Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Diffusion01:12

Diffusion

225.0K
Diffusion is the passive movement of substances down their concentration gradients—requiring no expenditure of cellular energy. Substances, such as molecules or ions, diffuse from an area of high concentration to an area of low concentration in the cytosol or across membranes. Eventually, the concentration will even out, with the substance moving randomly but causing no net change in concentration. Such a state is called dynamic equilibrium, which is essential for maintaining overall...
225.0K
Diffusion01:21

Diffusion

7.0K
Diffusion is a type of passive transport. In passive transport, a substance tends to move from an area of high concentration to an area of low concentration until the concentration is equal across the space. For example, take the diffusion of substances through the air. When someone opens a perfume bottle in a room filled with people, the perfume is at its highest concentration in the bottle and is at its lowest at the edges of the room. The perfume vapor will diffuse, or spread away, from the...
7.0K
Protein Diffusion in the Membrane01:24

Protein Diffusion in the Membrane

6.0K
Proteins show rotational as well as lateral diffusion across the membrane. The lateral diffusion of proteins was confirmed through the cell fusion experiment where mouse and human cells were fused, resulting in hybrid cells. When the human and mouse cells fused, the specific membrane proteins on human and mouse cells were marked with the red and green-fluorescent markers, respectively. Initially, the red and green fluorescence was located on the respective hemisphere of the cell. As time...
6.0K
Behavior of Gas Molecules: Molecular Diffusion, Mean Free Path, and Effusion03:48

Behavior of Gas Molecules: Molecular Diffusion, Mean Free Path, and Effusion

31.7K
Although gaseous molecules travel at tremendous speeds (hundreds of meters per second), they collide with other gaseous molecules and travel in many different directions before reaching the desired target. At room temperature, a gaseous molecule will experience billions of collisions per second. The mean free path is the average distance a molecule travels between collisions. The mean free path increases with decreasing pressure; in general, the mean free path for a gaseous molecule will be...
31.7K
Capillarity in Fluid01:19

Capillarity in Fluid

1.4K
Capillarity describes the movement of liquid in small spaces without external forces acting on it. The capillarity is driven by surface tension and adhesive interactions between the liquid and surrounding solid surfaces. This effect is often seen in narrow tubes, porous materials, and fine particles.
Surface tension is crucial to capillarity. It results from cohesive forces between liquid molecules at the liquid-air boundary, forming a skin that resists external forces. When the capillary tube...
1.4K
Physiological Pharmacokinetic Models: Blood Flow-Limited Versus Diffusion-Limited Models00:57

Physiological Pharmacokinetic Models: Blood Flow-Limited Versus Diffusion-Limited Models

397
Physiological pharmacokinetic models, often called flow-limited or perfusion models, typically assume a swift drug distribution between tissue and venous blood, creating a rapid drug equilibrium. This premise is based on the idea that drug diffusion is extremely fast, and the cell membrane presents no barrier to drug permeation. In this scenario, where no drug binding occurs, the drug concentration in the tissue equals that of the venous blood leaving the tissue. This greatly simplifies the...
397

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

The Angular Localization Function (ALF): A Practical Tool to Measure Solvent Angular Order with Molecular Density Functional Theory.

The journal of physical chemistry. B·2026
Same author

Coupled concentration-charge dynamics in 1:1 electrolytes with unequal diffusion coefficients: Local transient response and fluctuations.

The Journal of chemical physics·2026
Same author

Brownian dynamics simulations of electric double-layer capacitors with tunable metallicity.

The Journal of chemical physics·2026
Same author

From soup to structure: Simulating hydrated semi-crystalline proton exchange membranes.

The Journal of chemical physics·2025
Same author

Poisson-Nernst-Planck charging dynamics of an electric double-layer capacitor: Symmetric and asymmetric binary electrolytes.

Physical review. E·2025
Same author

Charging Dynamics of Electric Double-Layer Nanocapacitors in Mean Field.

Physical review letters·2025
Same journal

Improving PCM in Protic Media: Markov State Models for TD-DFT Calculations.

Journal of chemical theory and computation·2026
Same journal

Efficient Coupled-Cluster Python Frameworks for Next-Generation GPUs: A Comparative Study of CuPy and PyTorch on the Hopper and Grace Hopper Architecture.

Journal of chemical theory and computation·2026
Same journal

Extending the MARTINI 3 Coarse-Grained Force Field to Polypeptoids.

Journal of chemical theory and computation·2026
Same journal

Statistical Mechanics of Density- and Temperature-Dependent Potentials: Application to Condensed Phases within GenDPDE.

Journal of chemical theory and computation·2026
Same journal

BFEE-Docking: A User-Friendly and Customizable End-to-End Tool from High-Throughput Virtual Screening to Binding Free-Energy Calculations.

Journal of chemical theory and computation·2026
Same journal

On-the-Fly Trajectory Simulation of Two-Pulse, Three-Pulse, and Higher-Order Pump-Probe Signals.

Journal of chemical theory and computation·2026
See all related articles

Related Experiment Video

Updated: Mar 2, 2026

Confocal Imaging of Confined Quiescent and Flowing Colloid-polymer Mixtures
10:56

Confocal Imaging of Confined Quiescent and Flowing Colloid-polymer Mixtures

Published on: May 20, 2014

12.6K

Diffusion under Confinement: Hydrodynamic Finite-Size Effects in Simulation.

Pauline Simonnin1,2, Benoı T Noetinger2, Carlos Nieto-Draghi2

  • 1Sorbonne Universités, UPMC Univ Paris 06, CNRS, Laboratoire PHENIX, Case 51, 4 Place Jussieu, F-75005 Paris, France.

Journal of Chemical Theory and Computation
|May 24, 2017
PubMed
Summary
This summary is machine-generated.

Finite-size effects significantly impact diffusion simulations in confined fluids. Periodic boundary conditions introduce artifacts, requiring corrections for accurate results in nanopore studies.

More Related Videos

The Diffusion of Passive Tracers in Laminar Shear Flow
08:01

The Diffusion of Passive Tracers in Laminar Shear Flow

Published on: May 1, 2018

9.1K
Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules
10:20

Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules

Published on: September 5, 2019

8.8K

Related Experiment Videos

Last Updated: Mar 2, 2026

Confocal Imaging of Confined Quiescent and Flowing Colloid-polymer Mixtures
10:56

Confocal Imaging of Confined Quiescent and Flowing Colloid-polymer Mixtures

Published on: May 20, 2014

12.6K
The Diffusion of Passive Tracers in Laminar Shear Flow
08:01

The Diffusion of Passive Tracers in Laminar Shear Flow

Published on: May 1, 2018

9.1K
Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules
10:20

Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules

Published on: September 5, 2019

8.8K

Area of Science:

  • Computational physics
  • Fluid dynamics
  • Materials science

Background:

  • Diffusion in confined fluids is crucial for understanding phenomena in nanoporous materials.
  • Previous studies often overlooked finite-size effects in simulations of confined systems.
  • Accurate simulation of fluid behavior at the nanoscale is essential for designing advanced materials.

Purpose of the Study:

  • To investigate and quantify finite-size effects on diffusion in confined fluids.
  • To analyze the impact of periodic boundary conditions on simulation results.
  • To develop analytical corrections for diffusion coefficients in confined systems.

Main Methods:

  • Molecular dynamics simulations of a Lennard-Jones fluid in slit pores.
  • Hydrodynamic calculations to analyze fluid behavior.
  • Derivation of analytical expressions for finite-size corrections.

Main Results:

  • Periodic boundary conditions introduce significant finite-size effects beyond the confining length.
  • These effects stem from spurious hydrodynamic interactions and momentum conservation constraints.
  • Analytical expressions accurately predict diffusion coefficient corrections, especially for larger systems.

Conclusions:

  • Finite-size artifacts from periodic boundary conditions must be considered in nanopore diffusion simulations.
  • The derived analytical expressions offer corrections applicable to molecular and mesoscopic simulations.
  • This work refines simulation methodologies for confined soft matter systems.