Gábor Závodszky

Gábor Závodszky
University of Amsterdam | UVA · Computational Science Lab

PhD

About

48
Publications
10,701
Reads
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332
Citations
Citations since 2017
36 Research Items
311 Citations
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2017201820192020202120222023020406080
Introduction
I’m an Assistant Professor at the Computational Science Lab of the University of Amsterdam. I’m the main developer of HemoCell [www.hemocell.eu], the open-source HPC blood flow simulation package. My main research interest lies in high-performance multi-scale biomedical computations with application in vascular diseases, endovascular medical device research, and cellular suspension physics. Further areas of interest: heterogenous computation, lattice Boltzmann method, parallel programming.
Additional affiliations
February 2019 - present
University of Amsterdam
Position
  • Professor (Assistant)
February 2016 - February 2019
University of Amsterdam
Position
  • PostDoc Position
Description
  • Worked on the development of HemoCell (www.hemocell.eu), a HPC cellular blood flow simulation tool.
April 2015 - present
Budapest University of Technology and Economics
Position
  • Professor (Assistant)

Publications

Publications (48)
Article
Full-text available
Many of the intriguing properties of blood originate from its cellular nature. Therefore, accurate modeling of blood flow related phenomena requires a description of the dynamics at the level of individual cells. This, however, presents several computational challenges that can only be addressed by high performance computing. We present Hemocell, a...
Article
The radial distribution of cells in blood flow inside vessels is highly non-homogeneous. This leads to numerous important properties of blood, yet the mechanisms shaping these distributions are not fully understood. The motion of cells is governed by a variety of hydrodynamic interactions and cell-deformation mechanics. Properties, such as the effe...
Article
Full-text available
Virtual flow diverter deployment techniques underwent significant development during the last couple of years. Each existing technique displays advantageous features, as well as significant limitations. One common drawback is the lack of quantitative validation of the mechanics of the device. In the following work we present a new spring‐mass‐based...
Article
Full-text available
Occlusive thrombi formed under high flow shear rates develop very rapidly in arteries and may lead to myocardial infarction or stroke. Rapid platelet accumulation (RPA) and occlusion of platelet-rich thrombi and clot shrinkage have been studied after flow arrest. However, the influence of margination and shear rate on occlusive clot formation is no...
Article
Full-text available
We present a high-performance computational framework (Hemocell) with validated cell-material models, which provides the necessary tool to target challenging biophysical questions in relation to blood flows, e.g. the influence of transport characteristics on platelet bonding and aggregation. The dynamics of blood plasma are resolved by using the la...
Article
The presence of collaterals and high thrombus permeability are associated with good functional outcomes after an acute ischaemic stroke. We aim to understand the combined effect of the collaterals and thrombus permeability on cerebral blood flow during an acute ischaemic stroke. A cerebral blood flow model including the leptomeningeal collateral ci...
Article
Native circulating blood platelets present with a discoid flat morphology maintained by a sub-membranous peripheral ring of microtubules, named marginal band. The functional importance of this particular shape is still debated, but was initially hypothesized to facilitate platelet interaction with the injured vessel wall and to contribute to hemost...
Article
Blood flow is a major regulator of hemostasis and arterial thrombosis. The current view is that low and intermediate flows occur in intact healthy vessels, while high shear levels (>2,000 s-1) are reached in stenosed arteries, notably during thrombosis. To date, the shear rates occurring at the edge of a lesion in an otherwise healthy vessel are ne...
Article
Full-text available
Blood flow within the vasculature of the retina has been found to influence the progression of diabetic retinopathy. In this research cell resolved blood flow simulations are used to study the pulsatile flow of whole blood through a segmented retinal microaneurysm. Images were collected using adaptive optics optical coherence tomography of the reti...
Article
Full-text available
The emerging profile of blood flow and the cross-sectional distribution of blood cells have far reaching biological consequences in various diseases and vital internal processes, such as platelet adhesion. The effects of several essential blood flow parameters, such as red blood cell free layer width, wall shear rate, and hematocrit on platelet adh...
Chapter
Accurately predicting brain tissue perfusion and infarct volume after an acute ischaemic stroke requires the two-way coupling of perfusion models on multiple scales. We present a method for such two-way coupling of a one-dimensional arterial blood flow model and a three-dimensional tissue perfusion model. The two-way coupling occurs through the pia...
Article
A novel model of the leptomeningeal collateral circulation is created by combining data from multiple sources with statistical scaling laws. The extent of the collateral circulation is varied by defining a collateral vessel probability. Blood flow and pressure are simulated using a one-dimensional steady state blood flow model. The leptomeningeal c...
Article
Full-text available
The influence of the flow environment on platelet aggregation is not fully understood in high-shear thrombosis. The objective of this study is to investigate the role of a high shear rate in initial platelet aggregation. The haemodynamic conditions in a microfluidic device are studied using cell-based blood flow simulations. The results are compare...
Article
The influence of the flow environment on platelet aggregation is not fully understood in high-shear thrombosis. The objective of this study is to investigate the role of a high shear rate in initial platelet aggregation. The haemodynamic conditions in a microfluidic device are studied using cell-based blood flow simulations. The results are compare...
Chapter
Full-text available
This research focuses on developing a heterogeneous multi-scale model (HMM) for blood flow. Two separate scales are considered in this study, a Macro-scale, which models whole blood as a continuous fluid and tracks the transport of hematocrit profiles through an advection diffusion solver. And a Micro-scale, which computes directly local diffusion...
Article
Full-text available
The influence of red blood cell (RBC) deformability in whole blood on platelet margination is investigated using confocal microscopy measurements of flowing human blood and cell resolved blood flow simulations. Fluorescent platelet concentrations at the wall of a glass chamber are measured using confocal microscopy with flowing human blood containi...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Book
The seven-volume set LNCS 12137, 12138, 12139, 12140, 12141, 12142, and 12143 constitutes the proceedings of the 20th International Conference on Computational Science, ICCS 2020, held in Amsterdam, The Netherlands, in June 2020.* The total of 101 papers and 248 workshop papers presented in this book set were carefully reviewed and selected from 71...
Article
Full-text available
Purpose Intracranial aneurysms are malformations forming bulges on the walls of brain arteries. A flow diverter device is a fine braided wire structure used for the endovascular treatment of brain aneurysms. This work presents a rig and a protocol for the measurement of the hydrodynamic resistance of flow diverter stents. Hydrodynamic resistance is...
Article
Computer simulations were performed to study the transport of red blood cells and platelets in high shear flows, mimicking earlier published in vitro experiments in microfluidic devices with high affinity for platelet aggregate formation. The goal is to understand and predict where thrombus formation starts. Additionally, the need of cell-based mod...
Chapter
Large scale cell based blood flow simulations are expensive, both in time and resource requirements. HemoCell can perform such simulations on high performance computing resources by dividing the simulation domain into multiple blocks. This division has a performance impact caused by the necessary communication between the blocks. In this paper we i...
Article
Purpose Assessing the rupture probability of intracranial aneurysms (IAs) remains challenging. Therefore, hemodynamic simulations are increasingly applied toward supporting physicians during treatment planning. However, due to several assumptions, the clinical acceptance of these methods remains limited. Methods To provide an overview of state-of-...
Article
Full-text available
Aneurysm pathogenesis is thought to be strongly linked with hemodynamical effects. According to our current knowledge, the formation process is initiated by locally disturbed flow conditions. The aim of the current work is to provide a numerical investigation on the role of the flow field at the stage of the initiation, before the aneurysm formatio...
Article
Full-text available
In-silico cellular models of blood are invaluable to gain understanding about the many interesting properties that blood exhibits. However, numerical investigations that focus on the effects of cytoplasmic viscosity in these models are not very prevalent. We present a parallelised method to implement cytoplasmic viscosity for HemoCell, an open-sour...
Article
We study the effect of pulsatile flow on the transport of red blood cells (RBCs) and platelets into aneurysm geometries with varying dome-to-neck aspect ratios (AR). We use a validated two-dimensional lattice Boltzmann model for blood plasma with a discrete element method for both RBCs and platelets coupled by the immersed boundary method. Flow vel...
Chapter
Malaria remains a deadly disease that affected millions of people in 2016. Among the five Plasmodium (P.) parasites which contribute to malaria diseases in humans. P. falciparum is a lethal one which is responsible for the majority of the world-wide-malaria-related deaths. Since the banana-shaped stage V gametocytes play a crucial role in disease t...
Article
Full-text available
In- and outflow boundary conditions for 2D immersed boundary lattice Boltzmann suspension simulations, applied to cell based blood flow models, are presented. The inlet is constructed with an one-way coupling to a periodic domain containing a correct distribution of suspended particles. This provides an inflow of particles that has a correct distri...
Article
Full-text available
The non-homogeneous distribution of computational costs is often challenging to handle in highly parallel applications. Using a methodology based on fractional overheads, we studied the fractional load imbalance overhead in a high-performance biofluid simulation aiming to accurately resolve blood flow on a cellular level. In general, the concentrat...
Article
Full-text available
This discussion paper introduces the concept of the Virtual Artery as a multiscale model for arterial physiology and pathologies at the physics–chemistry–biology (PCB) interface. The cellular level is identified as the mesoscopic level, and we argue that by coupling cell-based models with other relevant models on the macro- and microscale, a versat...
Chapter
Computing the emerging flow in blood vessel sections by means of computational fluid dynamics is an often applied practice in hemodynamics research. One particular area for such investigations is related to the cerebral aneurysms, since their formation, pathogenesis and the risk of a potential rupture may be flow-related. We present a study on the...
Conference Paper
Full-text available
The CFD simulation of the emergent flow field inside vessel malformations is a generally employed technique during research processes. The results of an accurate numeric calculation might be used for risk assessment or for predictive purposes, such as the analysis of the possible pathogenesis. Even though several generally accepted numerical method...
Article
A retrospective modeling was performed in a case with restenosis after 6 months of a DES implantation to investigate the effect of the step-down at the distal edge of the stent on the wall shear stress (WSS) using 3D coronary angiography reconstruction and the intracoronary pressure traces during a cardiac cycle. The kinetics of the WSS was calcula...
Conference Paper
Full-text available
Abdominal aneurysms are pathological lesions on our largest artery, the abdominal aorta. These mal-formations, amongst other unfavourable physiological effects, carry a severe risk of rupture. Applying stent grafts in these arteries as part of the medical treatment is a common practice to exclude weakened arterial wall sections from the blood flow....
Thesis
Full-text available
This work summarises my investigations about a human pathologic state concerning the circulation of the brain. The cerebral aneurysm is a vessel malformation that manifests itself as a lesion on the vessel wall alongside the Circle of Willis, which is responsible for carrying about 80% of the blood supply of the brain. The formation and development...
Article
The behaviour of biological fluid flows is often investigated in medical practice to draw conclusions on the physiological or pathological conditions of the considered organs. One area where such investigations are proven to be useful is the flow-related formation and growth of different pathologic malformations of the cerebro vascular system. In t...
Article
Full-text available
Thrombus formation is a thoroughly researched area, posing several unanswered questions. Quite many of the underlying processes are still not well understood. This uncertainty arises from the fact that the blood clotting mechanism in our bodies involves a rather complex reaction cascade with plenty of components. These underlying dynamic processes...
Article
The unsteady fluid flow inside the complex geometry of an intracranial aneurysm during a cardiac cycle was simulated. The results obtained by several versions of a lattice Boltzmann based code were compared with the results of PIV and LDA measurements and with those of a commercial finite volume solver. The best version from the tested lattice Bolt...

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Project (1)
Project
Website: https://www.hemocell.eu HemoCell is a framework for simulating dense suspensions of deformable cells, focusing on blood. It is based on the combined Immersed boundary-lattice Boltzmann method (IB-LBM) and is built on top of the open source C++ lattice Boltzmann solver Palabos.