Cecilia Clementi
Cecilia Clementi
Professor of Physics, Freie Universität Berlin
確認したメール アドレス: fu-berlin.de
タイトル
引用先
引用先
Topological and energetic factors: what determines the structural details of the transition state ensemble and “en-route” intermediates for protein folding? An investigation …
C Clementi, H Nymeyer, JN Onuchic
Journal of molecular biology 298 (5), 937-953, 2000
11652000
Coarse-grained models of protein folding: toy models or predictive tools?
C Clementi
Current opinion in structural biology 18 (1), 10-15, 2008
3242008
Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear dimensionality reduction
P Das, M Moll, H Stamati, LE Kavraki, C Clementi
Proceedings of the National Academy of Sciences 103 (26), 9885-9890, 2006
3032006
Determination of reaction coordinates via locally scaled diffusion map
MA Rohrdanz, W Zheng, M Maggioni, C Clementi
The Journal of chemical physics 134 (12), 03B624, 2011
2472011
Quantifying the roughness on the free energy landscape: entropic bottlenecks and protein folding rates
LL Chavez, JN Onuchic, C Clementi
Journal of the American Chemical Society 126 (27), 8426-8432, 2004
2442004
How native-state topology affects the folding of dihydrofolate reductase and interleukin-1β
C Clementi, PA Jennings, JN Onuchic
Proceedings of the National Academy of Sciences 97 (11), 5871-5876, 2000
2322000
Interplay among tertiary contacts, secondary structure formation and side-chain packing in the protein folding mechanism: all-atom representation study of protein L
C Clementi, AE Garcıa, JN Onuchic
Journal of molecular biology 326 (3), 933-954, 2003
1932003
AWSEM-MD: protein structure prediction using coarse-grained physical potentials and bioinformatically based local structure biasing
A Davtyan, NP Schafer, W Zheng, C Clementi, PG Wolynes, GA Papoian
The Journal of Physical Chemistry B 116 (29), 8494-8503, 2012
1872012
Riemannian theory of Hamiltonian chaos and Lyapunov exponents
L Casetti, C Clementi, M Pettini
Physical Review E 54 (6), 5969, 1996
1801996
The effects of nonnative interactions on protein folding rates: theory and simulation
C Clementi, SS Plotkin
Protein Science 13 (7), 1750-1766, 2004
1692004
Discovering mountain passes via torchlight: Methods for the definition of reaction coordinates and pathways in complex macromolecular reactions
MA Rohrdanz, W Zheng, C Clementi
Annual review of physical chemistry 64, 295-316, 2013
1612013
Geometry of dynamics, Lyapunov exponents, and phase transitions
L Caiani, L Casetti, C Clementi, M Pettini
Physical review letters 79 (22), 4361, 1997
1601997
Dynamics of polymer translocation through nanopores: theory meets experiment
S Matysiak, A Montesi, M Pasquali, AB Kolomeisky, C Clementi
Physical review letters 96 (11), 118103, 2006
1532006
Adaptive resolution simulation of liquid water
M Praprotnik, S Matysiak, L Delle Site, K Kremer, C Clementi
Journal of Physics: Condensed Matter 19 (29), 292201, 2007
1412007
Adaptive resolution simulation of liquid water
M Praprotnik, S Matysiak, L Delle Site, K Kremer, C Clementi
Journal of Physics: Condensed Matter 19 (29), 292201, 2007
1412007
From coarse‐grain to all‐atom: toward multiscale analysis of protein landscapes
AP Heath, LE Kavraki, C Clementi
Proteins: Structure, Function, and Bioinformatics 68 (3), 646-661, 2007
1292007
Machine learning of coarse-grained molecular dynamics force fields
J Wang, S Olsson, C Wehmeyer, A Pérez, NE Charron, G de Fabritiis, ...
ACS Central Science, 2019
1282019
Balancing energy and entropy: A minimalist model for the characterization of protein folding landscapes
P Das, S Matysiak, C Clementi
Proceedings of the National Academy of Sciences 102 (29), 10141-10146, 2005
1222005
Kinetic distance and kinetic maps from molecular dynamics simulation
F Noé, C Clementi
Journal of Chemical Theory and Computation 11 (10), 5002–5011, 2015
1212015
Prediction of folding mechanism for circular-permuted proteins
C Clementi, PA Jennings, JN Onuchic
Journal of molecular biology 311 (4), 879-890, 2001
1112001
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