufts University School of Medicine, Boston, Massachusetts 02135, USA
    Biophys J 95:2203-18. 2008
    ..These results provide a novel framework for further studies on ECM structure and modifications that affect invadopodia and tissue invasion by cells...
  8. ncbi request reprint Understanding effects of matrix protease and matrix organization on directional persistence and translational speed in three-dimensional cell migration
    Muhammad H Zaman
    Department of Biomedical Engineering, The University of Texas at Austin, Austin, TX 78712, USA
    Ann Biomed Eng 35:91-100. 2007
    ..Our results show a bimodal dependence of speed and persistence on matrix pore size and suggest high sensitivity on MMP activity, which is in very good agreement with experimental studies carried out in 3D matrices...
  9. ncbi request reprint Investigations into sequence and conformational dependence of backbone entropy, inter-basin dynamics and the Flory isolated-pair hypothesis for peptides
    Muhammad H Zaman
    Department of Chemistry, The University of Chicago, Chicago, IL 60637, USA
    J Mol Biol 331:693-711. 2003
    ..The implications of these results are discussed in the context of estimates for the backbone entropy of single residues, and for the ability of all-atom simulations to reproduce experimental protein folding data...
  10. ncbi request reprint Free energy landscape of receptor-mediated cell adhesion
    Tianyi Yang
    Department of Physics, The University of Texas at Austin, Austin, Texas 78712, USA
    J Chem Phys 126:045103. 2007
    ..The authors' results not only provide a fundamental understanding of adhesion at the molecular level but also suggest possible strategies for designing novel biomaterials...
  11. doi request reprint Computer simulations in connective tissue research: successes and challenges
    Muhammad H Zaman
    Department of Biomedical Engineering, University of Texas at Austin, Austin, Texas, USA
    Connect Tissue Res 49:162-4. 2008
    ....
  12. ncbi request reprint A multiscale probabilisitic framework to model early steps in tumor metastasis
    Muhammad H Zaman
    Department of Biomedical Engineering and Institute of Theoretical Chemistry, The University of Texas at Austin, Austin 78712, USA
    Mol Cell Biomech 4:133-41. 2007
    ..The model is first of its kind in capturing the essential early features of metastasis in a single simulation and shows good agreement with recent experimental studies...
  13. pmc Understanding the molecular basis for differential binding of integrins to collagen and gelatin
    Muhammad H Zaman
    Biophys J 92:L17-9. 2007
    ..Our simulations provide a possible explanation of the molecular specificity in integrin binding and suggest new targets for regulating integrin-mediated invasion and metastasis...
  14. ncbi request reprint Entropic benefit of a cross-link in protein association
    Muhammad H Zaman
    Department of Chemistry, University of Chicago, Chicago, Illinois 60637, USA
    Proteins 48:341-51. 2002
    ..Thus, tethering results in significant stabilization for systems with millimolar or stronger dissociation constants...
  15. ncbi request reprint Helix, sheet, and polyproline II frequencies and strong nearest neighbor effects in a restricted coil library
    Abhishek K Jha
    Department of Chemistry, Institute for Biophysical Dynamics, The University of Chicago, Chicago, Illinois 60637, USA
    Biochemistry 44:9691-702. 2005
    ..In addition, these propensities are often strongly affected by both the chemical nature and the conformation of neighboring residues, contrary to the Flory isolated residue hypothesis...
  16. doi request reprint Cell adhesion to nanoligands: effects of ligand size and concentration in solution
    Tianyi Yang
    Department of Physics, and Institute for Theoretical Chemistry, The University of Texas at Austin, Austin, Texas 78712, USA
    Langmuir 24:11819-27. 2008
    ..Our calculations provide insights into understanding cell-matrix interactions at a fundamental level as well as to identify potential avenues for fabrication of nanoligands for therapeutic and biotechnological purposes...