71 citations · 178 across the 19 of their papers we have counts for
19 papers
Platelet plug microstructure and flow modulate fibrin gelation dynamics: Insights from computational simulations
Janneke M. H. Cruts, Frank J. H. Gijsen, Aaron L. Fogelson +1
During the formation of a thrombus, the architecture of the growing platelet aggregate is heterogeneous, with areas of dense and loosely packed platelets. The surface of activated…
Mechanisms of thrombin inhibition by protein S and the TFPIα-fVshort-protein S complex
Alexander G. Ginsberg, Josefin Ahnström, James T. B. Crawley +5
Protein S (PS) is a notable anticoagulant implicated in both bleeding and thrombotic disorders, making it a promising drug target. Importantly, PS enhances the anticoagulant functi…
Modeling Platelet P2Y/ Pathway to Integrin Activation
Keshav B. Patel, Wolfgang Bergmeier, Aaron L. Fogelson
Through experimental studies, many details of the pathway of integrin activation by ADP during the platelet aggregation process have been mapped out. ADP binds to…
Adaptive Mesh Refinement for Two-Phase Viscoelastic Fluid Mixture Models
Bindi M. Nagda, Aaron Barrett, Boyce E. Griffith +2
Multiphase flows are an important class of fluid flow and their study facilitates the development of diverse applications in industrial, natural, and biomedical systems. We conside…
Flagellum Pumping Efficacy in Shear-Thinning Viscoelastic Fluids
Aaron Barrett, Aaron L. Fogelson, M. Gregory Forest +3
Microorganism motility often takes place within complex, viscoelastic fluid environments, e.g., sperm in cervicovaginal mucus and bacteria in biofilms. In such complex fluids, stra…
A Model of Fluid-Structure and Biochemical Interactions for Applications to Subclinical Leaflet Thrombosis
Aaron Barrett, Jordan A. Brown, Margaret Anne Smith +5
Subclinical leaflet thrombosis (SLT) is a potentially serious complication of aortic valve replacement with a bioprosthetic valve in which blood clots form on the replacement valve…
Immersed boundary simulations of cell-cell interactions in whole blood
Andrew Kassen, Aaron Barrett, Varun Shankar +1
We present a new method for the geometric reconstruction of elastic surfaces simulated by the immersed boundary method with the goal of simulating the motion and interactions of ce…
A Hybrid Semi-Lagrangian Cut Cell Method for Advection-Diffusion Problems with Robin Boundary Conditions in Moving Domains
Aaron Barrett, Aaron L. Fogelson, Boyce E. Griffith
We present a new discretization for advection-diffusion problems with Robin boundary conditions on complex time-dependent domains. The method is based on second order cut cell fini…
A fine-grained parallelization of the immersed boundary method
Andrew Kassen, Varun Shankar, Aaron L Fogelson
We present new algorithms for the parallelization of Eulerian-Lagrangian interaction operations in the immersed boundary method. Our algorithms rely on two well-studied parallel pr…
Pump efficacy in a fluid-structure interaction model of a chain of contracting lymphangions
Hallie Elich, Aaron Barrett, Varun Shankar +1
The transport of lymph through the lymphatic vasculature is the mechanism for returning excess interstitial fluid to the circulatory system, and it is essential for fluid homeostas…
An Efficient High-Order Meshless Method for Advection-Diffusion Equations on Time-Varying Irregular Domains
Varun Shankar, Grady B. Wright, Aaron L. Fogelson
We present a high-order radial basis function finite difference (RBF-FD) framework for the solution of advection-diffusion equations on time-varying domains. Our framework is based…
A Mathematical Model of Platelet Aggregation in an Extravascular Injury Under Flow
Kathryn G. Link, Matthew G. Sorrells, Nicholas A. Danes +3
We present the first mathematical model of flow-mediated primary hemostasis in an extravascular injury, which can track the process from initial deposition to occlusion. The model…
Hyperviscosity-Based Stabilization for Radial Basis Function-Finite Difference (RBF-FD) Discretizations of Advection-Diffusion Equations
Varun Shankar, Aaron L. Fogelson
We present a novel hyperviscosity formulation for stabilizing RBF-FD discretizations of the advection-diffusion equation. The amount of hyperviscosity is determined quasi-analytica…
Robust Node Generation for Meshfree Discretizations on Irregular Domains and Surfaces
Varun Shankar, Robert M. Kirby, Aaron L. Fogelson
We present a new algorithm for the automatic one-shot generation of scattered node sets on irregular 2D and 3D domains using Poisson disk sampling coupled to novel parameter-free,…
A Radial Basis Function (RBF)-Finite Difference (FD) Method for Diffusion and Reaction-Diffusion Equations on Surfaces
Varun Shankar, Grady B. Wright, Robert M. Kirby +1
In this paper, we present a method based on Radial Basis Function (RBF)-generated Finite Differences (FD) for numerically solving diffusion and reaction-diffusion equations (PDEs)…
A Radial Basis Function (RBF)-Finite Difference Method for the Simulation of Reaction-Diffusion Equations on Stationary Platelets within the Augmented Forcing Method
Varun Shankar, Grady B. Wright, Aaron L. Fogelson +1
We present a computational method for solving the coupled problem of chemical transport in a fluid (blood) with binding/unbinding of the chemical to/from cellular (platelet) surfac…
Ion mediated cross-shield driven mucous swelling kinetics
Sarthok Sircar, Aaron Fogelson, James Keener
We present an experimentally guided, bi-phasic, multi-species ionic gel model to compare and make quantitative predictions on the viscoelastic properties of healthy mucus versus Cy…
Augmenting the Immersed Boundary Method with Radial Basis Functions (RBFs) for the Modeling of Platelets in Hemodynamic Flows
Varun Shankar, Grady B. Wright, Robert M. Kirby +1
We present a new computational method by extending the Immersed Boundary (IB) method with a spectrally-accurate geometric model based on Radial Basis Function (RBF) interpolation o…
A Study of Different Modeling Choices For Simulating Platelets Within the Immersed Boundary Method
Varun Shankar, Grady B. Wright, Aaron L. Fogelson +1
The Immersed Boundary (IB) method is a widely-used numerical methodology for the simulation of fluid-structure interaction problems. The IB method utilizes an Eulerian discretizati…