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Connective Tissues Simulation on GPU [article]

Julien Bosman, Christian Duriez, Stéphane Cotin
2013 Workshop on Virtual Reality Interactions and Physical Simulations  
However, it is important to notice that, despite the major role they may have in the interaction between organs, the connective tissues are often left out of these simulations.  ...  To provide a realistic simulation of these tissues, our work is based on the weak form of continuum mechanics equations for hyperelastic soft materials.  ...  The frame method on GPU is appropriate for connective tissues simulation in that it combines the need for fewer degrees of freedom, which speeds-up the computation, and the performance of the GPU implementation  ... 
doi:10.2312/pe.vriphys.vriphys13.041-050 dblp:conf/vriphys/BosmanDC13 fatcat:n53dazbufnbylddopgnsr7cij4

Simulations of Complex and Microscopic Models of Cardiac Electrophysiology Powered by Multi-GPU Platforms

Bruno Gouvêa de Barros, Rafael Sachetto Oliveira, Wagner Meira, Marcelo Lobosco, Rodrigo Weber dos Santos
2012 Computational and Mathematical Methods in Medicine  
Our parallel implementation of this model using a multi-GPU platform was able to reduce the execution times of the simulations from more than 6 days (on a single processor) to 21 minutes (on a small 8-  ...  Due to the high computational costs of simulations that reproduce the fine microstructure of cardiac tissue, previous studies have considered tissue experiments of small or moderate sizes and used simple  ...  tissue simulations.  ... 
doi:10.1155/2012/824569 pmid:23227109 pmcid:PMC3512298 fatcat:uev23dpcfvgupgownqz4e3usse


Jayasudha K, Mohan.G Kabadi
2019 International Journal of Current Engineering and Scientific Research  
This paper investigates the key component of simulation of multiple layers of 3D soft tissues of human skin. CUDA based GPU computing is adopted to speed up the simulation performance.  ...  The comparative analysis of the models performance shows that there is a significant increase in speed up at a fraction of the cost with GPU equivalent to ten times the traditional CPU cores.  ...  CUDA IMPLEMENTATION The simulation performance of multiple layers of soft tissues is evaluated using NVIDIA's CUDA (Compute Unified Device Architecture) based on GPU.  ... 
doi:10.21276/ijcesr.2019.6.6.25 fatcat:odug5oos3nesvhex42fi5fu76a

GPU Simulation of Finite Element Facial Soft-Tissue Models [article]

Mark Warburton, Steve Maddock
2013 Computer Graphics and Visual Computing  
We present a GPU-based finite element (FE) simulation and interactive visualisation system for efficiently producing realisticlooking animations of facial movement, including expressive wrinkles.  ...  While we focus on the forehead, the system can be used to animate any multi-material soft body.  ...  For greatly increased computational performance, such GPU-based solvers have also been developed, and one such solver has been implemented into the SOFA framework for interactive soft-tissue simulation  ... 
doi:10.2312/localchapterevents.tpcg.tpcg13.001-008 dblp:conf/tpcg/WarburtonM13 fatcat:5zqacy6mfjfa7g5m5owjep6lrm

3D Modelling of Complex Biological Structures: The Oviduct [article]

Mark Burkitt, Daniela M. Romano, Dawn C. Walker, Alireza Fazeli
2010 Computer Graphics and Visual Computing  
Finally, the technique is implemented using single-core and multi-core CPU techniques and using GPU acceleration. The performance of each implementation is then compared.  ...  A novel technique using a particle system constrained by Newtonian forces is presented for the algorithmic construction of small scale, complex 3D biological structures based on real world biological data  ...  Our Approach The interweaving folds of soft tissue within the oviduct have a similar appearance to folds in a large piece of cloth, connected along one side to form a cylindrical structure.  ... 
doi:10.2312/localchapterevents/tpcg/tpcg10/255-262 dblp:conf/tpcg/BurkittRWF10 fatcat:ezahws7dlvecfptk74ngkevrjq

GPU-friendly data structures for real time simulation

Vincent Magnoux, Benoît Ozell
2021 Advanced Modeling and Simulation in Engineering Sciences  
We implemented our data structure as part of a simulator based on a meshless method.  ...  We propose a new method for structuring graph data, which is commonly used for physically based simulation of soft tissue during surgery, and deformable objects in general.  ...  Changing connectivity data We now describe how the element connectivity data is encoded so that it can be efficiently modified on the GPU.  ... 
doi:10.1186/s40323-021-00192-7 pmid:34777992 pmcid:PMC8550585 fatcat:2pudiae6pvebfpc6kzmnhbqn5a

CUDA accelerated simulation of needle insertions in deformable tissue

Alexandru Patriciu
2012 Journal of Physics, Conference Series  
The needle-deformable tissue interaction is modeled through fundamental boundaries. The forces applied by the needle on the tissue are divided in tangent forces and constraint forces.  ...  This paper presents a stiff needle-deformable tissue interaction model.  ...  One board has a set of multiprocessors connected to a shared memory of approximately 1.5GB.  ... 
doi:10.1088/1742-6596/385/1/012006 fatcat:kvk3mcyqinenhoonzn7mfxgjpm

GPU-accelerated surgery simulation for opening a brain fissure

Kazuya Sase, Akira Fukuhara, Teppei Tsujita, Atsushi Konno
2015 ROBOMECH Journal  
Moreover, most parts of the FEM are implemented on a graphics processing unit (GPU).  ...  In this study, the interaction between spatulas and soft tissues is modeled on the basis of a finite element method (FEM).  ...  It is generally performed along fissures by breaking connective tissues.  ... 
doi:10.1186/s40648-015-0040-0 fatcat:uew2euhx3vg6hck7nilbrlnz6i

GPU accelerated high intensity ultrasound acoustical power computation

Tingting Gu, Hui Tang, Xudong Bao, Jean-Louis Dillenseger
2011 2011 IEEE International Symposium on Biomedical Imaging: From Nano to Macro  
Index Termshigh intensity ultrasound therapy, simulation, interstitial therapy, GPU  ...  In order to accelerate the simulation, a GPU-based (Graphic Processing Unit) acceleration method of the pressure field estimation is proposed in this paper.  ...  A location M and one element of surface ∆S are connected by a straight segment of length l sampled into elements ∆l as shown in Fig.1 .  ... 
doi:10.1109/isbi.2011.5872344 dblp:conf/isbi/GuTBD11 fatcat:h4po42xrovcaxkcyowqseph2au

SHAPE Project AXESSIM - CINES Partnership: HPC for connected Objects

B. Cirou, C. Girard, B. Weber, V. Cameo Ponz
2018 Zenodo  
AxesSim has developed an electromagnetic simulation tool named TETA, which is optimized for harnessing several GPUs in parallel.  ...  It is based on the Discontinuous Galerkin method in the Time Domain (DGTD).  ...  This requires the simulation of electromagnetic waves produced by small antennas and their interaction with biological tissues. Such simulations are complex and expensive.  ... 
doi:10.5281/zenodo.2633705 fatcat:53cvrgicg5fsngsegcu5w2pvfu

Neurosurgery simulation using non-linear finite element modeling and haptic interaction

Huai-Ping Lee, Michel Audette, Grand R. Joldes, Andinet Enquobahrie, Kenneth H. Wong, David R. Holmes III
2012 Medical Imaging 2012: Image-Guided Procedures, Robotic Interventions, and Modeling  
However, our experiments showed that the stability of the simulator depends heavily on the material property of the tissue and the speed of colliding objects.  ...  Real-time finite element analysis is achieved by utilizing the total Lagrangian explicit dynamic (TLED) formulation and GPU acceleration of pernode and per-element operations.  ...  However, our experiments showed that the stability of the simulator depends heavily on the material property of the tissue and the speed of colliding objects.  ... 
doi:10.1117/12.911987 pmid:24465116 pmcid:PMC3898833 dblp:conf/miigp/LeeAJE12 fatcat:xvfl3soqgngvhlijfrplbyntf4

GPU-based real-time soft tissue deformation with cutting and haptic feedback

Hadrien Courtecuisse, Hoeryong Jung, Jérémie Allard, Christian Duriez, Doo Yong Lee, Stéphane Cotin
2010 Progress in Biophysics and Molecular Biology  
The contributions described in this article share a common underlying model of deformation and rely on GPU implementations to significantly improve computation times.  ...  This article describes a series of contributions in the field of real-time simulation of soft tissue biomechanics.  ...  This test was performed on a mesh with 41, 000 nodes, with simulation times of 1.4 FPS on the CPU and 46.15 FPS on GPU.  ... 
doi:10.1016/j.pbiomolbio.2010.09.016 pmid:20887746 fatcat:xe5et3r4mnfzfnxsd4qo5ca6xe

Simulating Cardiac Electrophysiology in the Era of GPU-Cluster Computing

Jun CHAI, Mei WEN, Nan WU, Dafei HUANG, Jing YANG, Xing CAI, Chunyuan ZHANG, Qianming YANG
2013 IEICE transactions on information and systems  
On the other hand, our experiments also show that a dramatically larger cluster of GPUs is needed to handle a very detailed cardiac cell model. key words: GPU cluster, simulation of cardiac electrophysiology  ...  This paper presents a study of the applicability of clusters of GPUs to high-resolution 3D simulations of cardiac electrophysiology.  ...  The monodomain equation and ODEs of cardiac tissues were solved on a single GPU in [10] , running 20 times faster than a quad- core CPU for 2D cardiac simulations. Bartocci et al.  ... 
doi:10.1587/transinf.e96.d.2587 fatcat:s5wj2jftcvghbpqeimhlnfofmu

cellGPU: Massively parallel simulations of dynamic vertex models

Daniel M. Sussman
2017 Computer Physics Communications  
simulations difficult. cellGPU addresses this difficulty and lays the foundation for massively parallelized, GPU-based simulations of these models.  ...  This dependence on the connectivity of the cellular network introduces several complications to performing molecular-dynamics-like simulations of vertex models, and in particular makes parallelizing the  ...  The following sub-sections highlight the sequence of GPU and CPU function calls that form the basic loop of advancing the simulation by one time step.  ... 
doi:10.1016/j.cpc.2017.06.001 fatcat:tq3mdokrs5hszaaamzszgd4kkm

Simulating soft tissues using a GPU approach of the mass-spring model

Christian Andres Diaz Leon, Steven Eliuk, Helmuth Trefftz Gomez
2010 2010 IEEE Virtual Reality Conference (VR)  
Simulation environments for surgical training have no limitations on the number of times a procedure can be executed, and most importantly have no risk to patients.  ...  The recent advances in the fields such as modelling bio-mechanics of living tissues, haptic technologies, computational capacity, and virtual environments have created conditions necessary in order to  ...  the device memory on the GPU.  ... 
doi:10.1109/vr.2010.5444775 dblp:conf/vr/LeonEG10 fatcat:mu52n2edczbkpk53myqfg6nsoe
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