Group: baker-group - with tag kinetics [117 articles] Export

Recent papers posted by members of the baker-group group with tag kinetics

	On the time taken by random walks on finite groups to visit every state [My Copy] Probability Theory and Related Fields, Vol. 62, No. 3. (1 September 1983), pp. 361-374. by David J. Aldous posted to diffusion kinetics statistical_mechanics by sobolevnrm to the group baker-group on 2009-05-13 12:11:50 as
	Modeling dynamics from only output data [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 79, No. 5. (2009), 056208. by Evan Monroig, Kazuyuki Aihara, Yozo Fujino posted to clustering kinetics misc molecular_dynamics systems_biology by sobolevnrm to the group baker-group on 2009-05-11 12:27:10 as
	An [script O](N[sup 2]) approximation for hydrodynamic interactions in Brownian dynamics simulations [My Copy] The Journal of Chemical Physics, Vol. 130, No. 11. (2009), 114905. by Tihamér Geyer, Uwe Winter posted to diffusion hydrodynamics kinetics molecular_dynamics solvation by sobolevnrm to the group baker-group on 2009-04-20 12:33:18 as
	A multi-time-scale analysis of chemical reaction networks: I. Deterministic systems [My Copy] Journal of Mathematical Biology by Chang Lee, Hans Othmer posted to kinetics mathematics multiscale systems_biology by sobolevnrm to the group baker-group on 2009-04-15 12:11:57 as
	Confinement effects on the kinetics and thermodynamics of protein dimerization [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 14. (7 April 2009), pp. 5517-5522. by Wei Wang, Wei-Xin Xu, Yaakov Levy, E. Trizac, P. G. Wolynes posted to kinetics protein-protein_interactions solvation by sobolevnrm to the group baker-group on 2009-04-15 12:10:40 as along with 2 people ARobson itmeson
	A unified model of protein dynamics [My Copy] Proceedings of the National Academy of Sciences, Vol. 106, No. 13. (31 March 2009), pp. 5129-5134. by Hans Frauenfelder, Guo Chen, Joel Berendzen, et al.Paul W. Fenimore, HelÃ©n Jansson, Benjamin H. McMahon, Izabela R. Stroe, Jan Swenson, Robert D. Young posted to kinetics solvation by sobolevnrm to the group baker-group on 2009-04-01 12:54:29 as along with 6 people Christophe abovell jdstevenson amishp zwang kevinchannon
	Nonequilibrium actin polymerization treated by a truncated rate-equation method [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 79, No. 3. (2009), 031914. by F. J. Brooks, A. E. Carlsson posted to cytoskeleton kinetics statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-28 16:13:34 as
	Transient enzyme kinetics: Graph-theoretic approach [My Copy] Biophysical Chemistry, Vol. 141, No. 2-3. (May 2009), pp. 193-197. by Boris N. Goldstein posted to kinetics mathematics by sobolevnrm to the group baker-group on 2009-03-27 11:57:45 as
	Quasielastic neutron scattering investigation of motion of water molecules in n-propyl alcohol-water mixture [My Copy] The Journal of Chemical Physics, Vol. 130, No. 7. (2009), 074503. by Masaru Nakada, Kenji Maruyama, Osamu Yamamuro, Masakatsu Misawa posted to diffusion kinetics solvation statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-24 12:22:32 as
	High frequency dynamics in liquids and supercritical fluids: A comparative inelastic x-ray scattering study [My Copy] The Journal of Chemical Physics, Vol. 130, No. 6. (2009), 064501. by F. Bencivenga, A. Cunsolo, M. Krisch, G. Monaco, G. Ruocco, F. Sette posted to diffusion kinetics solvation statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-22 14:03:53 as
	Fundamental Aspects of Protein−Protein Association Kinetics [My Copy] Chemical Reviews, Vol. 109, No. 3. (11 March 2009), pp. 839-860. by G. Schreiber, G. Haran, H. X. Zhou posted to diffusion kinetics protein-protein_interactions review by sobolevnrm to the group baker-group on 2009-03-20 11:51:02 as along with 10 people and 1 group anuragsethi barry sunhwan jmccammon willard kafuitay carlosjavierna sschurer hadesnumb paulschlesinger McCammon
	Solvation Dynamics in Polar Solvents Studied by Means of RISM/Mode-Coupling Theory [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 9. (5 March 2009), pp. 2800-2804. by Katsura Nishiyama, Tsuyoshi Yamaguchi, Fumio Hirata posted to diffusion integral_equation kinetics solvation statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-20 11:50:06 as along with 1 person willard
	Fluctuating enzyme and its biological functions: positive cooperativity without multiple states. [My Copy] The journal of physical chemistry. B, Vol. 113, No. 8. (26 February 2009), pp. 2225-2230. by H. Qian, P. Z. Shi posted to allostery kinetics by sobolevnrm to the group baker-group on 2009-03-20 11:49:53 as along with 2 people jjray carlosjavierna
	Deterministic Limit of Stochastic Chemical Kinetics [My Copy] The Journal of Physical Chemistry B, Vol. 113, No. 6. (12 February 2009), pp. 1640-1644. by Daniel T. Gillespie posted to kinetics mathematics statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-19 12:06:36 as
	Multidimensional Langevin modeling of biomolecular dynamics [My Copy] The Journal of Chemical Physics, Vol. 130, No. 3. (2009), 034106. by Rainer Hegger, Gerhard Stock posted to diffusion kinetics multiscale quasiharmonic_models by sobolevnrm to the group baker-group on 2009-03-18 11:28:11 as along with 1 person Diego_Prada
	Sensitivity and Robustness in Chemical Reaction Networks [My Copy] SIAM Journal on Applied Mathematics, Vol. 69, No. 4. (2009), pp. 977-998. by Guy Shinar, Uri Alon, Martin Feinberg posted to kinetics mathematics systems_biology by sobolevnrm to the group baker-group on 2009-03-16 11:57:44 as
	Building and Evaluation of a Structured Representation of Pharmacokinetics Information Presented in SPCs: From Existing Conceptual Views of Pharmacokinetics Associated with Natural Language Processing to Object-oriented Design [My Copy] J Am Med Inform Assoc, Vol. 10, No. 3. (1 May 2003), pp. 271-280. by Catherine Duclos-Cartolano, Alain Venot posted to bioinformatics kinetics nanotech by sobolevnrm to the group baker-group on 2009-03-13 11:24:54 as
	Dynamics of protein-protein encounter: A Langevin equation approach with reaction patches [My Copy] The Journal of Chemical Physics, Vol. 129, No. 15. (2008) by Jakob Schluttig, Denitsa Alamanova, Volkhard Helms, Ulrich S. Schwarz posted to diffusion kinetics protein-protein_interactions by sobolevnrm to the group baker-group on 2009-03-12 12:33:01 as along with 3 people and 1 group anuragsethi barry jmccammon McCammon
	Nanoparticle pharmacokinetic profiling in vivo using magnetic resonance imaging [My Copy] Magnetic Resonance in Medicine, Vol. 60, No. 6. (2008), pp. 1353-1361. by Anne M. Neubauer, Hoon Sim, Patrick M. Winter, et al.Shelton D. Caruthers, Todd A. Williams, J. David Robertson, David Sept, Gregory M. Lanza, Samuel A. Wickline posted to cancer imaging kinetics nanotech nmr perfluorocarbons by sobolevnrm to the group baker-group on 2009-03-03 15:57:19 as along with 2 people ml115 paulschlesinger
	Multiple Markov transition matrix method: Obtaining the stationary probability distribution from multiple simulations [My Copy] Journal of Computational Chemistry, Vol. 9999, No. 9999. (2008), NA. by Shun Sakuraba, Akio Kitao posted to diffusion kinetics statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-03 15:52:52 as
	Toolbox for analyzing finite two-state trajectories [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 78, No. 6. (2008) by O. Flomenbom, R. J. Silbey posted to kinetics mathematics statistical_mechanics by sobolevnrm to the group baker-group on 2009-03-03 15:37:07 as
	Dynamical transition, hydrophobic interface, and the temperature dependence of electrostatic fluctuations in proteins [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 78, No. 6. (2008) by David N. Lebard, Dmitry V. Matyushov posted to beyond_mean_field electrostatics kinetics molecular_dynamics nonpolar by sobolevnrm to the group baker-group on 2009-02-28 21:49:13 as
	Chapter 4 Modeling Protein–Protein and Protein–Nucleic Acid Interactions: Structure, Thermodynamics, and Kinetics [My Copy] Annual Reports in Computational Chemistry, Vol. 4 (2008), pp. 67-87. by H. Zhou, S. Qin, H. Tjong posted to diffusion kinetics protein-nucleic_acid_interactions protein-protein_interactions review by sobolevnrm to the group baker-group on 2009-02-18 12:31:58 as along with 1 person and 1 group A_Coletta_Thesis Structural Biology Group TorVergata
	Influence of Nonconservative Optical Forces on the Dynamics of Optically Trapped Colloidal Spheres: The Fountain of Probability [My Copy] Physical Review Letters, Vol. 101, No. 12. (2008) by Yohai Roichman, Bo Sun, Allan Stolarski, David G. Grier posted to experimental_methodology imaging kinetics single_molecule by sobolevnrm to the group baker-group on 2009-01-29 12:48:00 as
	Theory of the generalized dynamic structure factor of polyatomic molecular fluids measured by inelastic x-ray scattering [My Copy] Physical Review E, Vol. 64, No. 2. (26 July 2001), 021205. by Ciya Liao, Sow-Hsin Chen posted to diffusion experimental_methodology kinetics solvation statistical_mechanics by sobolevnrm to the group baker-group on 2009-01-28 13:12:37 as
	Dynamic radial distribution function from inelastic neutron scattering [My Copy] Physical Review B, Vol. 57, No. 17. (1 May 1998), 10560. by R. J. Mcqueeney posted to diffusion experimental_methodology kinetics solvation statistical_mechanics by sobolevnrm to the group baker-group on 2009-01-28 13:11:19 as
	Local spectral time splitting method for first- and second-order partial differential equations [My Copy] Journal of Computational Physics, Vol. 206, No. 2. (1 July 2005), pp. 727-780. by Sining Yu, Shan Zhao, G. W. Wei posted to kinetics mathematics molecular_dynamics by sobolevnrm to the group baker-group on 2008-07-01 03:10:54 as
	An Electrostatic Steering Mechanism of Cdc42 Recognition by Wiskott-Aldrich Syndrome Proteins [My Copy] Molecular Cell, Vol. 20, No. 2. (28 October 2005), pp. 313-324. by Lars Hemsath, Radovan Dvorsky, Dennis Fiegen, Marie-France Carlier, Mohammad R. Ahmadian posted to diffusion electrostatics kinetics protein-protein_interactions by sobolevnrm to the group baker-group on 2008-07-01 02:55:17 as along with 1 person mikaellund
	Exact Solutions for Kinetic Models of Macromolecular Dynamics [My Copy] J. Phys. Chem. B, Vol. 112, No. 19. (15 May 2008), pp. 6025-6044. by Y. R. Chemla, J. R. Moffitt, C. Bustamante posted to kinetics mathematics by sobolevnrm to the group baker-group on 2008-06-26 12:01:41 as
	An interlacing theorem for reversible Markov chains [My Copy] Journal of Physics A: Mathematical and Theoretical, Vol. 41, No. 21. (2008), 212002. by Robert Grone, Karl H. Hoffmann, Peter Salamon posted to kinetics mathematics by sobolevnrm to the group baker-group on 2008-06-20 11:36:58 as
	Unusual 1H NMR chemical shifts support (His) Cepsilon 1---Hmiddle dotmiddle dotmiddle dotO==C H-bond: Proposal for reaction-driven ring flip mechanism in serine protease catalysis [My Copy] Proceedings of the National Academy of Sciences, Vol. 97, No. 19. (12 September 2000), pp. 10371-10376. by Elissa L. Ash, James L. Sudmeier, Regina M. Day, et al.Matthew Vincent, Ekaterina V. Torchilin, Kristin C. Haddad, Elizabeth M. Bradshaw, David G. Sanford, William W. Bachovchin posted to kinetics thrombin by sobolevnrm to the group baker-group on 2008-06-04 12:18:38 as
	Molecular dynamics simulations of the acyl-enzyme and the tetrahedral intermediate in the deacylation step of serine proteases [My Copy] Proteins, Vol. 47, No. 3. (2002), pp. 357-369. by M. Topf, P. Várnai, C. J. Schofield, W. G. Richards posted to kinetics molecular_simulation thrombin by sobolevnrm to the group baker-group on 2008-06-04 11:58:07 as
	Coarse graining of master equations with fast and slow states [My Copy] The Journal of Chemical Physics, Vol. 128, No. 15. (2008) by Simone Pigolotti, Angelo Vulpiani posted to kinetics mathematics statistical_mechanics by sobolevnrm to the group baker-group on 2008-05-22 11:56:49 as
	Transition networks for modeling the kinetics of conformational change in macromolecules [My Copy] Current Opinion in Structural Biology In Theory and simulation / Macromolecular assemblages, Vol. 18, No. 2. (April 2008), pp. 154-162. by Frank Noé, Stefan Fischer posted to allostery diffusion kinetics molecular_simulation by sobolevnrm to the group baker-group on 2008-04-18 11:47:00 as along with 5 people and 2 groups Diego_Prada aqeel barry paulschlesinger toerst structural_bioinformatics McCammon
	Calculating enzyme kinetic parameters from protein structures [My Copy] Biochemical Society Transactions, Vol. 36 (2008), pp. 51-54. by M. Stein, R. R. Gabdoulline, R. C. Wade posted to diffusion electrostatics kinetics structure by sobolevnrm to the group baker-group on 2008-04-18 11:32:23 as
	Protein Sequence- and pH-Dependent Hydration Probed by Terahertz Spectroscopy [My Copy] J. Am. Chem. Soc., Vol. 130, No. 8. (27 February 2008), pp. 2374-2375. by S. Ebbinghaus, S. J. Kim, M. Heyden, et al.X. Yu, M. Gruebele, D. M. Leitner, M. Havenith posted to kinetics protein_folding solvation by sobolevnrm to the group baker-group on 2008-03-03 11:46:31 as
	Coarse Master Equations for Peptide Folding Dynamics [My Copy] J. Phys. Chem. B (31 January 2008) by N. V. Buchete, G. Hummer posted to kinetics multiscale protein_folding by sobolevnrm to the group baker-group on 2008-02-29 12:18:27 as along with 3 people Diego_Prada apaydin ruvido
	Solvent Viscosity Dependence of the Protein Folding Dynamics [My Copy] J. Phys. Chem. B (30 January 2008) by Y. M. Rhee, V. S. Pande posted to kinetics molecular_simulation protein_folding solvation by sobolevnrm to the group baker-group on 2008-02-27 12:33:44 as
	Theory and Simulation of Diffusion-Controlled Michaelis-Menten Kinetics for a Static Enzyme in Solution [My Copy] J. Phys. Chem. B (26 January 2008) by S. Park, N. Agmon posted to diffusion kinetics mathematics by sobolevnrm to the group baker-group on 2008-02-26 11:51:21 as
	Dynamics of the Acetylcholinesterase Tetramer [My Copy] Biophys. J., Vol. 94, No. 4. (15 February 2008), pp. 1144-1154. by Alemayehu A. Gorfe, Chia-En A. Chang, Ivaylo Ivanov, Andrew J. Mccammon posted to acetylcholinesterase diffusion kinetics molecular_dynamics quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-02-22 12:09:51 as
	Usage of the Mori-Zwanzig method in time series analysis [My Copy] Physical Review E (Statistical, Nonlinear, and Soft Matter Physics), Vol. 77, No. 1. (2008) by Markus Niemann, Thomas Laubrich, Eckehard Olbrich, Holger Kantz posted to diffusion kinetics statistical_mechanics by sobolevnrm to the group baker-group on 2008-02-19 12:25:15 as
	Multiscale complex network of protein conformational fluctuations in single-molecule time series [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 2. (15 January 2008), pp. 536-541. by Chun-Biu Li, Haw Yang, Tamiki Komatsuzaki posted to experimental_methodology kinetics quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-02-19 12:19:20 as along with 4 people Diego_Prada ruvido biehl hsekiguc
	Kinetics of diffusion-influenced bimolecular reactions in solution. I. General formalism and relaxation kinetics of fast reversible reactions [My Copy] The Journal of Chemical Physics, Vol. 86, No. 4. (1987), pp. 1883-1903. by Sangyoub Lee, Martin Karplus posted to kinetics statistical_mechanics by sobolevnrm to the group baker-group on 2008-02-18 12:46:35 as
	Modeling diffusive dynamics in adaptive resolution simulation of liquid water [My Copy] The Journal of Chemical Physics, Vol. 128, No. 2. (2008) by Silvina Matysiak, Cecilia Clementi, Matej Praprotnik, Kurt Kremer, Luigi Delle Site posted to diffusion kinetics multiscale solvation by sobolevnrm to the group baker-group on 2008-02-18 12:34:37 as
	Automated Generation of Reduced Stochastic Weather Models I: Simultaneous Dimension and Model Reduction for Time Series Analysis [My Copy] Multiscale Modeling & Simulation, Vol. 6, No. 4. (2008), pp. 1125-1145. by Illia Horenko, Rupert Klein, Stamen Dolaptchiev, Christof Schütte posted to kinetics multiscale quasiharmonic-models_elastic-network_gnm_nma_pca_etc by sobolevnrm to the group baker-group on 2008-02-15 12:41:46 as along with 1 person nurban
	A master equation model for bimolecular reaction via multi-well isomerizing intermediates [My Copy] Physical Chemistry Chemical Physics, Vol. 2 (2000), pp. 793-803. by T. J. Frankcombe, S. C. Smith, K. E. Gates, S. H. Robertson posted to diffusion kinetics by sobolevnrm to the group baker-group on 2008-02-14 18:31:53 as
	Electrophoretic light scattering from macromolecular solutions and conformational dynamics [My Copy] The Journal of Chemical Physics, Vol. 87, No. 8. (1987), pp. 4339-4343. by J. B. Hubbard, J. A. Mccammon posted to diffusion electrostatics experimental_methodology kinetics by sobolevnrm to the group baker-group on 2008-02-09 23:07:21 as
	Variable-free exploration of stochastic models: a gene regulatory network example [My Copy] (6 Nov 2006) by Radek Erban, Thomas A. Frewen, Xiao Wang, et al.Timothy C. Elston, Ronald Coifman, Boaz Nadler, Ioannis G. Kevrekidis posted to kinetics multiscale systems_biology by sobolevnrm to the group baker-group on 2008-02-01 21:23:37 as along with 1 person j_vinals
	An extended dynamical hydration shell around proteins. [My Copy] Proc Natl Acad Sci U S A, Vol. 104, No. 52. (26 December 2007), pp. 20749-20752. by S. Ebbinghaus, S. J. Kim, M. Heyden, et al.X. Yu, U. Heugen, M. Gruebele, D. M. Leitner, M. Havenith posted to diffusion experimental_methodology kinetics molecular_dynamics solvation by sobolevnrm to the group baker-group on 2008-01-31 12:59:41 as along with 1 person choonpeng
	Prediction of Salt and Mutational Effects on the Association Rate of U1A Protein and U1 Small Nuclear RNA Stem/Loop II† [My Copy] The Journal of Physical Chemistry B, Vol. 112, No. 19. (1 May 2008), pp. 5955-5960. by Sanbo Qin, Huan-Xiang Zhou posted to diffusion kinetics protein-nucleic_acid_interactions by sobolevnrm to the group baker-group on 2008-01-30 12:33:48 as

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diffusion	104
mathematics	47
statistical_mechanics	42
article	41
c_elegans	40
caenorhabditis_elegans	40
celegans	40
elegans	40
nematode	40
wormbase	40
amyloid	37
simulation	37
solvation	34
enzyme	33
theory	33
folding	31
reaction	31
modelling	28
molecular_dynamics	26
dynamics	24
review	24
thermodynamics	23
model	22
rna	19
cytoskeleton	18
experimental	18
experimental_methodology	18
microtubules	18
tubulin	18
binding	17
biophysics	17
protein	16
hybridization	15
dna	14
electrostatics	14
modeling	14
multiscale	14
stochastic	14
structure	14
metabolism	13
base_sequence	12
binding_sites	12
caenorhabditis_genetics	12
caenorhabditis_metabolism	12
fibrils	12
molecular_sequence_data	12
myosin	12
systems_biology	12
chemical	11
membrane	11
microarrays	11
activation	10
assembly	10
experiment	10
protein-protein_interactions	10
allostery	9
biomembranes	9
capsid	9
crowding	9
fluorescence	9
intracellular	9
mechanisms	9
virus	9
abeta	8
amino_acid_sequence	8
caenorhabditis_enzymology	8
chromatography_affinity	8
elongation	8
mechanism	8
molecular_weight	8
nucleation	8
nucleation-and-growth	8
rate	8
transcription_genetic	8
bacteria	7
biochemistry	7
calcium	7
exchange	7
fitting	7
lipid	7
method	7
nmr	7
protein_folding	7
caenorhabditis_elegans_genetics	6
caenorhabditis_embryology	6
caenorhabditis_growth_and_development	6
catalysis	6
channel	6
chromatography	6
comp-vertebrate	6
enzyme-kinetics	6
kinesin	6
meth-binding_assay	6
molecular_simulation	6
procedure	6
quasiharmonic_models	6
recombinant_proteins_metabolism	6
restriction_mapping	6
rna_messenger_genetics	6
self-assembly	6

Group: baker-group - with tag kinetics [117 articles] Export

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