Padmini Rangamani

The paper demonstrates that membrane curvature catalyzes actin nucleation through the condensation and activation of N-WASP by FBP17, revealing a curvature-guided mechanism for actin remodeling.

This paper develops a computational model of HCM cardiomyocyte signaling and metabolism to predict genotype-to-phenotype mechanisms and identify potential drug targets.

This study uses computational modeling and experiments to show that kinetic trapping of actin filaments in VASP droplets leads to different network architectures like shells and rings.

The paper develops a spatial model of CaMKII autophosphorylation in synaptic spines to show that CaM-trapping prolongs phospho-CaMKII lifetime by hindering dephosphorylation.

The paper develops computational models of the Ca2+/cAMP pathway and AKAP/AC nanodomains, predicting incoherent feedforward loop behavior in Ca2+/cAMP oscillations.

This study shows that liquid-like condensates containing both actin branching and bundling proteins can modulate the competition between these processes, leading to organized actin structures similar to those in migrating cells.

The paper develops a computational model to predict how collagen matrix microarchitecture affects degradation, showing that enzyme distribution and fibril thickness influence degradability.

This study uses a theoretical model to show that effective RBC membrane tension creates a barrier against malaria invasion by influencing membrane wrapping and cytoskeleton deformation.

This study shows that phosphorylation of α-synuclein at Serine-129 is a physiologic trigger for protein interactions and synaptic function, challenging its previous association with pathology.

The paper develops a stochastic spatial model to study how SER and SA geometry, along with RyR localization, influence Ca2+ dynamics in dendritic spines and dendrites.

This study shows that axon morphology and function are influenced by membrane mechanics, with activity modulating cholesterol levels and affecting conduction velocity.

The paper develops a computational model of AMPK and mTOR dynamics in glutamatergic synapses, showing frequency-dependent activation changes and multistability influenced by insulin signaling.

This paper extends a 1D model of cell motility to 2D, showing that the interplay between mechanosensitive adhesions and membrane tension can lead to different motility modes like gliding and zigzagging.

This paper develops a spatiotemporal model to study how dendritic spine geometry influences AMPAR dynamics during long-term potentiation, finding non-monotonic relationships between spine volume and AMPAR changes.

This study introduces a Bayesian framework for parameter estimation in dynamical systems models and demonstrates its application to signaling models, showing how uncertainty quantification improves systems biology modeling.

This study develops a network model to investigate how Ca2+ dynamics and signaling crosstalk influence YAP/TAZ activity, revealing frequency-dependent responses and non-monotonic behavior under different stimuli.

The paper develops a sensitive AMPK activity reporter, ExRai AMPKAR, to study subcellular AMPK dynamics and reveals differential regulation of AMPK activity at lysosomes, mitochondria, and the nucleus.

This paper investigates design principles for dose-response alignment in signaling motifs with negative feedback loops, showing how kinetic parameters and activation levels affect performance.

The paper shows that dendritic spine morphology affects calcium dynamics and synaptic weight change through deterministic relationships.

The paper develops models to study how signaling and trafficking influence AMPAR dynamics in synaptic plasticity, finding that model properties and stimulus frequency affect AMPAR binding at synapses.

The paper analyzes mitochondrial morphology in mouse cerebellum neurons using 3D TEM data to quantify structural features that influence metabolic output.

The paper develops a 3D reaction-diffusion model to study how mitochondria-endoplasmic reticulum contact sites regulate calcium and ATP dynamics in postsynaptic spines.

The paper identifies a GTPase circuit that enables secretion-coupled cellular autonomy in cancer cells through feedback loops and dose response alignment of growth factor sensing and secretion.

This paper uses rule-based modeling to show that neurogranin modulates CaMKII phosphorylation dynamics, acting as a leaky integrator of calcium signals through interactions with calmodulin and phosphatase.

Open-source agent-based PhysiCell model of SARS-CoV-2 infection in lung epithelium; version 5 clears virus in about 6 days in simulation, and delayed T cell arrival increases epithelial loss.

The paper develops a pipeline using GAMer 2 to convert electron microscopy images into 3D meshes for reaction-diffusion simulations in realistic cellular geometries.

This study uses mathematical modeling to investigate how dendritic spine geometry and spine apparatus organization influence calcium dynamics in neurons.

The paper presents a network-based model of GIV/Girdin-dependent cAMP signaling, revealing its role as a tunable control valve distinct from GPCRs and PDEs.