Plasticity of spine structure: local signaling, translation and cytoskeletal reorganization

Y Nakahata, R Yasuda - Frontiers in synaptic neuroscience, 2018 - frontiersin.org
Dendritic spines are small protrusive structures on dendritic surfaces, and function as
postsynaptic compartments for excitatory synapses. Plasticity of spine structure is associated …

Mathematical models of blast-induced TBI: current status, challenges, and prospects

RK Gupta, A Przekwas - Frontiers in neurology, 2013 - frontiersin.org
Blast-induced traumatic brain injury (TBI) has become a signature wound of recent military
activities and is the leading cause of death and long-term disability among US soldiers. The …

Biophysics of biochemical signaling in dendritic spines: implications in synaptic plasticity

R Yasuda - Biophysical journal, 2017 - cell.com
Dendritic spines are mushroom-shaped postsynaptic compartments that host biochemical
signal cascades important for synaptic plasticity and, ultimately, learning and memory …

Reproducibility in computational neuroscience models and simulations

RA McDougal, AS Bulanova… - IEEE Transactions on …, 2016 - ieeexplore.ieee.org
Objective: Like all scientific research, computational neuroscience research must be
reproducible. Big data science, including simulation research, cannot depend exclusively on …

An efficient analytical reduction of detailed nonlinear neuron models

O Amsalem, G Eyal, N Rogozinski, M Gevaert… - Nature …, 2020 - nature.com
Detailed conductance-based nonlinear neuron models consisting of thousands of synapses
are key for understanding of the computational properties of single neurons and large …

Reaction-diffusion in the NEURON simulator

RA McDougal, ML Hines, WW Lytton - Frontiers in neuroinformatics, 2013 - frontiersin.org
In order to support research on the role of cell biological principles (genomics, proteomics,
signaling cascades and reaction dynamics) on the dynamics of neuronal response in health …

Approaches and tools for modeling signaling pathways and calcium dynamics in neurons

KT Blackwell - Journal of neuroscience methods, 2013 - Elsevier
Signaling pathways are cascades of intracellular biochemical reactions that are activated by
transmembrane receptors, and ultimately lead to transcription in the nucleus. In neurons …

An isogeometric analysis computational platform for material transport simulations in complex neurite networks

A Li, X Chai - Molecular & cellular biomechanics, 2019 - par.nsf.gov
Neurons exhibit remarkably complex geometry in their neurite networks. So far, how
materials are transported in the complex geometry for survival and function of neurons …

Mathematical basis and toolchain for hierarchical optimization of biochemical networks

NA Viswan, A Tribut, M Gasparyan… - PLOS Computational …, 2024 - journals.plos.org
Biological signalling systems are complex, and efforts to build mechanistic models must
confront a huge parameter space, indirect and sparse data, and frequently encounter …

The 40-year history of modeling active dendrites in cerebellar Purkinje cells: emergence of the first single cell “community model”

JM Bower - Frontiers in computational neuroscience, 2015 - frontiersin.org
The subject of the effects of the active properties of the Purkinje cell dendrite on neuronal
function has been an active subject of study for more than 40 years. Somewhat unusually …