Publications of Amanda Randles

Papers Published

  1. Lee, S; Gounley, J; Randles, A; Vetter, JS, 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
  2. Feiger, B; Vardhan, M; Gounley, J; Mortensen, M; Nair, P; Chaudhury, R; Frakes, D; Randles, A, 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), pp. e3198
  3. Grigoryan, B; Paulsen, SJ; Corbett, DC; Sazer, DW; Fortin, CL; Zaita, AJ; Greenfield, PT; Calafat, NJ; Gounley, JP; Ta, AH; Johansson, F; Randles, A; Rosenkrantz, JE; Louis-Rosenberg, JD; Galie, PA; Stevens, KR; Miller, JS, Multivascular networks and functional intravascular topologies within biocompatible hydrogels., Science (New York, N.Y.), vol. 364 no. 6439 (May, 2019), pp. 458-464
  4. Vardhan, M; Das, A; Gouruev, J; Randles, A, 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 (February, 2019), pp. 56-64, ISBN 9781728101149
  5. Gounley, J; Vardhan, M; Randles, A, A Framework for Comparing Vascular Hemodynamics at Different Points in Time., Computer Physics Communications, vol. 235 (February, 2019), pp. 1-8
  6. Dabagh, M; Randles, A, Role of deformable cancer cells on wall shear stress-associated-VEGF secretion by endothelium in microvasculature., Plos One, vol. 14 no. 2 (January, 2019), pp. e0211418
  7. Gounley, J; Draeger, EW; Oppelstrup, T; Krauss, WD; Gunnels, JA; Chaudhury, R; Nair, P; Frakes, D; Leopold, JA; Randles, A, Computing the ankle-brachial index with parallel computational fluid dynamics., Journal of Biomechanics, vol. 82 (January, 2019), pp. 28-37
  8. Hegele, LA; Scagliarini, A; Sbragaglia, M; Mattila, KK; Philippi, PC; Puleri, DF; Gounley, J; Randles, A, High-Reynolds-number turbulent cavity flow using the lattice Boltzmann method, Physical Review. E, vol. 98 no. 4 (October, 2018), American Physical Society (APS)
  9. Herschlag, G; Lee, S; Vetter, JS; Randles, A, GPU data access on complex geometries for D3Q19 lattice boltzmann method, Proceedings 2018 Ieee 32nd International Parallel and Distributed Processing Symposium, Ipdps 2018 (August, 2018), pp. 825-834, IEEE, ISBN 9781538643686
  10. Rafat, M; Stone, HA; Auguste, DT; Dabagh, M; Randles, A; Heller, M; Rabinov, JD, Impact of diversity of morphological characteristics and Reynolds number on local hemodynamics in basilar aneurysms, Aiche Journal, vol. 64 no. 7 (July, 2018), pp. 2792-2802, WILEY
  11. Randles, A; Frakes, DH; Leopold, JA, Computational Fluid Dynamics and Additive Manufacturing to Diagnose and Treat Cardiovascular Disease., Trends in Biotechnology, vol. 35 no. 11 (November, 2017), pp. 1049-1061
  12. Gounley, J; Vardhan, M; Randles, A, 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 (June, 2017), ACM Press, ISBN 9781450350624
  13. Dabagh, M; Jalali, P; Butler, PJ; Randles, A; Tarbell, JM, Mechanotransmission in endothelial cells subjected to oscillatory and multi-directional shear flow., Journal of the Royal Society, Interface, vol. 14 no. 130 (May, 2017)
  14. Gounley, J; Draeger, EW; Randles, A, Numerical simulation of a compound capsule in a constricted microchannel., Procedia Computer Science, vol. 108 (January, 2017), pp. 175-184
  15. Laurence, TA; Ly, S; Fong, E; Shusteff, M; Randles, A; Gounley, J; Draeger, E, Using stroboscopic flow imaging to validate large-scale computational fluid dynamics simulations, Progress in Biomedical Optics and Imaging Proceedings of Spie, vol. 10076 (January, 2017), SPIE, ISBN 9781510605930
  16. Gounley, J; Chaudhury, R; Vardhan, M; Driscoll, M; Pathangey, G; Winarta, K; Ryan, J; Frakes, D; Randles, A, Does the degree of coarctation of the aorta influence wall shear stress focal heterogeneity?, Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference, vol. 2016 (August, 2016), pp. 3429-3432, ISBN 9781457702204
  17. Randles, A; Draeger, EW; Oppelstrup, T; Krauss, L; Gunnels, JA, Massively parallel models of the human circulatory system, International Conference for High Performance Computing, Networking, Storage and Analysis, Sc, vol. 15-20-November-2015 (November, 2015), ACM Press, ISSN 2167-4329, ISBN 9781450337236
  18. Randles, A; Draeger, EW; Bailey, PE, 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, Elsevier BV, ISSN 1877-7503
  19. Whitley, HD; Scullard, CR; Benedict, LX; Castor, JI; Randles, A; Glosli, JN; Richards, DF; Desjarlais, MP; Graziani, FR, 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 (January, 2015), pp. 192-202, WILEY, ISSN 0863-1042
  20. You, Y; Fu, H; Song, SL; Randles, A; Kerbyson, D; Marquez, A; Yang, G; Hoisie, A, Scaling Support Vector Machines on modern HPC platforms, Journal of Parallel and Distributed Computing, vol. 76 (January, 2015), pp. 16-31, Elsevier BV, ISSN 0743-7315
  21. Kale, V; Randles, A; Gropp, WD, Locality-optimized mixed static/dynamic scheduling for improving load balancing on SMPs, Acm International Conference Proceeding Series, vol. 09-12-September-2014 (September, 2014), pp. 115-116, ACM Press, ISBN 9781450328753
  22. Randles, A; Kaxiras, E, Parallel in time approximation of the lattice Boltzmann method for laminar flows, Journal of Computational Physics, vol. 270 (August, 2014), pp. 577-586, Elsevier BV, ISSN 0021-9991
  23. You, Y; Song, SL; Fu, H; Marquez, A; Dehnavi, MM; Barker, K; Cameron, KW; Randles, AP; Yang, G, MIC-SVM: Designing a Highly Efficient Support Vector Machine for Advanced Modern Multi-core and Many-Core Architectures, 2014 Ieee 28th International Parallel and Distributed Processing Symposium (May, 2014), IEEE, ISBN 9781479937998
  24. Almendro, V; Cheng, Y-K; Randles, A; Itzkovitz, S; Marusyk, A; Ametller, E; Gonzalez-Farre, X; Muñoz, M; Russnes, HG; Helland, A; Rye, IH; Borresen-Dale, A-L; Maruyama, R; van Oudenaarden, A; Dowsett, M; Jones, RL; Reis-Filho, J; Gascon, P; Gönen, M; Michor, F; Polyak, K, 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 (February, 2014), pp. 514-527, ISSN 2211-1247
  25. Randles, A; Draeger, E; Michor, F, Analysis of pressure gradient across aortic stenosis with massively parallel computational simulations, Computing in Cardiology, vol. 41 no. January (January, 2014), pp. 217-220, ISSN 2325-8861
  26. You, Y; Song, SL; Fu, H; Marquez, A; Dehnavi, MM; Barker, K; Cameron, KW; Randles, AP; Yang, G, MIC-SVM: Designing a highly efficient support vector machine for advanced modern multi-core and many-core architectures, 2008 Ieee International Symposium on Parallel and Distributed Processing (January, 2014), pp. 809-818, ISSN 1530-2075, ISBN 9780769552071
  27. You, Y; Fu, H; Song, SL; Randles, A; Kerbyson, D; Marquez, A; Yang, G; Hoisie, A, Scaling Support Vector Machines on modern HPC platforms, Journal of Parallel and Distributed Computing (2014), ISSN 0743-7315
  28. Randles, AP; Kale, V; Hammond, J; Gropp, W; Kaxiras, E, Performance analysis of the lattice Boltzmann model beyond Navier-Stokes, Proceedings Ieee 27th International Parallel and Distributed Processing Symposium, Ipdps 2013 (October, 2013), pp. 1063-1074, IEEE, ISBN 9781467360661
  29. Randles, AP; Rand, DG; Lee, C; Morrisett, G; Sircar, J; Nowak, MA; Pfister, H, Massively parallel model of extended memory use in evolutionary game dynamics, Proceedings Ieee 27th International Parallel and Distributed Processing Symposium, Ipdps 2013 (October, 2013), pp. 1217-1228, IEEE, ISBN 9781467360661
  30. Peters Randles, A; Bächer, M; Pfister, H; Kaxiras, E, A lattice Boltzmann simulation of hemodynamics in a patient-specific aortic coarctation model, edited by Camara, O; Manso, T; Pop, M; Rhode, K; Sermesant, M; Young, A, Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 7746 LNCS (April, 2013), pp. 17-25, Springer Berlin Heidelberg
  31. Keyes, DE; McInnes, LC; Woodward, C; Gropp, W; Myra, E; Pernice, M; Bell, J; Brown, J; Clo, A; Connors, J; Constantinescu, E; Estep, D; Evans, K; Farhat, C; Hakim, A; Hammond, G; Hansen, G; Hill, J; Isaac, T; Jiao, X; Jordan, K; Kaushik, D; Kaxiras, E; Koniges, A; Lee, K; Lott, A; Lu, Q; Magerlein, J; Maxwell, R; McCourt, M; Mehl, M; Pawlowski, R; Randles, AP; Reynolds, D; Rivière, B; Rüde, U; Scheibe, T; Shadid, J; Sheehan, B; Shephard, M; Siegel, A; Smith, B; Tang, X; Wilson, C; Wohlmuth, B, Multiphysics simulations: Challenges and opportunities, The International Journal of High Performance Computing Applications, vol. 27 no. 1 (February, 2013), pp. 4-83, SAGE Publications, ISSN 1094-3420
  32. Peters Randles, A; Bächer, M; Pfister, H; Kaxiras, E, A Lattice Boltzmann Simulation of Hemodynamics in a Patient-Specific Aortic Coarctation Model, edited by Camara, O; Pop, M; Mansi, T; Sermesant, M; Young, A, Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 7746 (2013), pp. 17-25, Springer Berlin Heidelberg
  33. Randles, AP, Massively parallel model of evolutionary game dynamics, Proceedings 2012 Sc Companion: High Performance Computing, Networking Storage and Analysis, Scc 2012 (December, 2012), pp. 1531, IEEE
  34. Borkin, MA; Gajos, KZ; Peters, A; Mitsouras, D; Melchionna, S; Rybicki, FJ; Feldman, CL; Pfister, H, Evaluation of artery visualizations for heart disease diagnosis., Ieee Transactions on Visualization and Computer Graphics, vol. 17 no. 12 (December, 2011), pp. 2479-2488, ISSN 1077-2626
  35. Randles, A; Zeger, L, Efficient Resource Allocation for Broadcasting Multi-Slot Messages With Random Access with Capture (October, 2011), IEEE
  36. Robson, B; Li, J; Dettinger, R; Peters, A; Boyer, SK, 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 (May, 2011), pp. 427-441, Springer Science and Business Media LLC, ISSN 0920-654X
  37. Randles, A; Melchionna, S; Kaxiras, E; Latt, J; Sircar, J; Bernaschi, M; Bisson, M; Succi, S, Multiscale simulation of cardiovascular flows on the IBM Bluegene/P: full heart-circulation system at red-blood cell resolution (November, 2010), ACM IEEE
  38. Peters, A; King, A; Budnik, T; McCarthy, P; Michaud, P; Mundy, M; Sexton, J; Stewart, G, Asynchronous task dispatch for high throughput computing for the eServer IBM Blue Gene® Supercomputer, 2008 Ieee International Symposium on Parallel and Distributed Processing (April, 2008), IEEE, ISBN 9781424416936
  39. Jiang, K; Thorsen, O; Peters, A; Smith, B; Sosa, CP, 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 (January, 2008), pp. 15-23, Institute of Electrical and Electronics Engineers (IEEE), ISSN 1045-9219
  40. Pang, Y-P; Mullins, TJ; Swartz, BA; McAllister, JS; Smith, BE; Archer, CJ; Musselman, RG; Peters, AE; Wallenfelt, BP; Pinnow, KW, 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 (January, 2008), pp. 69-81, IBM, ISSN 0018-8646
  41. Randles, A, Parallel Genomic Sequence-Search on a Massively Parallel System, edited by Thorsen, O; Jiang, K; Smith, B; Lin, H; Feng, W; Sosa, CP (May, 2007), ACM