DG
Derek Groen
cs.DCphysics.comp-phastro-ph.COcs.CEuncertainty quantificationastro-phblood flowModels, Biologicalphysics.flu-dynAlgorithms
On Valency
published · living versionsW_dwz7446r·v1 · currentpublished
FabSim: facilitating computational research through automation on large-scale and distributed e-infrastructures
with Agastya Bhati, James Suter, James Hetherington, Stefan Zasada +1
1 version
Preprints & journals
47 papers in the corpus · 2007–2025Using machine learning to forecast conflict events for use in forced migration models.40750624 · Xue, Yani, Schincariol, Thomas, Chadefaux, Thomas et al.2025 · 5 citationsScientific reports. 2025;15(1):28202
Model Input Verification of Large Scale Simulations2409.05768v1 · Rumyana Neykova, Derek Groen2024 · 1 citationarXiv
CitySEIRCast: An Agent-Based City Digital Twin for Pandemic Analysis and Simulation10.1101/2023.12.22.23300481v2 · Bilal, S., Zaatour, W., Alonso Otano, Y. et al.2023 · 20 citationsmedRxiv
Impact of geography on the importance of parameters in infectious disease models2310.02449v2 · Arindam Saha, Maziar Ghorbani, Diana Suleimenova et al.2023 · 0 citationsarXiv
Sensitivity Analysis of High-Dimensional Models with Correlated Inputs2306.00555v1 · Juraj Kardos, Wouter Edeling, Diana Suleimenova et al.2023 · 1 citationarXiv
CALMS: Modelling the long-term health and economic impact of Covid-19 using agent-based simulation.36037156 · Mintram, Kate, Anagnostou, Anastasia, Anokye, Nana et al.2022 · 11 citationsPloS one. 2022;17(8):e0272664
A route pruning algorithm for an automated geographic location graph construction.34078986 · Schweimer, Christoph, Geiger, Bernhard C, Wang, Meizhu et al.2021 · 6 citationsScientific reports. 2021;11(1):11547
Reliability and reproducibility in computational science: implementing validation, verification and uncertainty quantification in silico.33775138 · Coveney, Peter V, Groen, Derek, Hoekstra, Alfons G2021 · 31 citationsPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2021;379(2197):20200409
Uncertainty quantification of dynamic earthquake rupture simulations.33775142 · Daub, Eric G, Arabnejad, Hamid, Mahmood, Imran et al.2026 · 1 citationPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2021;379(2197):20200076
VECMAtk: a scalable verification, validation and uncertainty quantification toolkit for scientific simulations.33775151 · Groen, D, Arabnejad, H, Jancauskas, V et al.2021 · 30 citationsPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2021;379(2197):20200221
Sensitivity-driven simulation development: a case study in forced migration.33775152 · Suleimenova, D, Arabnejad, H, Edeling, W N et al.2021 · 15 citationsPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2021;379(2197):20200077
The impact of uncertainty on predictions of the CovidSim epidemiological code.38217226 · Edeling, Wouter, Arabnejad, Hamid, Sinclair, Robbie et al.2024 · 73 citationsNature computational science. 2021;1(2):128-135
Community effort endorsing multiscale modelling, multiscale data science and multiscale computing for systems medicine.29220509 · Zanin, Massimiliano, Chorbev, Ivan, Stres, Blaz et al.2020 · 19 citationsBriefings in bioinformatics. 2019;20(3):1057-1062
Mastering the scales: a survey on the benefits of multiscale computing software.30967042 · Groen, Derek, Knap, Jaroslaw, Neumann, Philipp et al.2019 · 37 citationsPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2019;377(2142):20180147
Validation of Patient-Specific Cerebral Blood Flow Simulation Using Transcranial Doppler Measurements.29971012 · Groen, Derek, Richardson, Robin A, Coy, Rachel et al.2025 · 34 citationsFrontiers in physiology. 2018;9:721
Impact of immigrants on a multi-agent economical system.29795633 · Kaufmann, Léa, Razakanirina, Ranaivo, Groen, Derek et al.2018 · 3 citationsPloS one. 2018;13(5):e0197509
A generalized simulation development approach for predicting refugee destinations.29042598 · Suleimenova, Diana, Bell, David, Groen, Derek2019 · 123 citationsScientific reports. 2017;7(1):13377
Multiscale Computing in the Exascale Era1612.02467v1 · Saad Alowayyed, Derek Groen, Peter V. Coveney et al.2016 · 61 citationsarXiv
Anatomy and Physiology of Multiscale Modeling and Simulation in Systems Medicine.26677192 · Mizeranschi, Alexandru, Groen, Derek, Borgdorff, Joris et al.2016 · 7 citationsMethods in molecular biology (Clifton, N.J.). 2016;1386:375-404
FabSim: facilitating computational research through automation on large-scale and distributed e-infrastructures1512.02194v1 · Derek Groen, Agastya Bhati, James Suter et al.2015 · 38 citationsarXivon Valency
Mechanism of Exfoliation and Prediction of Materials Properties of Clay-Polymer Nanocomposites from Multiscale Modeling.26575149 · Suter, James L, Groen, Derek, Coveney, Peter V2016 · 52 citationsNano letters. 2015;15(12):8108-13
Science hackathons for developing interdisciplinary research and collaborations.26202977 · Groen, Derek, Calderhead, Ben2016 · 34 citationseLife. 2015;4:e09944
From Thread to Transcontinental Computer: Disturbing Lessons in Distributed Supercomputing1507.01138v1 · Derek Groen, Simon Portegies Zwart (Sterrewacht Leiden)2015 · 2 citationsarXiv
Software development practices in academia: a case study comparison1506.05272v1 · Derek Groen, Xiaohu Guo, James A. Grogan et al.2015 · 5 citationsarXiv
Ten simple rules for a successful cross-disciplinary collaboration.25928184 · Knapp, Bernhard, Bardenet, Rémi, Bernabeu, Miguel O et al.2016 · 92 citationsPLoS computational biology. 2015;11(4):e1004214
Chemically specific multiscale modeling of clay-polymer nanocomposites reveals intercalation dynamics, tactoid self-assembly and emergent materials properties.25488829 · Suter, James L, Groen, Derek, Coveney, Peter V2015 · 129 citationsAdvanced materials (Deerfield Beach, Fla.). 2015;27(6):966-84
Weighted decomposition in high-performance lattice-Boltzmann simulations: are some lattice sites more equal than others?1410.4713v1 · Derek Groen, David Abou Chacra, Rupert W. Nash et al.2014 · 5 citationsarXiv
Computer simulations reveal complex distribution of haemodynamic forces in a mouse retina model of angiogenesis.25079871 · Bernabeu, Miguel O, Jones, Martin L, Nielsen, Jens H et al.2015 · 102 citationsJournal of the Royal Society, Interface. 2014;11(99)
Performance of distributed multiscale simulations.24982258 · Borgdorff, J, Ben Belgacem, M, Bona-Casas, C et al.2014 · 36 citationsPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences. 2014;372(2021)
Ten simple rules for effective computational research.24675742 · Osborne, James M, Bernabeu, Miguel O, Bruna, Maria et al.2014 · 56 citationsPLoS computational biology. 2014;10(3):e1003506
Choice of boundary condition for lattice-Boltzmann simulation of moderate-Reynolds-number flow in complex domains.25353601 · Nash, Rupert W, Carver, Hywel B, Bernabeu, Miguel O et al.2015 · 67 citationsPhysical review. E, Statistical, nonlinear, and soft matter physics. 2014;89(2):023303
MPWide: a light-weight library for efficient message passing over wide area networks1312.0910v1 · Derek Groen, Steven Rieder, Simon Portegies Zwart2013 · 3 citationsJournal of Open Research Software 1(1):e9, 2013
Distributed Multiscale Computing with MUSCLE 2, the Multiscale Coupling Library and Environment1311.5740v1 · Joris Borgdorff, Mariusz Mamonski, Bartosz Bosak et al.2013 · 70 citationsarXiv
Flexible composition and execution of high performance, high fidelity multiscale biomedical simulations.24427530 · Groen, D, Borgdorff, J, Bona-Casas, C et al.2014 · 36 citationsInterface focus. 2013;3(2):20120087
Impact of blood rheology on wall shear stress in a model of the middle cerebral artery.24427534 · Bernabeu, Miguel O, Nash, Rupert W, Groen, Derek et al.2014 · 58 citationsInterface focus. 2013;3(2):20120094
Coalesced communication: a design pattern for complex parallel scientific software1210.4400v1 · Hywel B. Carver, Derek Groen, James Hetherington et al.2012 · 3 citationsarXiv
Analyzing and Modeling the Performance of the HemeLB Lattice-Boltzmann Simulation Environment1209.3972v2 · Derek Groen, James Hetherington, Hywel B. Carver et al.2012 · 63 citationsJournal of Computational Science Volume 4, Issue 5, 2013, Pages 412-422
Survey of Multiscale and Multiphysics Applications and Communities1208.6444v3 · Derek Groen, Stefan J. Zasada, Peter V. Coveney2012 · 79 citationsarXiv
High performance cosmological simulations on a grid of supercomputers1109.5559v1 · Derek Groen (UCL), Steven Rieder, Simon Portegies Zwart2011 · 2 citationsarXiv
The Cosmogrid Simulation: Statistical Properties of Small Dark Matter Halos1101.2020v3 · Tomoaki Ishiyama, Steven Rieder, Junichiro Makino et al.2011 · 89 citations2013, ApJ, 767, 146
High Performance Gravitational N-body Simulations on a Planet-wide Distributed Supercomputer1101.0605v1 · Derek Groen, Simon Portegies Zwart, Tomoaki Ishiyama et al.2011 · 14 citationsComput. Sci. Disc. 4 (2011) 015001
A Light-Weight Communication Library for Distributed Computing1008.2767v1 · Derek Groen (Leiden), Steven Rieder (Leiden), Paola Grosso (Amsterdam) et al.2010 · 13 citationsDerek Groen et al 2010 Comput. Sci. Disc. 3 015002
Simulating the universe on an intercontinental grid of supercomputers1001.0773v1 · Simon Portegies Zwart (Leiden), Tomoaki Ishiyama, Derek Groen (Leiden) et al.2010 · 24 citationsarXiv
The Living Application: a Self-Organising System for Complex Grid Tasks0907.4036v1 · D. Groen, S. Harfst, S. Portegies Zwart2009 · 3 citationsInternational Journal of High Performance Computing Applications May 2010 vol. 24 no. 2 185-193
A multiphysics and multiscale software environment for modeling astrophysical systems0807.1996v3 · Simon Portegies Zwart (UvA), Steve McMillan (Drexel), Stefan Harfst (UvA) et al.2008 · 197 citationsarXiv
A parallel gravitational N-body kernel0711.0643v1 · Simon Portegies Zwart (Amsterdam), Steve McMillan (Drexel), Derek Groen (Amsterdam) et al.2007 · 17 citationsarXiv
Distributed N-body Simulation on the Grid Using Dedicated Hardware0709.4552v2 · Derek Groen, Simon Portegies Zwart, Steve McMillan et al.2007 · 7 citationsNewAstron.13:348-358,2008
Career total: 927 works. 47 are in this corpus.
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