ArticleBMC biophysics2011
Diffusion in crowded biological environments: applications of Brownian dynamics.
Article in BMC biophysics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
36 citing papers in PubMed.
- Immune Evasion in Prostate Cancer: Resolving the Cold Tumour Paradox via a Hybrid Discrete-Continuum Computational Framework.Biology · 2026Article
- On the curvature and relaxation of microtubule plus-end tips.Biophysical journal · 2026Article
- BRIGHT Enables High-SNR Live-Cell Imaging of Non-Repetitive Sequences via Bivalent Fluorescent Nanobody-Mediated Cascade-Dependent Illumination.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- The Brownian dynamics simulator PyRID for reacting and interacting particles written in Python.Cell reports methods · 2025Article
- Molecular Crowding by Computational Approaches.Sub-cellular biochemistry · 2025Review
- Diffusion of proteins in crowded solutions studied by docking-based modeling.The Journal of chemical physics · 2024Article
- Experimentally Probing the Effect of Confinement Geometry on Lipid Diffusion.The journal of physical chemistry. B · 2024Article
- Computational Approaches to Predict Protein-Protein Interactions in Crowded Cellular Environments.Chemical reviews · 2024Review
- Minimal Coarse-Grained Model for Immunoglobulin G: Diffusion and Binding under Crowding.The journal of physical chemistry. B · 2023Article
- Effects of Homogeneous and Heterogeneous Crowding on Translational Diffusion of Rigid Bovine Serum Albumin and Disordered Alfa-Casein.International journal of molecular sciences · 2023Article
- Anomalous diffusion of nanoparticles in the spatially heterogeneous biofilm environment.iScience · 2023Article
- Varying molecular interactions explain aspects of crowder-dependent enzyme function of a viral protease.PLoS computational biology · 2023Article
- Effect of Protein-Protein Interactions on Translational Diffusion of Spheroidal Proteins.International journal of molecular sciences · 2022Review
- Water as a Link between Membrane and Colloidal Theories for Cells.Molecules (Basel, Switzerland) · 2022Review
- Kymolyzer, a Semi-Autonomous Kymography Tool to Analyze Intracellular Motility.Current protocols in cell biology · 2020Article
- Enzymatic activity of human immunodeficiency virus type 1 protease in crowded solutions.European biophysics journal : EBJ · 2019Article
- Motion in a crowded environment: the influence of obstacles' size and shape and model of transport.Journal of molecular modeling · 2019Article
- Modeling Crowded Environment in Molecular Simulations.Frontiers in molecular biosciences · 2019Review
- Review
- Molecular simulations of cellular processes.Biophysical reviews · 2017Review
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Biochemical reactions in living systems occur in complex, heterogeneous media with total concentrations of macromolecules in the range of 50 - 400 mgml. Molecular species occupy a significant fraction of the immersing medium, up to 40% of volume. Such complex and volume-occupied environments are generally termed 'crowded' and/or 'confined'. In crowded conditions non-specific interactions between macromolecules may hinder diffusion - a major process determining metabolism, transport, and signaling. Also, the crowded media can alter, both qualitatively and quantitatively, the reactions in vivo in comparison with their in vitro counterparts. This review focuses on recent developments in particle-based Brownian dynamics algorithms, their applications to model diffusive transport in crowded systems, and their abilities to reproduce and predict the behavior of macromolecules under in vivo conditions.
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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.