Amanda Randles
Alfred Winborne and Victoria Stover Mordecai Assistant Professor of Biomedical Sciences
My research in biomedical simulation and high-performance computing focuses on the development of new computational tools that we use to provide insight into the localization and development of human diseases ranging from atherosclerosis to cancer.
Current Research Interests
Biomedical simulation and high-performance computing
Current Appointments & Affiliations
- Alfred Winborne and Victoria Stover Mordecai Assistant Professor of Biomedical Sciences, Biomedical Engineering, Pratt School of Engineering 2018 - 2025
- Assistant Professor of Biomedical Engineering, Biomedical Engineering, Pratt School of Engineering 2015
- Assistant Professor of Computer Science, Computer Science, Trinity College of Arts & Sciences 2016
- Member of the Duke Cancer Institute, Duke Cancer Institute, Institutes and Centers 2015
Contact Information
- 303 Gross Hall, 140 Science Dr., Durham, NC 27708
- Box 90984, Durham, NC 27708
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amanda.randles@duke.edu
(919) 660-5425
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Google Scholar
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Randles Lab Site
- Background
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Education, Training, & Certifications
- Ph.D., Harvard University 2013
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Duke Appointment History
- Assistant Professor of Mathematics, Mathematics, Trinity College of Arts & Sciences 2016 - 2019
- Assistant Professor in the Department of Mechanical Engineering and Material Science, Mechanical Engineering and Materials Science, Pratt School of Engineering 2015 - 2018
- Recognition
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In the News
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DEC 9, 2020 -
MAY 14, 2020 Pratt School of Engineering -
SEP 11, 2019 Duke Cancer Institute -
AUG 8, 2019 Pratt School of Engineering -
JUL 6, 2018 Pratt School of Engineering -
NOV 1, 2017 -
SEP 21, 2017 -
MAR 17, 2016 BBC News -
MAR 16, 2016 -
NOV 19, 2015 -
SEP 14, 2015 China Daily -
AUG 27, 2015 Pratt School of Engineering -
JUN 5, 2015 Pratt School of Engineering
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Awards & Honors
- Senior Member. National Academy of Inventors. August 2019
- IEEE-CS Technical Consortium on High Performance Computing (TCHPC) Award for Excellence for Early Career Researchers in High Performance Computing. IEEE. November 2017
- Grace Murray Hopper Award. ACM. 2017
- MIT TR35 Visionary. MIT TR35. 2017
- Ralph E. Powe Junior Faculty Enhancement Award. Oak Ridge Associated Universities. May 2016
- Best Paper, IEEE International Conference on Computational Science (ICCS) 2015. IEEE. May 2015
- Gordon Bell Finalist. ACM. 2015
- Early Independence Award. NIH. September 2014
- Lawrence Fellowship. Lawrence Livermore National Laboratory. 2013
- U.S. Delegate . Heidelberg Laureate Forum. 2013
- Anita Borg Memorial Scholarship. Google. 2012
- George Michael Memorial High Performance Computing Fellowship. ACM/IEEE. 2012
- U.S. Delegate . Lindau Nobel Laureates and Students Meeting Dedicated to Physics. 2012
- Computational Science Graduate Fellowship. Department of Energy. 2010
- George Michael Memorial High Performance Computing Fellowship. ACM/IEEE. 2010
- Gordon Bell Finalist. ACM. 2010
- Graduate Research Fellowship. National Science Foundation. 2009
- Expertise
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Subject Headings
- Aortic Coarctation
- Atherosclerosis
- Biomechanical Phenomena
- Biophysics
- Cancer
- Cancer cells
- Cardiovascular Diseases
- Computational Biology
- Computational fluid dynamics
- Computer Simulation
- Fluid mechanics
- Hemodynamics
- High performance computing
- Lattice Boltzmann methods
- Metastasis
- Multiscale modeling
- Parallel algorithms
- Parallel computers
- Research
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Selected Grants
- CAREER: Scalable Approaches for Multiphysics Fluid Simulation awarded by National Science Foundation 2020 - 2025
- Technology for efficient simulation of cancer cell transport awarded by National Institutes of Health 2020 - 2023
- University Training Program in Biomolecular and Tissue Engineering awarded by National Institutes of Health 1994 - 2022
- Novel anatomy-physiology guided diagnostic metric for complex coronary lesions awarded by American Heart Association 2020 - 2021
- 3D Bioprinted Aneurysm for Intervention Modeling Validation awarded by Lawrence Livermore National Laboratory 2019 - 2021
- Toward coupled multiphysics models of hemodynamics on leadership systems awarded by National Institutes of Health 2014 - 2020
- Training in Medical Imaging awarded by National Institutes of Health 2003 - 2020
- Student Support: IEEE Cluster 2018 Conference awarded by National Science Foundation 2018 - 2020
- Interactive virtual reality cardiovascular visualizations: User study for clinicians - Harvey Shi award awarded by Sigma Xi 2018 - 2019
- ORNL Joint Faculty Appointment for Amanda Randles awarded by UT-Battelle, LLC 2017 - 2019
- Hartwell Fellowship awarded by Hartwell Foundation 2017 - 2018
- Using GPU-Accelerated Computational Fluid Dynamics to Study In-stent Restenosis awarded by Oak Ridge Associated Universities 2016 - 2017
- Publications & Artistic Works
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Selected Publications
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Academic Articles
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Puleri, Daniel F., et al. “Computational models of cancer cell transport through the microcirculation.” Biomechanics and Modeling in Mechanobiology, Mar. 2021. Epmc, doi:10.1007/s10237-021-01452-6.Full Text
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Feiger, Bradley, et al. “Multiscale modeling of blood flow to assess neurological complications in patients supported by venoarterial extracorporeal membrane oxygenation.” Computers in Biology and Medicine, vol. 129, Feb. 2021, p. 104155. Epmc, doi:10.1016/j.compbiomed.2020.104155.Full Text
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Herschlag, G., et al. “Analysis of GPU Data Access Patterns on Complex Geometries for the D3Q19 Lattice Boltzmann Algorithm.” Ieee Transactions on Parallel and Distributed Systems, Jan. 2021. Scopus, doi:10.1109/TPDS.2021.3061895.Full Text
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Kaplan, M., et al. “Cloud Computing for COVID-19: Lessons Learned from Massively Parallel Models of Ventilator Splitting.” Computing in Science and Engineering, vol. 22, no. 6, Nov. 2020, pp. 37–47. Scopus, doi:10.1109/MCSE.2020.3024062.Full Text
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Pepona, Marianna, et al. “Investigating the Interaction Between Circulating Tumor Cells and Local Hydrodynamics via Experiment and Simulations.” Cellular and Molecular Bioengineering, vol. 13, no. 5, Oct. 2020, pp. 527–40. Epmc, doi:10.1007/s12195-020-00656-7.Full Text
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Jang, Lindy, et al. “Three-dimensional bioprinting of aneurysm-bearing tissue structure for endovascular deployment of embolization coils.” Biofabrication, Sept. 2020. Epmc, doi:10.1088/1758-5090/abbb9b.Full Text
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Hynes, W. F., et al. “Examining metastatic behavior within 3D bioprinted vasculature for the validation of a 3D computational flow model.” Science Advances, vol. 6, no. 35, Aug. 2020, p. eabb3308. Epmc, doi:10.1126/sciadv.abb3308.Full Text
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Ames, Jeff, et al. “Multi-GPU Immersed Boundary Method Hemodynamics Simulations.” Journal of Computational Science, vol. 44, July 2020. Epmc, doi:10.1016/j.jocs.2020.101153.Full Text
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Cherian, Jacob, et al. “Balloon-Mounted Stents for Treatment of Refractory Flow Diverting Device Wall Malapposition.” Operative Neurosurgery (Hagerstown, Md.), vol. 19, no. 1, July 2020, pp. 37–42. Epmc, doi:10.1093/ons/opz297.Full Text
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Feiger, Bradley, et al. “Accelerating massively parallel hemodynamic models of coarctation of the aorta using neural networks.” Scientific Reports, vol. 10, no. 1, June 2020, p. 9508. Epmc, doi:10.1038/s41598-020-66225-0.Full Text
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Feiger, Bradley, et al. “Determining the impacts of venoarterial extracorporeal membrane oxygenation on cerebral oxygenation using a one-dimensional blood flow simulator.” Journal of Biomechanics, vol. 104, May 2020, p. 109707. Epmc, doi:10.1016/j.jbiomech.2020.109707.Full Text
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Shi, H., et al. “Harvis: an interactive virtual reality tool for hemodynamic modification and simulation.” Journal of Computational Science, vol. 43, May 2020. Scopus, doi:10.1016/j.jocs.2020.101091.Full Text
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Dabagh, Mahsa, et al. “Hemodynamic and morphological characteristics of a growing cerebral aneurysm.” Neurosurg Focus, vol. 47, no. 1, July 2019, p. E13. Pubmed, doi:10.3171/2019.4.FOCUS19195.Full Text Link to Item
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Lee, S., et al. “Performance portability study for massively parallel computational fluid dynamics application on scalable heterogeneous architectures.” Journal of Parallel and Distributed Computing, vol. 129, July 2019, pp. 1–13. Scopus, doi:10.1016/j.jpdc.2019.02.005.Full Text
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Vardhan, Madhurima, et al. “The importance of side branches in modeling 3D hemodynamics from angiograms for patients with coronary artery disease.” Scientific Reports, vol. 9, no. 1, June 2019, p. 8854. Epmc, doi:10.1038/s41598-019-45342-5.Full Text
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Feiger, Bradley, et al. “Suitability of lattice Boltzmann inlet and outlet boundary conditions for simulating flow in image-derived vasculature.” International Journal for Numerical Methods in Biomedical Engineering, vol. 35, no. 6, June 2019, p. e3198. Epmc, doi:10.1002/cnm.3198.Full Text
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Grigoryan, Bagrat, et al. “Multivascular networks and functional intravascular topologies within biocompatible hydrogels.” Science (New York, N.Y.), vol. 364, no. 6439, May 2019, pp. 458–64. Epmc, doi:10.1126/science.aav9750.Full Text
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Gounley, J., et al. “A Framework for Comparing Vascular Hemodynamics at Different Points in Time.” Computer Physics Communications, vol. 235, Feb. 2019, pp. 1–8. Epmc, doi:10.1016/j.cpc.2018.05.014.Full Text
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Dabagh, Mahsa, and Amanda Randles. “Role of deformable cancer cells on wall shear stress-associated-VEGF secretion by endothelium in microvasculature.” Plos One, vol. 14, no. 2, Jan. 2019, p. e0211418. Epmc, doi:10.1371/journal.pone.0211418.Full Text
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Gounley, John, et al. “Computing the ankle-brachial index with parallel computational fluid dynamics.” Journal of Biomechanics, vol. 82, Jan. 2019, pp. 28–37. Epmc, doi:10.1016/j.jbiomech.2018.10.007.Full Text
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Hegele, L. A., et al. “High-Reynolds-number turbulent cavity flow using the lattice Boltzmann method.” Physical Review E, vol. 98, no. 4, Oct. 2018. Scopus, doi:10.1103/PhysRevE.98.043302.Full Text
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Rafat, M., et al. “Impact of diversity of morphological characteristics and Reynolds number on local hemodynamics in basilar aneurysms.” Aiche Journal, vol. 64, no. 7, July 2018, pp. 2792–802. Scopus, doi:10.1002/aic.16091.Full Text
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Randles, Amanda, et al. “Computational Fluid Dynamics and Additive Manufacturing to Diagnose and Treat Cardiovascular Disease.” Trends in Biotechnology, vol. 35, no. 11, Nov. 2017, pp. 1049–61. Epmc, doi:10.1016/j.tibtech.2017.08.008.Full Text
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Dabagh, Mahsa, et al. “Mechanotransmission in endothelial cells subjected to oscillatory and multi-directional shear flow.” Journal of the Royal Society, Interface, vol. 14, no. 130, May 2017. Epmc, doi:10.1098/rsif.2017.0185.Full Text
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Randles, A., et al. “Massively parallel simulations of hemodynamics in the primary large arteries of the human vasculature.” Journal of Computational Science, vol. 9, July 2015, pp. 70–75. Scopus, doi:10.1016/j.jocs.2015.04.003.Full Text
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Whitley, H. D., et al. “Lenard-Balescu calculations and classical molecular dynamics simulations of electrical and thermal conductivities of hydrogen plasmas.” Contributions to Plasma Physics, vol. 55, no. 2–3, Jan. 2015, pp. 192–202. Scopus, doi:10.1002/ctpp.201400066.Full Text
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You, Y., et al. “Scaling Support Vector Machines on modern HPC platforms.” Journal of Parallel and Distributed Computing, vol. 76, Jan. 2015, pp. 16–31. Scopus, doi:10.1016/j.jpdc.2014.09.005.Full Text
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Randles, A., and E. Kaxiras. “Parallel in time approximation of the lattice Boltzmann method for laminar flows.” Journal of Computational Physics, vol. 270, Aug. 2014, pp. 577–86. Scopus, doi:10.1016/j.jcp.2014.04.006.Full Text
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Almendro, Vanessa, et al. “Inference of tumor evolution during chemotherapy by computational modeling and in situ analysis of genetic and phenotypic cellular diversity.” Cell Reports, vol. 6, no. 3, Feb. 2014, pp. 514–27. Epmc, doi:10.1016/j.celrep.2013.12.041.Full Text
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Randles, A., et al. “Analysis of pressure gradient across aortic stenosis with massively parallel computational simulations.” Computing in Cardiology, vol. 41, no. January, Jan. 2014, pp. 217–20.
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Peters Randles, A., et al. “A lattice Boltzmann simulation of hemodynamics in a patient-specific aortic coarctation model.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 7746 LNCS, Apr. 2013, pp. 17–25. Scopus, doi:10.1007/978-3-642-36961-2_3.Full Text
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Keyes, D. E., et al. “Multiphysics simulations: Challenges and opportunities.” International Journal of High Performance Computing Applications, vol. 27, no. 1, Feb. 2013, pp. 4–83. Scopus, doi:10.1177/1094342012468181.Full Text
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Randles, A. P. “Massively parallel model of evolutionary game dynamics.” Proceedings 2012 Sc Companion: High Performance Computing, Networking Storage and Analysis, Scc 2012, Dec. 2012. Scopus, doi:10.1109/SC.Companion.2012.307.Full Text
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Borkin, Michelle A., et al. “Evaluation of artery visualizations for heart disease diagnosis.” Ieee Transactions on Visualization and Computer Graphics, vol. 17, no. 12, Dec. 2011, pp. 2479–88. Epmc, doi:10.1109/tvcg.2011.192.Full Text
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Robson, Barry, et al. “Drug discovery using very large numbers of patents. General strategy with extensive use of match and edit operations.” Journal of Computer Aided Molecular Design, vol. 25, no. 5, Springer Science and Business Media LLC, May 2011, pp. 427–41. Crossref, doi:10.1007/s10822-011-9429-x.Full Text
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Jiang, Karl, et al. “An Efficient Parallel Implementation of the Hidden Markov Methods for Genomic Sequence-Search on a Massively Parallel System.” Ieee Transactions on Parallel and Distributed Systems, vol. 19, no. 1, Institute of Electrical and Electronics Engineers (IEEE), Jan. 2008, pp. 15–23. Crossref, doi:10.1109/tpds.2007.70712.Full Text
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Pang, Y. .. P., et al. “EUDOC on the IBM Blue Gene/L system: Accelerating the transfer of drug discoveries from laboratory to patient.” Ibm Journal of Research and Development, vol. 52, no. 1.2, IBM, Jan. 2008, pp. 69–81. Crossref, doi:10.1147/rd.521.0069.Full Text
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Other Articles
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Randles, A., and E. Kaxiras. “A spatio-temporal coupling method to reduce the time-to-solution of cardiovascular simulations.” Proceedings of the International Parallel and Distributed Processing Symposium, Ipdps, 1 Jan. 2014, pp. 593–602. Scopus, doi:10.1109/IPDPS.2014.68.Full Text Open Access Copy
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Conference Papers
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Puleri, Daniel F., et al. “Computational Framework to Evaluate the Hydrodynamics of Cell Scaffold Geometries.” Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual International Conference, vol. 2020, 2020, pp. 2299–302. Epmc, doi:10.1109/embc44109.2020.9176313.Full Text
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Roychowdhury, S., et al. “Evaluating the Influence of Hemorheological Parameters on Circulating Tumor Cell Trajectory and Simulation Time.” Proceedings of the Platform for Advanced Scientific Computing Conference, Pasc 2020, 2020. Scopus, doi:10.1145/3394277.3401848.Full Text
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Vardhan, M., et al. “Moment representation in the lattice Boltzmann method on massively parallel hardware.” International Conference for High Performance Computing, Networking, Storage and Analysis, Sc, 2019. Scopus, doi:10.1145/3295500.3356204.Full Text
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Ames, J., et al. “Low-Overhead in Situ Visualization Using Halo Replay.” 2019 Ieee 9th Symposium on Large Data Analysis and Visualization, Ldav 2019, 2019, pp. 16–26. Scopus, doi:10.1109/LDAV48142.2019.8944265.Full Text
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Herschlag, G., et al. “Multi-physics simulations of particle tracking in arterial geometries with a scalable moving window algorithm.” Proceedings Ieee International Conference on Cluster Computing, Iccc, vol. 2019-September, 2019. Scopus, doi:10.1109/CLUSTER.2019.8891041.Full Text
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Vardhan, M., et al. “Computational fluid modeling to understand the role of anatomy in bifurcation lesion disease.” Proceedings 25th Ieee International Conference on High Performance Computing Workshops, Hipcw 2018, 2019, pp. 56–64. Scopus, doi:10.1109/HiPCW.2018.8634225.Full Text
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Gounley, J., et al. “Immersed Boundary Method Halo Exchange in a Hemodynamics Application.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 11536 LNCS, 2019, pp. 441–55. Scopus, doi:10.1007/978-3-030-22734-0_32.Full Text
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Herschlag, G., et al. “GPU data access on complex geometries for D3Q19 lattice boltzmann method.” Proceedings 2018 Ieee 32nd International Parallel and Distributed Processing Symposium, Ipdps 2018, 2018, pp. 825–34. Scopus, doi:10.1109/IPDPS.2018.00092.Full Text
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Gounley, J., et al. “A computational framework to assess the influence of changes in vascular geometry on blood flow.” Pasc 2017 Proceedings of the Platform for Advanced Scientific Computing Conference, 2017. Scopus, doi:10.1145/3093172.3093227.Full Text
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Gounley, John, et al. “Numerical simulation of a compound capsule in a constricted microchannel.” Procedia Computer Science, vol. 108, 2017, pp. 175–84. Epmc, doi:10.1016/j.procs.2017.05.209.Full Text
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Laurence, T. A., et al. “Using stroboscopic flow imaging to validate large-scale computational fluid dynamics simulations.” Progress in Biomedical Optics and Imaging Proceedings of Spie, vol. 10076, 2017. Scopus, doi:10.1117/12.2253319.Full Text
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Gounley, John, et al. “Does the degree of coarctation of the aorta influence wall shear stress focal heterogeneity?” Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual International Conference, vol. 2016, 2016, pp. 3429–32. Epmc, doi:10.1109/embc.2016.7591465.Full Text Open Access Copy
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Randles, A., et al. “Massively parallel models of the human circulatory system.” International Conference for High Performance Computing, Networking, Storage and Analysis, Sc, vol. 15-20-November-2015, 2015. Scopus, doi:10.1145/2807591.2807676.Full Text
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Kale, V., et al. “Locality-optimized mixed static/dynamic scheduling for improving load balancing on SMPs.” Acm International Conference Proceeding Series, vol. 09-12-September-2014, 2014, pp. 115–16. Scopus, doi:10.1145/2642769.2642788.Full Text
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You, Y., et al. “MIC-SVM: Designing a highly efficient support vector machine for advanced modern multi-core and many-core architectures.” Proceedings of the International Parallel and Distributed Processing Symposium, Ipdps, 2014, pp. 809–18. Scopus, doi:10.1109/IPDPS.2014.88.Full Text
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Randles, A. P., et al. “Performance analysis of the lattice Boltzmann model beyond Navier-Stokes.” Proceedings Ieee 27th International Parallel and Distributed Processing Symposium, Ipdps 2013, 2013, pp. 1063–74. Scopus, doi:10.1109/IPDPS.2013.109.Full Text
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Randles, A. P., et al. “Massively parallel model of extended memory use in evolutionary game dynamics.” Proceedings Ieee 27th International Parallel and Distributed Processing Symposium, Ipdps 2013, 2013, pp. 1217–28. Scopus, doi:10.1109/IPDPS.2013.102.Full Text
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Randles, A., and L. Zeger. Efficient Resource Allocation for Broadcasting Multi-Slot Messages With Random Access with Capture. IEEE, 2011.Link to Item
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Randles, A., et al. Multiscale simulation of cardiovascular flows on the IBM Bluegene/P: full heart-circulation system at red-blood cell resolution. ACM IEEE, 2010.
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Peters, Amanda, et al. “Asynchronous task dispatch for high throughput computing for the eServer IBM Blue Gene® Supercomputer.” 2008 Ieee International Symposium on Parallel and Distributed Processing, IEEE, 2008. Crossref, doi:10.1109/ipdps.2008.4536455.Full Text
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Randles, A. Parallel Genomic Sequence-Search on a Massively Parallel System. Edited by O. Thorsen et al., ACM, 2007.
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Randles, A., et al. “Analysis of pressure gradient across aortic stenosis with massively parallel computational simulations.” Http://Ieeexplore.Ieee.Org/Document/7043018/.Link to Item
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- Teaching & Mentoring
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Recent Courses
- BME 590L: Special Topics with Lab 2021
- BME 307D: Transport Phenomena in Biological Systems (AC or GE, BB) 2020
- BME 493: Projects in Biomedical Engineering (GE) 2020
- BME 494: Projects in Biomedical Engineering (GE) 2020
- BME 791: Graduate Independent Study 2020
- BME 307: Transport Phenomena in Biological Systems (AC or GE, BB) 2019
- BME 493: Projects in Biomedical Engineering (GE) 2019
- CEE 307: Transport Phenomena in Biological Systems (AC or GE, BB) 2019
- COMPSCI 394: Research Independent Study 2019
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