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- Alberto Imparato, Luca Peliti
- Physical review. E, Statistical, nonlinear, and…
- 2005

We derive the differential equation describing the time evolution of the work probability distribution function of a stochastic system which is driven out of equilibrium by the manipulation of a parameter. We consider both systems described by their microscopic state or by a collective variable which identifies a quasiequilibrium state. We show that the… (More)

We obtain a simple direct derivation of the differential equation governing the entropy flow probability distribution function of a stochastic system first obtained by Lebowitz and Spohn. We show that the solution of this equation satisfies the well known fluctuation relations for the entropy also for finite times. A trajectory sampling algorithm allowing… (More)

- Michele Caraglio, Alberto Imparato, Alessandro Pelizzola
- Physical review. E, Statistical, nonlinear, and…
- 2011

An Ising-like model of proteins is used to investigate the mechanical unfolding of the green fluorescent protein along different directions. When the protein is pulled from its ends, we recover the major and minor unfolding pathways observed in experiments. Upon varying the pulling direction, we find the correct order of magnitude and ranking of the… (More)

- Aykut Argun, Ali-Reza Moradi, Erçaǧ Pinçe, G. Baris Bagci, Alberto Imparato, Giovanni Volpe
- Physical review. E
- 2016

Most natural and engineered processes, such as biomolecular reactions, protein folding, and population dynamics, occur far from equilibrium and therefore cannot be treated within the framework of classical equilibrium thermodynamics. Here we experimentally study how some fundamental thermodynamic quantities and relations are affected by the presence of the… (More)

- Alberto Imparato, Alessandro Pelizzola
- Physical review letters
- 2008

Mechanical unfolding and refolding of ubiquitin are studied by Monte Carlo simulations of a Gō model with binary variables. The exponential dependence of the time constants on the force is verified, and folding and unfolding lengths are computed, with good agreement with experimental results. Furthermore, the model exhibits intermediate kinetic states, as… (More)

– The elastic properties of two-component bilayer membranes are studied using a coarse grain model for amphiphilic molecules. The two species of amphiphiles considered here differ only in their length. Molecular Dynamics simulations are performed in order to analyze the shape fluctuations of the two-component bilayer membranes and to determine their bending… (More)

- Alberto Imparato
- The Journal of chemical physics
- 2006

We study the elastic response of bilayer membranes with fixed projected area to both the stretching and shape deformations. A surface tension is associated to each of these deformations. By using model amphiphilic membranes and computer simulations, we are able to observe both the types of deformation, and thus, both the surface tensions, related to each… (More)

- Kaare B. Mikkelsen, Alberto Imparato, Alessandro Torcini
- Physical review letters
- 2013

The collective dynamics of excitatory pulse coupled neurons with spike-timing dependent plasticity is studied. The introduction of spike-timing dependent plasticity induces persistent irregular oscillations between strongly and weakly synchronized states, reminiscent of brain activity during slow-wave sleep. We explain the oscillations by a mechanism, the… (More)

- Pétur O. Heidarsson, Mariela R Otazo, +7 authors Ciro Cecconi
- Structure
- 2013

EF-hand calcium sensors respond structurally to changes in intracellular Ca(2+) concentration, triggering diverse cellular responses and resulting in broad interactomes. Despite impressive advances in decoding their structure-function relationships, the folding mechanism of neuronal calcium sensors is still elusive. We used single-molecule optical tweezers… (More)

- Alberto Imparato, Luca Peliti
- Physical review. E, Statistical, nonlinear, and…
- 2006

We consider a driven Brownian particle, subject to both conservative and nonconservative applied forces, whose probability evolves according to the Kramers equation. We derive a general fluctuation relation, expressing the ratio of the probability of a given Brownian path in phase space with that of the time-reversed path, in terms of the entropy flux to… (More)