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Related Experiment Video

Updated: Jul 2, 2026

Visualizing Surface T-Cell Receptor Dynamics Four-Dimensionally Using Lattice Light-Sheet Microscopy

Visualizing Surface T-Cell Receptor Dynamics Four-Dimensionally Using Lattice Light-Sheet Microscopy

Published on: January 30, 2020

Whole-cell particle-based digital twin simulations from 4D lattice light-sheet microscopy data.

Eric Arkfeld¹, Zichen Wang¹, Hiroyuki Hakozaki¹

¹Department of Pharmacology, University of California, San Diego, San Diego, CA 92093, USA; Department of Biochemistry and Molecular Biophysics, University of California, San Diego, San Diego, CA 92093, USA.

|June 30, 2026

Summary

We developed a digital twin to simulate intracellular organelle dynamics using microscopy and simulations. This framework accurately predicts mitochondrial movement and clustering, highlighting microtubule structure

Keywords:

ReaDDy digital twin lattice light-sheet microscopy microtubule cytoskeleton mitochondrial dynamics mitochondrial fusion-fission molecular motors perinuclear clustering reaction-diffusion simulation whole-cell modeling

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Published on: September 29, 2014

Area of Science:

Cell biology
Computational biology
Biophysics

Background:

Understanding intracellular organelle dynamics is crucial for cell function.
Existing models often lack the spatial and temporal resolution to capture complex dynamics.
Digital twin technology offers a novel approach to model biological systems.

Purpose of the Study:

To introduce a whole-cell digital twin framework for modeling mesoscale intracellular organelle dynamics.
To integrate four-dimensional (4D) microscopy with particle-based simulations.
To investigate the effects of perturbations on mitochondrial dynamics.

Main Methods:

Integration of 4D lattice light-sheet microscopy with ReaDDy particle-based reaction-diffusion simulations.
Construction of spatially resolved digital twins of Cal27 cells, including organelles and cytoskeletal networks.
Modeling of mitochondrial dynamics: fusion/fission, diffusion, and motor-driven transport.

Main Results:

Simulations accurately reproduced experimental trends in mitochondrial dynamics under various conditions.
The framework predicted emergent perinuclear mitochondrial clustering under simulated stress.
Microtubule topology was identified as a critical structural gate for mitochondrial reorganization.

Conclusions:

The digital twin framework provides a predictive and interpretable approach for studying intracellular dynamics.
Microtubule network structure, not just motor activity, is essential for mitochondrial clustering.
This approach enables investigation of perturbation effects on cellular organization.