Nature Physics, ISSN 1745-2473, 10/2015, Volume 11, Issue 10, pp. 844 - 847

How long must one undertake a random search to visit all sites of a given domain? This time, known as the cover time1, is a key observable to quantify the...

Searches | Random walk theory | Pathogens | Tasks | Searching | Random walk | Strategy | Exploration | Robustness | Optimization

Searches | Random walk theory | Pathogens | Tasks | Searching | Random walk | Strategy | Exploration | Robustness | Optimization

Journal Article

PHYSICAL REVIEW LETTERS, ISSN 0031-9007, 12/2019, Volume 123, Issue 25, p. 250603

In noisy environments such as the cell, many processes involve target sites that are often hidden or inactive, and thus not always available for reaction with...

1ST-PASSAGE TIMES | CHROMATIN | PHYSICS, MULTIDISCIPLINARY | KINETICS | PERSISTENCE | DIFFUSION | ABSORPTION | MODEL | CELL | Boundary conditions | Random walk theory | Mapping | Brownian movements | Switches | Reaction kinetics

1ST-PASSAGE TIMES | CHROMATIN | PHYSICS, MULTIDISCIPLINARY | KINETICS | PERSISTENCE | DIFFUSION | ABSORPTION | MODEL | CELL | Boundary conditions | Random walk theory | Mapping | Brownian movements | Switches | Reaction kinetics

Journal Article

Journal of Physics A: Mathematical and Theoretical, ISSN 1751-8113, 2019, Volume 52, Issue 13, p. 134001

The first-passage problem of the Ornstein-Uhlenbeck process to a boundary is a long-standing problem with no known closed-form solution except in specific...

first passage processes | survival probability | Fokker-Planck equation | PHYSICS, MULTIDISCIPLINARY | PRODUCT | 1ST PASSAGE TIME | INTEGRAL-REPRESENTATION | PHYSICS, MATHEMATICAL | MOMENTS

first passage processes | survival probability | Fokker-Planck equation | PHYSICS, MULTIDISCIPLINARY | PRODUCT | 1ST PASSAGE TIME | INTEGRAL-REPRESENTATION | PHYSICS, MATHEMATICAL | MOMENTS

Journal Article

Scientific Reports, ISSN 2045-2322, 02/2016, Volume 6, Issue 1, p. 20349

The first passage is a generic concept for quantifying when a random quantity such as the position of a diffusing molecule or the value of a stock crosses a...

GEOMETRY-CONTROLLED KINETICS | 1ST-PASSAGE TIMES | MULTIDISCIPLINARY SCIENCES | Queuing theory | Physics - Statistical Mechanics

GEOMETRY-CONTROLLED KINETICS | 1ST-PASSAGE TIMES | MULTIDISCIPLINARY SCIENCES | Queuing theory | Physics - Statistical Mechanics

Journal Article

Physical Review Letters, ISSN 0031-9007, 08/2012, Volume 109, Issue 8, p. 088701

The first passage time (FPT) for random walks is a key indicator of how fast information diffuses in a given system. Despite the role of FPT as a fundamental...

PHYSICS, MULTIDISCIPLINARY | 1ST-PASSAGE TIMES | Physics - Statistical Mechanics

PHYSICS, MULTIDISCIPLINARY | 1ST-PASSAGE TIMES | Physics - Statistical Mechanics

Journal Article

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, ISSN 1539-3755, 05/2015, Volume 91, Issue 5, p. 052132

In this work we consider a simple random walk embedded in a generic branched structure and we find a close-form formula to calculate the hitting time H (i, f)...

ANOMALOUS DIFFUSION | TRANSPORT | COMB-LIKE MODELS | RANDOM-WALKS | DISORDERED MEDIA | PHYSICS, FLUIDS & PLASMAS | RESISTANCE | POROUS-MEDIA | 1ST-PASSAGE TIME | PHYSICS, MATHEMATICAL | SCATTERING | Models, Theoretical | Diffusion | Kinetics | Physics - Statistical Mechanics

ANOMALOUS DIFFUSION | TRANSPORT | COMB-LIKE MODELS | RANDOM-WALKS | DISORDERED MEDIA | PHYSICS, FLUIDS & PLASMAS | RESISTANCE | POROUS-MEDIA | 1ST-PASSAGE TIME | PHYSICS, MATHEMATICAL | SCATTERING | Models, Theoretical | Diffusion | Kinetics | Physics - Statistical Mechanics

Journal Article

Physical Review Letters, ISSN 0031-9007, 10/2010, Volume 105, Issue 15, p. 150606

We present an exact calculation of the mean first-passage time to a small target on the surface of a 2D or 3D spherical domain, for a molecule performing...

ASYMPTOTIC ANALYSIS | PHYSICS, MULTIDISCIPLINARY | KINETICS | 1ST PASSAGE TIME | PART II | DOMAINS | NARROW ESCAPE | STRATEGIES | Physics - Statistical Mechanics

ASYMPTOTIC ANALYSIS | PHYSICS, MULTIDISCIPLINARY | KINETICS | 1ST PASSAGE TIME | PART II | DOMAINS | NARROW ESCAPE | STRATEGIES | Physics - Statistical Mechanics

Journal Article

Journal of Physics A: Mathematical and Theoretical, ISSN 1751-8113, 07/2017, Volume 50, Issue 33, p. 333001

We review recent advances on the record statistics of strongly correlated time series, whose entries denote the positions of a random walk or a Levy flight on...

record statistics | strongly correlated time series | statistical physics | BREAKING RECORDS | BROWNIAN-MOTION | PERSISTENT EVENTS | PHYSICS, MULTIDISCIPLINARY | FLUCTUATION IDENTITIES | PHYSICS, MATHEMATICAL | ANOMALOUS DIFFUSION | DYNAMICS | 1ST-PASSAGE PROPERTIES | DOMAIN-WALL | WEATHER RECORDS | PROBABILITIES

record statistics | strongly correlated time series | statistical physics | BREAKING RECORDS | BROWNIAN-MOTION | PERSISTENT EVENTS | PHYSICS, MULTIDISCIPLINARY | FLUCTUATION IDENTITIES | PHYSICS, MATHEMATICAL | ANOMALOUS DIFFUSION | DYNAMICS | 1ST-PASSAGE PROPERTIES | DOMAIN-WALL | WEATHER RECORDS | PROBABILITIES

Journal Article

JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL, ISSN 1751-8113, 06/2019, Volume 52, Issue 24, p. 244001

Extreme value functionals of stochastic processes are inverse functionals of the first passage time-a connection that renders their probability distribution...

DENSITY | record statistics | PHYSICS, MULTIDISCIPLINARY | large deviation theory | MAXIMUM | Markov processes | eigenspectrum | 1ST-PASSAGE PROPERTIES | first passage time | Fokker-Planck equation | PHYSICS, MATHEMATICAL | extreme value theory

DENSITY | record statistics | PHYSICS, MULTIDISCIPLINARY | large deviation theory | MAXIMUM | Markov processes | eigenspectrum | 1ST-PASSAGE PROPERTIES | first passage time | Fokker-Planck equation | PHYSICS, MATHEMATICAL | extreme value theory

Journal Article

EPL, ISSN 0295-5075, 01/2017, Volume 117, Issue 1, pp. 10009 - 9

This paper discusses two deterministic quantities, mean first exit time and escape probability, for the anomalous processes having the tempered Levy stable...

PHYSICS, MULTIDISCIPLINARY | RANDOM-WALKS | 1ST PASSAGE | EQUATIONS | DYNAMICS | DIFFUSION | DRIVEN | NOISES | Tempering | Partial differential equations | Stability

PHYSICS, MULTIDISCIPLINARY | RANDOM-WALKS | 1ST PASSAGE | EQUATIONS | DYNAMICS | DIFFUSION | DRIVEN | NOISES | Tempering | Partial differential equations | Stability

Journal Article

PLoS ONE, ISSN 1932-6203, 11/2018, Volume 13, Issue 11, p. e0207665

Idealized passive dynamic walkers (PDW) exhibit limit cycle stability at steady state. Yet in reality, uncertainty in ground interaction forces result in...

1ST-PASSAGE TIMES | WALKING | MULTIDISCIPLINARY SCIENCES | Models, Theoretical | Markov Chains | Walkers | Monte Carlo Method | Markov processes | Analysis | Prediction (Logic) | Intervention | Variability | Markov chains | Steady state | Collision dynamics | Robotics | Design | Engineering | Walking | Energy | Feedback | Dynamic stability | Predictions | International conferences | Proportional integral derivative | Statistical mechanics | Failure | Methods

1ST-PASSAGE TIMES | WALKING | MULTIDISCIPLINARY SCIENCES | Models, Theoretical | Markov Chains | Walkers | Monte Carlo Method | Markov processes | Analysis | Prediction (Logic) | Intervention | Variability | Markov chains | Steady state | Collision dynamics | Robotics | Design | Engineering | Walking | Energy | Feedback | Dynamic stability | Predictions | International conferences | Proportional integral derivative | Statistical mechanics | Failure | Methods

Journal Article

The Journal of Chemical Physics, ISSN 0021-9606, 07/2018, Volume 149, Issue 2, p. 024903

The first return time (FRT) is the time it takes a random walker to first return to its original site, and the global first passage time (GFPT) is the first...

1ST-PASSAGE TIMES | PROBABILITY | PHYSICS, ATOMIC, MOLECULAR & CHEMICAL | CHEMISTRY, PHYSICAL | DENDRIMERS | DIFFUSION | GEOMETRY | Networks | Gaskets | Mathematical analysis | Random walk | Fractals | Random variables | Flowers | Variance

1ST-PASSAGE TIMES | PROBABILITY | PHYSICS, ATOMIC, MOLECULAR & CHEMICAL | CHEMISTRY, PHYSICAL | DENDRIMERS | DIFFUSION | GEOMETRY | Networks | Gaskets | Mathematical analysis | Random walk | Fractals | Random variables | Flowers | Variance

Journal Article

Journal of Statistical Mechanics: Theory and Experiment, ISSN 1742-5468, 09/2018, Volume 2018, Issue 9, p. 93205

The global first passage time (GFPT) is the first-passage time for a random walker from a randomly selected site to a given site. Here, we find the exact...

network dynamics | diffusion | 1ST-PASSAGE TIMES | MECHANICS | PHYSICS, MATHEMATICAL | RANDOM-WALKS

network dynamics | diffusion | 1ST-PASSAGE TIMES | MECHANICS | PHYSICS, MATHEMATICAL | RANDOM-WALKS

Journal Article

14.
Full Text
Accurate Estimation of Protein Folding and Unfolding Times: Beyond Markov State Models

Journal of Chemical Theory and Computation, ISSN 1549-9618, 08/2016, Volume 12, Issue 8, pp. 3473 - 3481

Because standard molecular dynamics (MD) simulations are unable to access time scales of interest in complex biomolecular systems, it is common to “stitch...

WEIGHTED ENSEMBLE | RATE CONSTANTS | TRAJECTORIES | PHYSICS, ATOMIC, MOLECULAR & CHEMICAL | CHEMISTRY, PHYSICAL | EXCHANGE MOLECULAR-DYNAMICS | 1ST-PASSAGE TIME | SIMULATIONS | Microfilament Proteins - chemistry | Markov Chains | Transcription Factors - chemistry | Peptides - chemistry | Protein Unfolding | Models, Molecular | Oligopeptides - metabolism | Protein Folding | Arabidopsis Proteins - metabolism | Transcription Factors - metabolism | Peptides - metabolism | Proteins - metabolism | Arabidopsis Proteins - chemistry | Time Factors | Microfilament Proteins - metabolism | Kinetics | Proteins - chemistry | Oligopeptides - chemistry | Proteins | Molecular dynamics | Mathematical models | Markov models | Trajectories | Dynamical systems | Tuning | Folding

WEIGHTED ENSEMBLE | RATE CONSTANTS | TRAJECTORIES | PHYSICS, ATOMIC, MOLECULAR & CHEMICAL | CHEMISTRY, PHYSICAL | EXCHANGE MOLECULAR-DYNAMICS | 1ST-PASSAGE TIME | SIMULATIONS | Microfilament Proteins - chemistry | Markov Chains | Transcription Factors - chemistry | Peptides - chemistry | Protein Unfolding | Models, Molecular | Oligopeptides - metabolism | Protein Folding | Arabidopsis Proteins - metabolism | Transcription Factors - metabolism | Peptides - metabolism | Proteins - metabolism | Arabidopsis Proteins - chemistry | Time Factors | Microfilament Proteins - metabolism | Kinetics | Proteins - chemistry | Oligopeptides - chemistry | Proteins | Molecular dynamics | Mathematical models | Markov models | Trajectories | Dynamical systems | Tuning | Folding

Journal Article

Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, ISSN 1539-3755, 05/2015, Volume 91, Issue 5, p. 052701

We consider a leaky integrate-and-fire neuron with deterministic subthreshold dynamics and a firing threshold that evolves as an Ornstein-Uhlenbeck process....

BROWNIAN-MOTION | VARIABILITY | DIFFUSION-PROCESSES | MODELS | 1ST PASSAGE | PHYSICS, FLUIDS & PLASMAS | IN-VIVO | NOISE | BOUNDARY | NEURAL SPIKING | PHYSICS, MATHEMATICAL | SPIKING ACTIVITY | Neurons - cytology | Models, Neurological | Stochastic Processes | Time Factors

BROWNIAN-MOTION | VARIABILITY | DIFFUSION-PROCESSES | MODELS | 1ST PASSAGE | PHYSICS, FLUIDS & PLASMAS | IN-VIVO | NOISE | BOUNDARY | NEURAL SPIKING | PHYSICS, MATHEMATICAL | SPIKING ACTIVITY | Neurons - cytology | Models, Neurological | Stochastic Processes | Time Factors

Journal Article

Advanced Drug Delivery Reviews, ISSN 0169-409X, 01/2018, Volume 124, pp. 64 - 81

In mucosal drug delivery, two design goals are desirable: 1) insure drug passage through the mucosal barrier to the epithelium prior to drug removal from the...

Particle tracking experiments | Mucosal drug-loaded particle delivery | One-sided diffusive passage times | MICROSCOPIC VISCOELASTICITY | RESPIRATORY MUCUS | MULTIPLE-PARTICLE TRACKING | GASTROINTESTINAL MUCUS | RAPID-TRANSPORT | MALIGNANT GLIOMA | 1ST-PASSAGE TIMES | POLYMERIC NANOPARTICLES | SURFACE LIQUID VOLUME | PHARMACOLOGY & PHARMACY | CYSTIC-FIBROSIS SPUTUM | Viscosity | Nanoparticles - chemistry | Time Factors | Humans | Nanoparticles - metabolism | Mucus - metabolism | Mucus - chemistry | Drug Delivery Systems | Drugs | Drug delivery systems | Vehicles

Particle tracking experiments | Mucosal drug-loaded particle delivery | One-sided diffusive passage times | MICROSCOPIC VISCOELASTICITY | RESPIRATORY MUCUS | MULTIPLE-PARTICLE TRACKING | GASTROINTESTINAL MUCUS | RAPID-TRANSPORT | MALIGNANT GLIOMA | 1ST-PASSAGE TIMES | POLYMERIC NANOPARTICLES | SURFACE LIQUID VOLUME | PHARMACOLOGY & PHARMACY | CYSTIC-FIBROSIS SPUTUM | Viscosity | Nanoparticles - chemistry | Time Factors | Humans | Nanoparticles - metabolism | Mucus - metabolism | Mucus - chemistry | Drug Delivery Systems | Drugs | Drug delivery systems | Vehicles

Journal Article

Journal of Physics A: Mathematical and Theoretical, ISSN 1751-8113, 01/2015, Volume 48, Issue 1, pp. 13001 - 44

We revise the classical problem of characterizing first exit times of a harmonically trapped particle whose motion is described by a one-or multidimensional...

first exit time | harmonic potential | OrnsteinUhlenbeck process | FokkerPlanck equation | survival probability | confluent hypergeometric function | optical tweezers | Ornstein-Uhlenbeck process | PHYSICS, MULTIDISCIPLINARY | FRACTIONAL BROWNIAN-MOTION | Fokker-Planck equation | PHYSICS, MATHEMATICAL | CROSSING PROBABILITIES | DIFFUSION-CONTROLLED REACTIONS | DYNAMIC FORCE SPECTROSCOPY | 1ST-PASSAGE TIMES | WIENER PROCESS | PASSAGE TIME | MOLECULAR ADHESION BONDS | Hypergeometric functions | Trapped particles | Eigenvalues | Mathematical models | Diffusion | Survival

first exit time | harmonic potential | OrnsteinUhlenbeck process | FokkerPlanck equation | survival probability | confluent hypergeometric function | optical tweezers | Ornstein-Uhlenbeck process | PHYSICS, MULTIDISCIPLINARY | FRACTIONAL BROWNIAN-MOTION | Fokker-Planck equation | PHYSICS, MATHEMATICAL | CROSSING PROBABILITIES | DIFFUSION-CONTROLLED REACTIONS | DYNAMIC FORCE SPECTROSCOPY | 1ST-PASSAGE TIMES | WIENER PROCESS | PASSAGE TIME | MOLECULAR ADHESION BONDS | Hypergeometric functions | Trapped particles | Eigenvalues | Mathematical models | Diffusion | Survival

Journal Article

CHINESE PHYSICS LETTERS, ISSN 0256-307X, 08/2019, Volume 36, Issue 8, p. 80305

In the traditional random-conformational-search model, various hypotheses with a series of meta-stable intermediate states were proposed to resolve the...

PATHWAYS | 1ST-PASSAGE TIMES | THERMODYNAMICS | PHYSICS, MULTIDISCIPLINARY | KINETICS | STABILITY | SEQUENCE | DYNAMICS | PHYSICS | SIMULATION | SIMPLE THEORETICAL-MODEL

PATHWAYS | 1ST-PASSAGE TIMES | THERMODYNAMICS | PHYSICS, MULTIDISCIPLINARY | KINETICS | STABILITY | SEQUENCE | DYNAMICS | PHYSICS | SIMULATION | SIMPLE THEORETICAL-MODEL

Journal Article