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Donald Jacobs
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Protein flexibility predictions using graph theory
DJ Jacobs, AJ Rader, LA Kuhn, MF Thorpe
Proteins: Structure, Function, and Bioinformatics 44 (2), 150-165, 2001
8872001
Generic rigidity percolation: the pebble game
DJ Jacobs, MF Thorpe
Physical review letters 75 (22), 4051, 1995
5741995
Principal component analysis: a method for determining the essential dynamics of proteins
CC David, DJ Jacobs
Protein dynamics, 193-226, 2014
5612014
An algorithm for two-dimensional rigidity percolation: the pebble game
DJ Jacobs, B Hendrickson
Journal of Computational Physics 137 (2), 346-365, 1997
4571997
Self-organization in network glasses
MF Thorpe, DJ Jacobs, MV Chubynsky, JC Phillips
Journal of Non-Crystalline Solids 266, 859-866, 2000
3362000
Generic rigidity percolation in two dimensions
DJ Jacobs, MF Thorpe
Physical Review E 53 (4), 3682, 1996
2601996
Protein flexibility and dynamics using constraint theory
MF Thorpe, M Lei, AJ Rader, DJ Jacobs, LA Kuhn
Journal of Molecular Graphics and Modelling 19 (1), 60-69, 2001
1582001
Generic rigidity in three-dimensional bond-bending networks
DJ Jacobs
Journal of Physics A: Mathematical and General 31 (31), 6653, 1998
1361998
A flexible approach for understanding protein stability
DR Livesay, S Dallakyan, GG Wood, DJ Jacobs
FEBS letters 576 (3), 468-476, 2004
952004
Floppy modes and the free energy: Rigidity and connectivity percolation on Bethe lattices
PM Duxbury, DJ Jacobs, MF Thorpe, C Moukarzel
Physical Review E 59 (2), 2084, 1999
901999
Flexible and rigid regions in proteins
DJ Jacobs, LA Kuhn, MF Thorpe
Rigidity theory and applications, 357-384, 2002
852002
Extending the fast multipole method to charges inside or outside a dielectric sphere
W Cai, S Deng, D Jacobs
Journal of Computational Physics 223 (2), 846-864, 2007
832007
Structural rigidity in the capsid assembly of cowpea chlorotic mottle virus
BM Hespenheide, DJ Jacobs, MF Thorpe
Journal of Physics: Condensed Matter 16 (44), S5055, 2004
802004
Network rigidity at finite temperature: relationships between thermodynamic stability, the nonadditivity of entropy, and cooperativity in molecular systems
DJ Jacobs, S Dallakyan, GG Wood, A Heckathorne
Physical Review E 68 (6), 061109, 2003
762003
Conserved quantitative stability/flexibility relationships (QSFR) in an orthologous RNase H pair
DR Livesay, DJ Jacobs
Proteins: Structure, Function, and Bioinformatics 62 (1), 130-143, 2006
702006
Anomalous diffusion: a dynamic perspective
R Muralidhar, D Ramkrishna, H Nakanishi, D Jacobs
Physica A: Statistical Mechanics and its Applications 167 (2), 539-559, 1990
701990
Elucidating protein thermodynamics from the three-dimensional structure of the native state using network rigidity
DJ Jacobs, S Dallakyan
Biophysical journal 88 (2), 903-915, 2005
622005
Generic rigidity of network glasses
MF Thorpe, DJ Jacobs, NV Chubynsky, AJ Rader
Rigidity theory and applications, 239-277, 2002
622002
New insight into long‐range nonadditivity within protein double‐mutant cycles
AY Istomin, MM Gromiha, OK Vorov, DJ Jacobs, DR Livesay
Proteins: Structure, Function, and Bioinformatics 70 (3), 915-924, 2008
592008
An image-based reaction field method for electrostatic interactions in molecular dynamics simulations of aqueous solutions
Y Lin, A Baumketner, S Deng, Z Xu, D Jacobs, W Cai
The Journal of chemical physics 131 (15), 10B608, 2009
552009
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