Cecilia Clementi
Cecilia Clementi
Professor of Physics, Freie Universität Berlin
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Cited by
Cited by
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
Machine learning for molecular simulation
F Noé, A Tkatchenko, KR Müller, C Clementi
Annual review of physical chemistry 71 (1), 361-390, 2020
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
Coarse-grained models of protein folding: toy models or predictive tools?
C Clementi
Current opinion in structural biology 18 (1), 10-15, 2008
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
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
Determination of reaction coordinates via locally scaled diffusion map
MA Rohrdanz, W Zheng, M Maggioni, C Clementi
The Journal of chemical physics 134 (12), 2011
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
Unsupervised learning methods for molecular simulation data
A Glielmo, BE Husic, A Rodriguez, C Clementi, F Noé, A Laio
Chemical Reviews 121 (16), 9722-9758, 2021
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
Sparse learning of stochastic dynamic equations
L Boninsegna, F Nüske, C Clementi
J. Chem. Phys. 148, 241723, 2018
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 (1), 295-316, 2013
Data-driven approximation of the Koopman generator: Model reduction, system identification, and control
S Klus, F Nüske, S Peitz, JH Niemann, C Clementi, C Schütte
Physica D: Nonlinear Phenomena 406, 132416, 2020
Kinetic distance and kinetic maps from molecular dynamics simulation
F Noé, C Clementi
Journal of Chemical Theory and Computation 11 (10), 5002–5011, 2015
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
The effects of nonnative interactions on protein folding rates: theory and simulation
C Clementi, SS Plotkin
Protein Science 13 (7), 1750-1766, 2004
Riemannian theory of Hamiltonian chaos and Lyapunov exponents
L Casetti, C Clementi, M Pettini
Physical Review E 54 (6), 5969, 1996
Geometry of dynamics, Lyapunov exponents, and phase transitions
L Caiani, L Casetti, C Clementi, M Pettini
Physical review letters 79 (22), 4361, 1997
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
Machine learning for protein folding and dynamics
F Noé, G De Fabritiis, C Clementi
Current opinion in structural biology 60, 77-84, 2020
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