Project Details
Large-Scale Simulations of the Ultrasound Wave Propagation in the Human Brain
Project Period: 1. 1. 2014 – 31. 12. 2016
Project Type: grant
Code: SoMoPro-II-2013-IG
Agency: Jiné veřejné zdroje než podle zák. č. 130/2002 Sb.
Program: Ostatní veřejné zdroje financování nepatřící do institucionálních zdrojů ČR
Brain research, Oncology, Acoustics, Computational physics, Modelling tools,
Computer science.
The simulation of ultrasound wave propagation through biological tissue has
a wide range of practical applications. Recently, high intensity focused
ultrasound has been applied to functional neurosurgery as an alternative,
non-invasive treatment of various brain disorders such as brain tumours, cerebral
haemorrhage, essential tremor, and Parkinsons disease. The technique works by
sending a focused beam of ultrasound into the tissue, typically using a large
transducer. At the focus, the acoustic energy is sufficient to cause cell death
in a localised region while the surrounding tissue is left unharmed. The major
challenge is to ensure the focus is accurately placed at the desired target
within the brain because the skull can significantly distort it. The accurate
ultrasound simulations thus gain importance in providing patient specific
treatment plans. However, existing simulation tools are unable to cope with the
extreme scale and physical complexity of realistic simulations in the brain.
The aim of this project is to develop, validate and apply new computer models to
simulate how ultrasound waves travel through the intact skull and inside the
brain. These models will be based on innovative advances in theoretical acoustic
and numerical methods, and will use the state-of-the-art computing facilities
that have only recently become available. They will allow to accurately predict
the position of the focus in the brain during the treatment for the first time.
This will allow physicians to carefully plan and optimise the treatment
parameters to increase the effectiveness of the focused ultrasound surgery,
reduce the time it takes to treat patients and extend the range and location of
cancers that are eligible for treatment.
Dvořák Václav, prof. Ing., DrSc.
2018
- SUOMI, V.; JAROŠ, J.; TREEBY, B.; CLEVELAND, R. Full Modeling of High-Intensity Focused Ultrasound and Thermal Heating in the Kidney Using Realistic Patient Models. IEEE TRANSACTIONS ON BIOMEDICAL ENGINEERING, 2018, vol. 65, no. 11,
p. 2660-2670. ISSN: 0018-9294. Detail
2017
- AHMED, H.; SHAH, T.; GEORGIOU, P.; JAROŠ, J.; PAYNE, H.; ALLEN, C.; GIBSON, E.; BARRATT, D.; TREEBY, B. Beam distortion due to gold fiducial markers during salvage high-intensity focused ultrasound in the prostate. MEDICAL PHYSICS, 2017, vol. 44, no. 2,
p. 679-693. ISSN: 0094-2405. Detail - ROBERTSON, J.; COX, B.; JAROŠ, J.; TREEBY, B. Accurate simulation of transcranial ultrasound propagation for ultrasonic neuromodulation and stimulation. Journal of the Acoustical Society of America, 2017, vol. 141, no. 3,
p. 1726-1738. ISSN: 1520-8524. Detail
2016
- BROWN, M.; JAROŠ, J.; COX, B.; TREEBY, B. Control of Broadband Optically Generated Ultrasound Pulses Using Binary Amplitude Holograms. Journal of the Acoustical Society of America, 2016, vol. 139, no. 4,
p. 1637-1647. ISSN: 1520-8524. Detail - JAROŠ, J.; RENDELL, A.; TREEBY, B. Full-wave nonlinear ultrasound simulation on distributed clusters with applications in high-intensity focused ultrasound. International Journal of High Performance Computing Applications, 2016, vol. 30, no. 2,
p. 137-155. ISSN: 1741-2846. Detail - JAROŠ, J.; VAVERKA, F.; TREEBY, B. Spectral Domain Decomposition Using Local Fourier Basis: Application to Ultrasound Simulation on a Cluster of GPUs. Salt Lake City: 2016.
p. 1 (1 s.). Detail - JAROŠ, J.; VAVERKA, F.; TREEBY, B. Spectral Domain Decomposition Using Local Fourier Basis: Application to Ultrasound Simulation on a Cluster of GPUs. International Journal of Supercomputing Frontiers and Innovations, 2016, vol. 3, no. 3,
p. 40-55. ISSN: 2313-8734. Detail - MERTA, M.; ZAPLETAL, J.; JAROŠ, J. Many Core Acceleration of the Boundary Element Method. In Proceedings of High Performance Computing in Science and Engineering. Lecture Notes in Computer Science. Basel: Springer International Publishing, 2016.
p. 116-125. ISBN: 978-3-319-40360-1. Detail - SUOMI, V.; JAROŠ, J.; TREEBY, B.; CLEVELAND, R. Nonlinear 3-D simulation of high-intensity focused ultrasound therapy in the kidney. In 38th Annual International Conference of the IEEE-Engineering-in-Medicine-and-Biology-Society (EMBC). Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS. Orlando: Institute of Electrical and Electronics Engineers, 2016.
p. 5648-5651. ISBN: 978-1-4577-0220-4. Detail - TREEBY, B.; JAROŠ, J.; COX, B. Advanced photoacoustic image reconstruction using the k-Wave toolbox. In Progress in Biomedical Optics and Imaging - Proceedings of SPIE. Progress in Biomedical Optics and Imaging - Proceedings of SPIE. San Francisco: SPIE - the international society for optics and photonics, 2016.
p. 1-14. ISBN: 978-1-62841-942-9. Detail
2015
- JAROŠ, J.; DOHNAL, M.; TREEBY, B. Large-scale Ultrasound Simulations with Local Fourier Basis Decomposition. The International Conference for High Performance Computing, Networking, Storage Analysis, SC15. Austin: 2015.
p. 0-0. Detail - JAROŠ, J.; NIKL, V.; TREEBY, B. Large-scale Ultrasound Simulations Using the Hybrid OpenMP/MPI Decomposition. Proceedings of the 3rd International Conference on Exascale Applications and Software. Edinburgh: Association for Computing Machinery, 2015.
p. 115-119. ISBN: 978-0-9926615-1-9. Detail
2014
- NIKL, V.; JAROŠ, J. Parallelisation of the 3D Fast Fourier Transform Using the Hybrid OpenMP/MPI Decomposition. In Mathematical and Engineering Methods in Computer Science. Lecture Notes in Computer Science. Heidelberg: Springer International Publishing, 2014.
p. 100-112. ISBN: 978-3-319-14895-3. Detail - TREEBY, B.; JAROŠ, J.; ROHRBACH, D.; COX, B. Modelling elastic wave propagation using the k-Wave MATLAB toolbox. In IEEE International Ultrasonics Symposium, IUS. Chicago, IL: Institute of Electrical and Electronics Engineers, 2014.
p. 146-149. ISBN: 978-1-4799-7049-0. Detail