onufriev's pb [27 articles] Export

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	Biomolecular Electrostatics with the Linearized Poisson-Boltzmann Equation [My Copy] Biophysical Journal, Vol. 76, No. 1. (January 1999), pp. 1-16. by F. Fogolari posted to pb electrostatics analytical by onufriev on 2009-11-21 00:29:08 as along with 3 people csrocha dfgreen lillekatt
	Mono- and Trivalent Ions around DNA: A Small-Angle Scattering Study of Competition and Interactions [My Copy] Vol. 95, No. 1. (1 July 2008), pp. 287-295. by Kurt Andresen, Xiangyun Qiu, Suzette A. Pabit, et al.Jessica S. Lamb, Hye Y. Park, Lisa W. Kwok, Lois Pollack posted to pb dna_ions dna by onufriev on 2009-11-11 02:52:45 as
	Electric fields at the active site of an enzyme: direct comparison of experiment with theory. [My Copy] Science (New York, N.Y.), Vol. 313, No. 5784. (14 July 2006), pp. 200-204. by Ian T. Suydam, Christopher D. Snow, Vijay S. Pande, Steven G. Boxer posted to pb electrostatics by onufriev on 2009-10-29 06:13:17 as along with 5 people charris5 flbarroso mikaellund jbchang kjell
	On removal of charge singularity in Poisson--Boltzmann equation [My Copy] The Journal of Chemical Physics, Vol. 130, No. 14. (2009), 145101. by Qin Cai, Jun Wang, Hong K. Zhao, Ray Luo posted to pb by onufriev on 2009-08-14 02:47:18 as along with 1 person and 1 group sobolevnrm baker-group
	Where the linearized Poisson--Boltzmann cell model fails: Spurious phase separation in charged colloidal suspensions [My Copy] The Journal of Chemical Physics, Vol. 119, No. 3. (2003), pp. 1855-1865. by M. N. Tamashiro, H. Schiessel posted to pb by onufriev on 2009-08-13 23:17:37 as along with 1 person softsimu
	Assessing the performance of implicit solvation models at a nucleic acid surface [My Copy] Phys. Chem. Chem. Phys., Vol. 10, No. 32. (2008), pp. 4889-4902. by Feng Dong, Jason A. Wagoner, Nathan A. Baker posted to pb implicit_solvation by onufriev on 2009-08-13 23:10:21 as along with 3 people and 1 group sobolevnrm simone jmccammon McCammon
	Symmetry breaking and electrostatic attraction between two identical surfaces [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 79, No. 4. (2009), 041404. by F. Plouraboué, H. C. Chang posted to pb ions dna_ions by onufriev on 2009-08-13 23:05:42 as along with 2 people and 1 group jeevanjyoti sobolevnrm baker-group
	Beyond Poisson-Boltzmann: Fluctuation effects and correlation functions [My Copy] The European Physical Journal E: Soft Matter and Biological Physics, Vol. 1, No. 2. (19 February 2000), pp. 203-214. by R. R. Netz, H. Orland posted to pb implicit_solvation beyond_pb by onufriev on 2009-08-13 23:02:31 as along with 1 person sobolevnrm
	Accurate Calculation of Hydration Free Energies Using Macroscopic Solvent Models [My Copy] The Journal of Physical Chemistry, Vol. 98, No. 7. (1 February 1994), pp. 1978-1988. by Doree Sitkoff, Kim A. Sharp, Barry Honig posted to implicit_solvation pb by onufriev on 2009-07-10 04:25:45 as along with 4 people melo_mcr dmitry_s_yershov flbarroso dfgreen
	Parameter Dependence in Continuum Electrostatic Calculations: A Study Using Protein Salt Bridges [My Copy] The Journal of Physical Chemistry B, Vol. 102, No. 22. (1 May 1998), pp. 4404-4410. by Zachary S. Hendsch, Charles V. Sindelar, Bruce Tidor posted to implicit_solvation pb by onufriev on 2009-07-10 04:17:32 as along with 1 person dfgreen
	Electrical double layer, zeta potential, and electrophoretic charge of double-stranded DNA. [My Copy] Biopolymers, Vol. 16, No. 7. (July 1977), pp. 1415-1434. by J. A. Schellman posted to dna_electrostatics pb by onufriev on 2009-05-12 02:15:02 as along with 1 person and 1 group sobolevnrm baker-group
	The charged colloidal cylinder with a gouy double layer [My Copy] Journal of Colloid and Interface Science, Vol. 53, No. 2. (November 1975), pp. 296-306. by D. Stigter posted to dna_electrostatics pb by onufriev on 2009-05-12 02:11:13 as
	Classical electrostatics in biology and chemistry. [My Copy] Science (New York, N.Y.), Vol. 268, No. 5214. (26 May 1995), pp. 1144-1149. by B. Honig, A. Nicholls posted to implicit_solvation pb by onufriev on 2009-05-02 07:23:47 as along with 4 people dmitry_s_yershov stephenbond flbarroso apostola
	Continuum molecular electrostatics, salt effects, and counterion binding--a review of the Poisson-Boltzmann theory and its modifications. [My Copy] Biopolymers, Vol. 89, No. 2. (February 2008), pp. 93-113. by P. Grochowski, J. Trylska posted to implicit_solvation pb by onufriev on 2009-05-02 07:17:38 as along with 4 people and 1 group flbarroso sobolevnrm softsimu mikaellund baker-group
	Calculating the electrostatic properties of RNA provides new insights into molecular interactions and function [My Copy] Nat Struct Mol Biol, Vol. 6, No. 11. (November 1999), pp. 1055-1061. by Kevin Chin, Kim A. Sharp, Barry Honig, Anna M. Pyle posted to pb by onufriev on 2009-05-02 07:13:09 as
	Extending the Applicability of the Nonlinear Poisson-Boltzmann Equation: Multiple Dielectric Constants and Multivalent Ions [My Copy] J. Phys. Chem. B, Vol. 105, No. 28. (19 July 2001), pp. 6507-6514. by W. Rocchia, E. Alexov, B. Honig posted to pb by onufriev on 2008-11-05 00:38:34 as along with 1 person and 1 group sobolevnrm baker-group
	Continuum solvation model: Computation of electrostatic forces from numerical solutions to the Poisson-Boltzmann equation [My Copy] Computer Physics Communications, Vol. 111, No. 1-3. (June 1998), pp. 59-75. by Wonpil Im, Dmitrii Beglov, Benoît Roux posted to pb surface by onufriev on 2008-10-09 18:02:56 as along with 2 people dmitry_s_yershov stephenbond
	Variable atomic radii for continuum-solvent electrostatics calculation. [My Copy] The Journal of chemical physics, Vol. 129, No. 1. (7 July 2008) by Baojing Zhou, Manish Agarwal, Chung F. Wong posted to implicit_solvation pb by onufriev on 2008-10-09 00:43:04 as along with 1 person superpyrin
	Implicit Solvent Electrostatics in Biomolecular Simulation [My Copy] New Algorithms for Macromolecular Simulation (2006), pp. 263-295. by Nathan Baker, Donald Bashford, David Case posted to gb implicit_solvation pb by onufriev on 2008-09-14 23:15:03 as along with 6 people flbarroso Scis0000002 dmitry_s_yershov stephenbond sunhwan qwermish
	Solvation forces on biomolecular structures: A comparison of explicit solvent and Poisson-Boltzmann models [My Copy] Journal of Computational Chemistry, Vol. 25, No. 13. (2004), pp. 1623-1629. by Jason Wagoner, Nathan A. Baker posted to implicit_solvation pb water_models by onufriev on 2008-09-14 20:52:11 as along with 2 people flbarroso qwermish
	Continuum polarizable force field within the Poisson-Boltzmann framework. [My Copy] The journal of physical chemistry. B, Vol. 112, No. 25. (26 June 2008), pp. 7675-7688. by Y. H. Tan, C. Tan, J. Wang, R. Luo posted to implicit_solvation molecular_dynamics pb by onufriev on 2008-09-03 23:04:40 as along with 1 person RamuAnandakrishnan
	Numerical integration techniques for curved-element discretizations of molecule-solvent interfaces [My Copy] The Journal of Chemical Physics, Vol. 127, No. 1. (2007), 014701. by Jaydeep P. Bardhan, Michael D. Altman, David J. Willis, Shaun M. Lippow, Bruce Tidor, Jacob K. White posted to gb pb surface by onufriev on 2008-09-03 00:45:13 as along with 1 person Cbaker
	Computing the electric potential of biomolecules: Application of a new method of molecular surface triangulation [My Copy] Journal of Computational Chemistry, Vol. 11, No. 5. (1990), pp. 603-622. by R. J. Zauhar, R. S. Morgan posted to pb surface by onufriev on 2008-09-02 01:14:01 as along with 1 person dmitry_s_yershov
	On the Dielectric Boundary in Poisson-Boltzmann Calculations [My Copy] J. Chem. Theory Comput., Vol. 4, No. 3. (11 March 2008), pp. 507-514. by H. Tjong, H. X. Zhou posted to gb implicit_solvation pb by onufriev on 2008-08-13 02:08:57 as along with 1 person and 1 group sobolevnrm baker-group
	How Well Does Poisson-Boltzmann Implicit Solvent Agree with Explicit Solvent? A Quantitative Analysis [My Copy] J Phys Chem B., Vol. 110, 18680. by Tan posted to explicit_solvation implicit_solvation pb by onufriev on 2008-03-08 22:26:41 as
	Implementation and testing of stable, fast implicit solvation in molecular dynamics using the smooth-permittivity finite difference Poisson-Boltzmann method [My Copy] Journal of Computational Chemistry, Vol. 25, No. 16. (2004), pp. 2049-2064. by Ninad V. Prabhu, Peijuan Zhu, Kim A. Sharp posted to implicit_solvation molecular_dynamics pb by onufriev on 2008-03-08 22:00:22 as along with 1 person and 1 group sobolevnrm baker-group
	A smooth permittivity function for Poisson-Boltzmann solvation methods [My Copy] Journal of Computational Chemistry, Vol. 22, No. 6. (2001), pp. 608-640. by J. Andrew Grant, Barry T. Pickup, Anthony Nicholls posted to molecular_dynamics electrostatics implicit_solvation pb by onufriev on 2007-10-18 17:42:24 as along with 4 people nickolay dmitry_s_yershov stephenbond cen4ik

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implicit_solvation	60
gb	51
molecular_dynamics	36
nucleosome	36
pb	27
protein_folding	24
pka	22
electrostatics	21
dna	20
dna_bending	19
histone_acetylation	19
dna_electrostatics	15
dna_ions	15
higher_order_chromatin	15
protein_ligand	15
nucleosome_stability	13
nucleosome_assembly	11
beyond_pb	8
ions	8
water_models	8
explicit_solvation	7
gb_membrane	7
myoglobin	7
protein_dynamics	7
protein_electrostatics	7
coarse-grain	6
dielectric_in_biopolymers	6
dna_ab	6
dna_nano	5
md_dna	5
pedagogical	5
polyamines	5
surface	5
dna_stacking	4
drug_design	4
multiscale	4
ph	4
phosphorylation	4
rnai	4
image_charge	3
molecular_geometry	3
qmmm	3
rna_sec_structure	3
water_in_biopolymers	3
dna_bend	2
dna_stretching	2
ewald	2
free_energy	2
physics_philosophy	2
salt_bridge	2
analytical	1
br	1
charge_asymmetry	1
classical_mechanics	1
coarse_grain	1
dna_md	1
extremophile	1
hnox	1
monte_carlo	1
non_equilibrium_statmech	1
nucleosome_positioning	1
nucleus	1
performance	1
physics_fundamentals	1
protein_stability	1
spermine	1
time_scale	1
water_molecules	1

onufriev's pb [27 articles] Export

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