ReviewBulletin of mathematical biology2019
Spatial Stochastic Intracellular Kinetics: A Review of Modelling Approaches.
Review in Bulletin of mathematical biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
17 citing papers in PubMed.
- Incorporating spatial diffusion into models of bursty stochastic transcription.Journal of the Royal Society, Interface · 2025Article
- Inferring Stochastic Rates from Heterogeneous Snapshots of Particle Positions.Bulletin of mathematical biology · 2024Article
- Making time and space for calcium control of neuron activity.Current opinion in neurobiology · 2023Review
- Article
- Mitochondrial network structure controls cell-to-cell mtDNA variability generated by cell divisions.PLoS computational biology · 2023Article
- Systematic comparison of modeling fidelity levels and parameter inference settings applied to negative feedback gene regulation.PLoS computational biology · 2022Article
- Reinforcing Interdisciplinary Collaborations to Unravel the Astrocyte "Calcium Code".Journal of molecular neuroscience : MN · 2022Review
- Can Systems Biology Advance Clinical Precision Oncology?Cancers · 2021Review
- Spearheading future omics analyses using dyngen, a multi-modal simulator of single cells.Nature communications · 2021Article
- Quantifying the roles of space and stochasticity in computer simulations for cell biology and cellular biochemistry.Molecular biology of the cell · 2021Article
- Article
- Generalized stochastic microdosimetric model: The main formulation.Physical review. E · 2021Article
- Strong intracellular signal inactivation produces sharper and more robust signaling from cell membrane to nucleus.PLoS computational biology · 2020Article
- pSpatiocyte: a high-performance simulator for intracellular reaction-diffusion systems.BMC bioinformatics · 2020Article
- Modeling heterogeneous tumor growth dynamics and cell-cell interactions at single-cell and cell-population resolution.Current opinion in systems biology · 2019Article
- Simulation of calcium signaling in fine astrocytic processes: Effect of spatial properties on spontaneous activity.PLoS computational biology · 2019Article
- Comprehensive Review of Models and Methods for Inferences in Bio-Chemical Reaction Networks.Frontiers in genetics · 2019Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
Models of chemical kinetics that incorporate both stochasticity and diffusion are an increasingly common tool for studying biology. The variety of competing models is vast, but two stand out by virtue of their popularity: the reaction-diffusion master equation and Brownian dynamics. In this review, we critically address a number of open questions surrounding these models: How can they be justified physically? How do they relate to each other? How do they fit into the wider landscape of chemical models, ranging from the rate equations to molecular dynamics? This review assumes no prior knowledge of modelling chemical kinetics and should be accessible to a wide range of readers.
Indexed as
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.