Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Protein Diffusion in the Membrane

Protein Diffusion in the Membrane

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...

You might also read

Related Articles

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

Sort by

Same author

Clinical outcomes of combination treatment with FMS-like tyrosine kinase 3 (FLT3) and isocitrate dehydrogenase 1/2 (IDH1/2) inhibitors in patients with acute myeloid leukaemia.

British journal of haematology·2026

Same author

Final analysis of phase 2 clinical trial of ruxolitinib and azacitidine combination therapy in patients with myelodysplastic syndrome/myeloproliferative neoplasms.

Journal of hematology & oncology·2026

Same author

All-Oral Combination of Revumenib, Decitabine, and Venetoclax for Relapsed or Refractory AML (SAVE).

Journal of clinical oncology : official journal of the American Society of Clinical Oncology·2026

Same author

Prognostic impact of ASXL1 mutations in acute myeloid leukemia treated with lower intensity therapy.

Cancer·2026

Same author

BB-EIT: A Generalized Prediction Model for Protein Adsorption on Polymer Brushes Using Augmented Chemical Embeddings.

ACS applied materials & interfaces·2026

Same author

Nine Metachronous Cancers Primarily Involving the Head and Neck: A Case Report.

Cureus·2026

Search research articles

Related Experiment Video

Updated: Jul 7, 2026

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

Published on: February 23, 2018

pSpatiocyte: a high-performance simulator for intracellular reaction-diffusion systems.

Satya N V Arjunan¹, Atsushi Miyauchi², Kazunari Iwamoto³

¹RIKEN Center for Biosystems Dynamics Research, Suita, Osaka, Japan. satya@riken.jp.

BMC Bioinformatics

|January 31, 2020

Summary

We developed pSpatiocyte, a parallelized reaction-diffusion simulator that significantly speeds up intracellular spatial simulations. This method enhances computational efficiency for modeling complex cellular processes.

Keywords:

Cell simulation Hexagonal close-packed lattice Message passing interface Mitogen-activated protein kinase Monte Carlo method Particle reaction-diffusion parallelized Gillespie’s direct-method

More Related Videos

Image Processing Protocol for the Analysis of the Diffusion and Cluster Size of Membrane Receptors by Fluorescence Microscopy

Image Processing Protocol for the Analysis of the Diffusion and Cluster Size of Membrane Receptors by Fluorescence Microscopy

Published on: April 9, 2019

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

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

Published on: September 5, 2019

Related Experiment Videos

Last Updated: Jul 7, 2026

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

A Method for Determination and Simulation of Permeability and Diffusion in a 3D Tissue Model in a Membrane Insert System for Multi-well Plates

Published on: February 23, 2018

Image Processing Protocol for the Analysis of the Diffusion and Cluster Size of Membrane Receptors by Fluorescence Microscopy

Image Processing Protocol for the Analysis of the Diffusion and Cluster Size of Membrane Receptors by Fluorescence Microscopy

Published on: April 9, 2019

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

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

Published on: September 5, 2019

Area of Science:

Computational Biology
Biophysics
Cellular Modeling

Background:

Intracellular molecular distribution is crucial for cellular functions.
Microscopic simulators like Spatiocyte model diffusion-limited reactions and molecular crowding.
These simulations are computationally intensive, especially for large or crowded cellular environments.

Purpose of the Study:

To develop a high-performance, parallelized version of the Spatiocyte simulator, named pSpatiocyte.
To reduce the computational cost of simulating intracellular reaction-diffusion systems.

Main Methods:

Implemented parallelization schemes on a hexagonal close-packed (HCP) lattice.
Introduced a novel coordinate system for efficient HCP lattice voxel access.
Developed parallelized algorithms for event scheduling, unimolecular reactions (Gillespie's direct method), and diffusion/bimolecular reactions.

Main Results:

pSpatiocyte demonstrated high parallel efficiency (74%) and significant speedup (7686x) on large core counts.
Achieved at least 60% efficiency in weak scaling up to 663,552 cores.
Outperformed Smoldyn and ReaDDy by 45- and 55-fold, respectively, on a benchmark model.
Successfully simulated the MAPK signaling pathway's dual phosphorylation-dephosphorylation cycle.

Conclusions:

pSpatiocyte offers accurate, fast, and computationally advantageous simulations for intracellular reaction-diffusion systems.
The method significantly outperforms existing microscopic particle-based simulators.
Source code is publicly available for broader research application.