ArticleThe European physical journal. E, Soft matter2021
Diffusive search and trajectories on tubular networks: a propagator approach.
Article in The European physical journal. E, Soft matter, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
What it found
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Who cites it
8 citing papers in PubMed, 20 citations in OpenAlex.
- Mitochondrial dynamics resolve physical-social tensions and challenges through adaptable multi-objective optimisation.bioRxiv : the preprint server for biology · 2026Article
- Many will enter, few will win: Cost and sensitivity of exploratory dynamics.Biophysical journal · 2026Article
- Luminal transport through intact endoplasmic reticulum limits the magnitude of localized CaProceedings of the National Academy of Sciences of the United States of America · 2024Article
- FAST SOLVER FOR DIFFUSIVE TRANSPORT TIMES ON DYNAMIC INTRACELLULAR NETWORKS.SIAM journal on applied mathematics · 2024Article
- Endoplasmic reticulum network heterogeneity guides diffusive transport and kinetics.Biophysical journal · 2023Article
- Mitochondrial networks through the lens of mathematics.Physical biology · 2023Review
- Dispersive transport dynamics in porous media emerge from local correlations.Nature communications · 2022Article
- Optimizing microtubule arrangements for rapid cargo capture.Biophysical journal · 2021Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 2 countries.
Funding
Abstract
Several organelles in eukaryotic cells, including mitochondria and the endoplasmic reticulum, form interconnected tubule networks extending throughout the cell. These tubular networks host many biochemical pathways that rely on proteins diffusively searching through the network to encounter binding partners or localized target regions. Predicting the behavior of such pathways requires a quantitative understanding of how confinement to a reticulated structure modulates reaction kinetics. In this work, we develop both exact analytical methods to compute mean first passage times and efficient kinetic Monte Carlo algorithms to simulate trajectories of particles diffusing in a tubular network. Our approach leverages exact propagator functions for the distribution of transition times between network nodes and allows large simulation time steps determined by the network structure. The methodology is applied to both synthetic planar networks and organelle network structures, demonstrating key general features such as the heterogeneity of search times in different network regions and the functional advantage of broadly distributing target sites throughout the network. The proposed algorithms pave the way for future exploration of the interrelationship between tubular network structure and biomolecular reaction kinetics.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.