Department of Information Technology
Department of Information Technology
Uppsala UniversityInformation TechnologyResearch
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Publications within eSSENCE from IT

Refereed

  1. Bayesian inference in epidemics: linear noise analysis. Samuel Bronstein, Stefan Engblom, and Robin Marin. In Mathematical Biosciences and Engineering, volume 20, number 2, pp 4128-4152, American Institute of Mathematical Sciences, 2023. (DOI, Fulltext, Preprint in arXiv, fulltext:print).
  2. Quantum Perturbation Theory Using Tensor Cores and a Deep Neural Network. Joshua Finkelstein, Emanuel H. Rubensson, Susan M. Mniszewski, Christian F. A. Negre, and Anders M. N. Niklasson. In Journal of Chemical Theory and Computation, volume 18, number 7, pp 4255-4268, American Chemical Society (ACS), 2022. (DOI).
  3. Robust and integrative Bayesian neural networks for likelihood-free parameter inference. Fredrik Wrede, Robin Eriksson, Richard Jiang, Linda Petzold, Stefan Engblom, Andreas Hellander, and Prashant Singh. In 2022 International Joint Conference on Neural Networks (IJCNN), IEEE International Joint Conference on Neural Networks (IJCNN), pp 1-10, Institute of Electrical and Electronics Engineers (IEEE), 2022. (DOI, Fulltext).
  4. An empirical evaluation of genotype imputation of ancient DNA. Kristiina Ausmees, Federico Sanchez-Quinto, Mattias Jakobsson, and Carl Nettelblad. In G3: Genes, Genomes, Genetics, volume 12, number 6, Oxford University Press, 2022. (DOI, Fulltext, fulltext:print).
  5. Towards Confident Bayesian Parameter Estimation in Stochastic Chemical Kinetics. Stefan Engblom, Robin Eriksson, and Pedro Vilanova. In Numerical Mathematics and Advanced Applications ENUMATH 2019: European Conference, Egmond aan Zee, The Netherlands, September 30 - October 4, volume 139 of Lecture Notes in Computational Science and Engineering (LNCSE), pp 373-380, Springer Nature, 2021. (DOI).
  6. Quantum-Based Molecular Dynamics Simulations Using Tensor Cores. Joshua Finkelstein, Justin S. Smith, Susan M. Mniszewski, Kipton Barros, Christian F. A. Negre, Emanuel H. Rubensson, and Anders M. N. Niklasson. In Journal of Chemical Theory and Computation, volume 17, number 10, pp 6180-6192, American Chemical Society (ACS), 2021. (DOI).
  7. A multiscale compartment-based model of stochastic gene regulatory networks using hitting-time analysis. Adrien Coulier, Stefan Hellander, and Andreas Hellander. In Journal of Chemical Physics, volume 154, number 18, American Institute of Physics (AIP), 2021. (DOI, Fulltext, External link, fulltext:print).
  8. Epidemiological modeling in StochSS Live!. Richard Jiang, Bruno Jacob, Matthew Geiger, Sean Matthew, Bryan Rumsey, Prashant Singh, Fredrik Wrede, Tau-Mu Yi, Brian Drawert, Andreas Hellander, and Linda Petzold. In Bioinformatics, volume 37, number 17, pp 2787-2788, Oxford University Press, 2021. (DOI, Fulltext, External link).
  9. Mixed Precision Fermi-Operator Expansion on Tensor Cores from a Machine Learning Perspective. Joshua Finkelstein, Justin S. Smith, Susan M. Mniszewski, Kipton Barros, Christian F. A. Negre, Emanuel H. Rubensson, and Anders M. N. Niklasson. In Journal of Chemical Theory and Computation, volume 17, number 4, pp 2256-2265, American Chemical Society (ACS), 2021. (DOI).
  10. Scalable machine learning-assisted model exploration and inference using Sciope. Prashant Singh, Fredrik Wrede, and Andreas Hellander. In Bioinformatics, volume 37, number 2, pp 279-281, Oxford University Press, 2021. (DOI, Fulltext, fulltext:print).
  11. A density matrix approach to the convergence of the self-consistent field iteration. Parikshit Upadhyaya, Elias Jarlebring, and Emanuel H. Rubensson. In Numerical Algebra, Control and Optimization, volume 11, number 1, pp 99-115, 2021. (DOI).
  12. Sparse approximate matrix-matrix multiplication for density matrix purification with error control. Anton G. Artemov and Emanuel H. Rubensson. In Journal of Computational Physics, volume 438, Elsevier, 2021. (DOI, Fulltext, fulltext:print).
  13. Localized inverse factorization. Emanuel H. Rubensson, Anton G. Artemov, Anastasia Kruchinina, and Elias Rudberg. In IMA Journal of Numerical Analysis, volume 41, number 1, pp 729-763, 2021. (DOI, Fulltext, fulltext:print).
  14. Towards Smart e-Infrastructures, A Community Driven Approach Based on Real Datasets. Prashant Singh, Mona Mohamed Elamin, and Salman Toor. In Proceedings of the 2020 IEEE Green Technologies Conference (GreenTech), IEEE Green Technologies Conference, pp 109-114, 2020. (DOI).
  15. Impact of Force Function Formulations on the Numerical Simulation of Centre-Based Models.. Sonja Mathias, Adrien Coulier, Anass Bouchnita, and Andreas Hellander. In Bulletin of Mathematical Biology, volume 82, number 10, Springer Nature, 2020. (DOI, Fulltext, fulltext:print).
  16. Bayesian epidemiological modeling over high-resolution network data. Stefan Engblom, Robin Eriksson, and Stefan Widgren. In Epidemics, volume 32, Elsevier BV, 2020. (DOI, Fulltext, fulltext:print).
  17. Flash X-ray diffraction imaging in 3D: a proposed analysis pipeline. Jing Liu, Stefan Engblom, and Carl Nettelblad. In Journal of the Optical Society of America A, volume 37, number 10, pp 1673-1686, 2020. (DOI).
  18. MaRe: Processing Big Data with application containers on Apache Spark. Marco Capuccini, Martin Dahlö, Salman Toor, and Ola Spjuth. In GigaScience, volume 9, number 5, Oxford University Press, 2020. (DOI, Fulltext, fulltext:print).
  19. A first meshless approach to simulation of the elastic behaviour of the diaphragm. Nicola Cacciani, Elisabeth Larsson, Alberto Lauro, Marco Meggiolaro, Alessio Scatto, Igor Tominec, and Pierre-Frédéric Villard. In Spectral and High Order Methods for Partial Differential Equations: ICOSAHOM 2018, volume 134 of Lecture Notes in Computational Science and Engineering, pp 501-512, Springer, 2020. (DOI, fulltext:postprint).
  20. Apache Spark Streaming, Kafka and HarmonicIO: A performance benchmark and architecture comparison for enterprise and scientific computing. Ben Blamey, Andreas Hellander, and Salman Toor. In Benchmarking, Measuring, and Optimizing, volume 12093 of Lecture Notes in Computer Science, pp 335-347, Springer, 2020. (DOI).
  21. A full Stokes subgrid scheme in two dimensions for simulation of grounding line migration in ice sheets using Elmer/ICE (v8.3). Gong Cheng, Per Lötstedt, and Lina von Sydow. In Geoscientific Model Development, volume 13, pp 2245-2258, 2020. (DOI, Fulltext).
  22. High-order cut finite elements for the elastic wave equation. Simon Sticko, Gustav Ludvigsson, and Gunilla Kreiss. In Advances in Computational Mathematics, volume 46, number 3, 2020. (DOI, Fulltext).
  23. Local meshless methods for second order elliptic interface problems with sharp corners. Masood Ahmad, Siraj-ul Islam, and Elisabeth Larsson. In Journal of Computational Physics, volume 416, 2020. (DOI, fulltext:postprint).
  24. High-order cut discontinuous Galerkin methods with local time stepping for acoustics. Svenja Schoeder, Simon Sticko, Gunilla Kreiss, and Martin Kronbichler. In International Journal for Numerical Methods in Engineering, volume 121, number 13, pp 2979-3003, 2020. (DOI).
  25. A high order method for pricing of financial derivatives using radial basis function generated finite differences. Slobodan Milovanovi? and Lina von Sydow. In Mathematics and Computers in Simulation, volume 174, pp 205-217, 2020. (DOI).
  26. Parameter sensitivity analysis of dynamic ice sheet models — numerical computations. Gong Cheng and Per Lötstedt. In The Cryosphere, volume 14, pp 673-691, 2020. (DOI, Fulltext).
  27. Modelling long-range interactions in multiscale simulations of ferromagnetic materials. Doghonay Arjmand, Mikhail Poluektov, and Gunilla Kreiss. In Advances in Computational Mathematics, volume 46, number 1, 2020. (DOI, Fulltext).
  28. Multiscale approach for magnetization dynamics: unraveling exotic magnetic states of matter. Édgar Méndez, Mikhail Poluektov, Gunilla Kreiss, Olle Eriksson, and Manuel Pereiro. In Physical Review Research, volume 2, number 1, 2020. (DOI, Fulltext, fulltext:print).
  29. Hierarchical algorithm for the reaction–diffusion master equation. Stefan Hellander and Andreas Hellander. In Journal of Chemical Physics, volume 152, number 3, 2020. (DOI, Fulltext).
  30. A multiscale model to design therapeutic strategies that overcome drug resistance to tyrosine kinase inhibitors in multiple myeloma. Anass Bouchnita, Vitaly Volpert, Mark J. Koury, and Andreas Hellander. In Mathematical Biosciences, volume 319, 2020. (DOI).
  31. SWEEP: Accelerating scientific research through scalable serverless workflows. Aji John, Kristiina Ausmees, Kathleen Muenzen, Catherine Kuhn, and Amanda Tan. In Companion Proc. 12th International Conference on Utility and Cloud Computing, pp 43-50, ACM Press, New York, 2019. (DOI).
  32. SimInf: An R package for data-driven stochastic disease spread simulations. Stefan Widgren, Pavol Bauer, Robin Eriksson, and Stefan Engblom. In Journal of Statistical Software, volume 91, number 12, pp 1-42, 2019. (DOI, Fulltext).
  33. On-demand virtual research environments using microservices. Marco Capuccini, Anders Larsson, Matteo Carone, Jon Ander Novella, Noureddin Sadawi, Jianliang Gao, Salman Toor, and Ola Spjuth. In PeerJ Computer Science, volume 5, 2019. (DOI, Fulltext).
  34. DuctTeip: An efficient programming model for distributed task-based parallel computing. Afshin Zafari, Elisabeth Larsson, and Martin Tillenius. In Parallel Computing, volume 90, 2019. (DOI, fulltext:postprint).
  35. Parallelization and scalability analysis of inverse factorization using the chunks and tasks programming model. Anton G. Artemov, Elias Rudberg, and Emanuel H. Rubensson. In Parallel Computing, volume 89, pp 102548:1-12, 2019. (DOI).
  36. The presence and impact of reference bias on population genomic studies of prehistoric human populations. Torsten Günther and Carl Nettelblad. In PLOS Genetics, volume 15, number 7, 2019. (DOI, Fulltext).
  37. Higher order cut finite elements for the wave equation. Simon Sticko and Gunilla Kreiss. In Journal of Scientific Computing, volume 80, pp 1867-1887, 2019. (DOI, Fulltext).
  38. Adapting the secretary hiring problem for optimal hot–cold tier placement under top-<em>K</em> workloads. Ben Blamey, Fredrik Wrede, Johan Karlsson, Andreas Hellander, and Salman Toor. In Proc. 19th International Symposium on Cluster, Cloud, and Grid Computing, pp 576-583, IEEE Computer Society, Los Alamitos, CA, 2019. (DOI).
  39. Multigrid for matrix-free high-order finite element computations on graphics processors. Martin Kronbichler and Karl Ljungkvist. In ACM Transactions on Parallel Computing, volume 6, number 1, pp 2:1-32, 2019. (DOI).
  40. Spatial lymphocyte dynamics in lymph nodes predicts the cytotoxic T cell frequency needed for HIV infection control. Dmitry Grebennikov, Anass Bouchnita, Vitaly Volpert, Nikolay Bessonov, Andreas Meyerhans, and Gennady Bocharov. In Frontiers in Immunology, volume 10, 2019. (DOI, Fulltext).
  41. Smart computational exploration of stochastic gene regulatory network models using human-in-the-loop semi-supervised learning. Fredrik Wrede and Andreas Hellander. In Bioinformatics, volume 35, pp 5199-5206, 2019. (DOI).
  42. Mathematical modeling reveals that the administration of EGF can promote the elimination of lymph node metastases by PD-1/PD-L1 blockade. Mohamed Amine Benchaib, Anass Bouchnita, Vitaly Volpert, and Abdelkader Makhoute. In Frontiers in Bioengineering and Biotechnology, volume 7, 2019. (DOI, Fulltext).
  43. A 3D multiscale model to explore the role of EGFR overexpression in tumourigenesis. Anass Bouchnita, Stefan Hellander, and Andreas Hellander. In Bulletin of Mathematical Biology, volume 81, pp 2323-2344, 2019. (DOI, Fulltext).
  44. Tail distribution and extreme quantile estimation using non-parametric approaches. Imen Rached and Elisabeth Larsson. In High-Performance Modelling and Simulation for Big Data Applications, pp 69-87, Springer, 2019. (DOI, Fulltext).
  45. Parallelization of hierarchical matrix algorithms for electromagnetic scattering problems. Elisabeth Larsson, Afshin Zafari, Marco Righero, M. Alessandro Francavilla, Giorgio Giordanengo, Francesca Vipiana, Giuseppe Vecchi, Christoph Kessler, Corinne Ancourt, and Clemens Grelck. In High-Performance Modelling and Simulation for Big Data Applications, pp 36-68, Springer, 2019. (DOI, Fulltext).
  46. Why high-performance modelling and simulation for big data applications matters. Clemens Grelck, Ewa Niewiadomska-Szynkiewicz, Marco Aldinucci, Andrea Bracciali, and Elisabeth Larsson. In High-Performance Modelling and Simulation for Big Data Applications, pp 1-35, Springer, 2019. (DOI, Fulltext).
  47. A multiscale model of platelet-fibrin thrombus growth in the flow. Anass Bouchnita and Vitaly Volpert. In Computers & Fluids, volume 184, pp 10-20, 2019. (DOI).
  48. Linear scaling pseudo Fermi-operator expansion for fractional occupation. Susan M. Mniszewski, Romain Perriot, Emanuel H. Rubensson, Christian F. A. Negre, Marc J. Cawkwell, and Anders M. N. Niklasson. In Journal of Chemical Theory and Computation, volume 15, pp 190-200, 2019. (DOI).
  49. BENCHOP–SLV: The BENCHmarking project in Option Pricing – Stochastic and local volatility problems. Lina von Sydow, Slobodan Milovanovi?, Elisabeth Larsson, Karel In't Hout, Magnus Wiktorsson, Cornelis W. Oosterlee, Victor Shcherbakov, Maarten Wyns, Alvaro Leitao, Shashi Jain, Tinne Haentjens, and Johan Waldén. In International Journal of Computer Mathematics, volume 96, pp 1910-1923, 2019. (DOI, Fulltext).
  50. Preconditioned smoothers for the Full Approximation Scheme for the RANS equations. Philipp Birken, Jonathan Bull, and Antony Jameson. In Journal of Scientific Computing, volume 78, pp 995-1022, 2019. (DOI, Fulltext).
  51. Container-based bioinformatics with Pachyderm. Jon Ander Novella, Payam Emami Khoonsari, Stephanie Herman, Daniel Whitenack, Marco Capuccini, Joachim Burman, Kim Kultima, and Ola Spjuth. In Bioinformatics, volume 35, pp 839-846, 2019. (DOI, Fulltext).
  52. Stochastic simulation of pattern formation in growing tissue: A multilevel approach. Stefan Engblom. In Bulletin of Mathematical Biology, volume 81, pp 3010-3023, 2019. (DOI, Fulltext).
  53. The linear noise approximation for spatially dependent biochemical networks. Per Lötstedt. In Bulletin of Mathematical Biology, volume 81, pp 2873-2901, 2019. (DOI, Fulltext).
  54. Hyperparameter optimization for approximate Bayesian computation. Prashant Singh and Andreas Hellander. In Proc. 50th Winter Simulation Conference, pp 1718-1729, IEEE, Piscataway, NJ, 2018. (DOI).
  55. Orchestral: a lightweight framework for parallel simulations of cell–cell communication. Adrien Coulier and Andreas Hellander. In Proc. 14th International Conference on e-Science, pp 168-176, IEEE Computer Society, Los Alamitos, CA, 2018. (DOI).
  56. A statistical approach to detect protein complexes at X-ray free electron laser facilities. Alberto Pietrini, Johan Bielecki, Nicusor Timneanu, Max F. Hantke, Jakob Andreasson, N. Duane Loh, Daniel S. D. Larsson, Sébastien Boutet, Janos Hajdu, Filipe R. N. C. Maia, and Carl Nettelblad. In Communications Physics, volume 1, pp 92:1-11, 2018. (DOI, Fulltext).
  57. Dynamically coupling full Stokes and shallow shelf approximation for marine ice sheet flow using Elmer/Ice (v8.3). Eef C. H. van Dongen, Nina Kirchner, Martin B. van Gijzen, Roderik S. W. van de Wal, Thomas Zwinger, Gong Cheng, Per Lötstedt, and Lina von Sydow. In Geoscientific Model Development, volume 11, pp 4563-4576, 2018. (DOI, Fulltext).
  58. Multi-objective optimization driven construction of uniform priors for likelihood-free parameter inference. Prashant Singh and Andreas Hellander. In Proc. 32nd European Simulation and Modelling Conference, pp 22-27, EUROSIS, 2018.
  59. The Kolmogorov forward fractional partial differential equation for the CGMY-process with applications in option pricing. Lars Josef Höök, Gustav Ludvigsson, and Lina von Sydow. In Computers and Mathematics with Applications, volume 76, pp 2330-2344, 2018. (DOI).
  60. Mesoscopic modeling of random walk and reactions in crowded media. Stefan Engblom, Per Lötstedt, and Lina Meinecke. In Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, volume 98, pp 033304:1-16, 2018. (DOI).
  61. HarmonicIO: Scalable data stream processing for scientific datasets. Preechakorn Torruangwatthana, Håkan Wieslander, Ben Blamey, Andreas Hellander, and Salman Toor. In Proc. 11th International Conference on Cloud Computing, pp 879-882, IEEE Computer Society, Los Alamitos, CA, 2018. (DOI).
  62. Ventral hippocampal OLM cells control type 2 theta oscillations and response to predator odor. Sanja Mikulovic, Carlos Ernesto Restrepo, Samer Siwani, Pavol Bauer, Stefano Pupe Johann, Adriano B. L. Tort, Klas Kullander, and Richardson N. Leão. In Nature Communications, volume 9, pp 3638:1-15, 2018. (DOI, Fulltext).
  63. Using convex optimization of autocorrelation with constrained support and windowing for improved phase retrieval accuracy. Alberto Pietrini and Carl Nettelblad. In Optics Express, volume 26, pp 24422-24443, 2018. (DOI, Fulltext).
  64. Radial line Fourier descriptor for historical handwritten text representation. Anders Hast and Ekta Vats. In Journal of WSCG, volume 26, number 1, pp 31-40, 2018. (DOI).
  65. Spatio-temporal modelling of verotoxigenic <em>Escherichia coli</em> O157 in cattle in Sweden: exploring options for control. Stefan Widgren, Stefan Engblom, Ulf Emanuelson, and Ann Lindberg. In Veterinary research (Print), volume 49, pp 78:1-13, 2018. (DOI, Fulltext).
  66. Scalable population-level modelling of biological cells incorporating mechanics and kinetics in continuous time. Stefan Engblom, Daniel B. Wilson, and Ruth E. Baker. In Royal Society Open Science, volume 5, pp 180379:1-17, 2018. (DOI, Fulltext).
  67. Multiscale modelling via split-step methods in neural firing. Pavol Bauer, Stefan Engblom, Sanja Mikulovic, and Aleksandar Senek. In Mathematical and Computer Modelling of Dynamical Systems, volume 24, pp 426-445, 2018. (DOI, Fulltext).
  68. Assessing uncertainties in x-ray single-particle three-dimensional reconstruction. Jing Liu, Stefan Engblom, and Carl Nettelblad. In Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, volume 98, pp 013303:1-12, 2018. (DOI).
  69. BAMSI: a multi-cloud service for scalable distributed filtering of massive genome data. Kristiina Ausmees, Aji John, Salman Z. Toor, Andreas Hellander, and Carl Nettelblad. In BMC Bioinformatics, volume 19, pp 240:1-11, 2018. (DOI, Fulltext).
  70. Learning surrogate models of document image quality metrics for automated document image processing. Prashant Singh, Ekta Vats, and Anders Hast. In Proc. 13th IAPR International Workshop on Document Analysis Systems, pp 67-72, IEEE, 2018. (DOI).
  71. Anisotropic radial basis function methods for continental size ice sheet simulations. Gong Cheng and Victor Shcherbakov. In Journal of Computational Physics, volume 372, pp 161-177, 2018. (DOI).
  72. Effective slip over partially filled microcavities and its possible failure. Zhouyang Ge, Hanna Holmgren, Martin Kronbichler, Luca Brandt, and Gunilla Kreiss. In Physical Review Fluids, volume 3, pp 054201:1-17, 2018. (DOI).
  73. Ergo: An open-source program for linear-scaling electronic structure calculations. Elias Rudberg, Emanuel H. Rubensson, Pawel Salek, and Anastasia Kruchinina. In SoftwareX, volume 7, pp 107-111, 2018. (DOI, Fulltext).
  74. Multidimensional performance and scalability analysis for diverse applications based on system monitoring data. Maya Neytcheva, Sverker Holmgren, Jonathan R. Bull, Ali Dorostkar, Anastasia Kruchinina, Dmitry Nikitenko, Nina Popova, Pavel Shvets, Alexey Teplov, Vadim Voevodin, and Vladimir Voevodin. In Parallel Processing and Applied Mathematics: Part I, volume 10777 of Lecture Notes in Computer Science, pp 417-431, Springer, 2018. (DOI).
  75. TaskUniVerse: A Task-Based Unified Interface for Versatile Parallel Execution. Afshin Zafari. In Parallel Processing and Applied Mathematics: Part I, volume 10777 of Lecture Notes in Computer Science, pp 169-184, Springer, 2018. (DOI, fulltext:postprint).
  76. An intelligent user interface for efficient semi-automatic transcription of historical handwritten documents. Anders Hast and Ekta Vats. In Proc. 23rd International Conference on Intelligent User Interfaces Companion, ACM Press, New York, 2018. (DOI).
  77. Towards Bayesian parametrization of national scale epidemics. Robin Eriksson, Stefan Engblom, and Stefan Widgren. In MATHMOD 2018 Extended Abstracts, pp 65-66, ARGESIM Publisher, Vienna, Austria, 2018. (DOI, Fulltext).
  78. Efficient iterative virtual screening with Apache Spark and conformal prediction. Laeeq Ahmed, Valentin Georgiev, Marco Capuccini, Salman Toor, Wesley Schaal, Erwin Laure, and Ola Spjuth. In Journal of Cheminformatics, volume 10, 2018. (DOI, Fulltext).
  79. A general high order two-dimensional panel method. Anders Goude and Stefan Engblom. In Applied Mathematical Modelling, volume 60, pp 1-17, 2018. (DOI).
  80. Pathwise error bounds in multiscale variable splitting methods for spatial stochastic kinetics. Augustin Chevallier and Stefan Engblom. In SIAM Journal on Numerical Analysis, volume 56, pp 469-498, 2018. (DOI).
  81. Stabilized equal low-order finite elements in ice sheet modeling: accuracy and robustness. Christian Helanow and Josefin Ahlkrona. In Computational Geosciences, volume 22, pp 951-974, 2018. (DOI, Fulltext).
  82. High-order numerical methods for 2D parabolic problems in single and composite domains. Gustav Ludvigsson, Kyle R. Steffen, Simon Sticko, Siyang Wang, Qing Xia, Yekaterina Epshteyn, and Gunilla Kreiss. In Journal of Scientific Computing, volume 76, pp 812-847, 2018. (DOI, Fulltext).
  83. Atomistic-continuum multiscale modelling of magnetisation dynamics at non-zero temperature. Doghonay Arjmand, Mikhail Poluektov, and Gunilla Kreiss. In Advances in Computational Mathematics, volume 44, pp 1119-1151, 2018. (DOI, Fulltext).
  84. <em>TexT</em> – Text extractor tool for handwritten document transcription and annotation. Anders Hast, Per Cullhed, and Ekta Vats. In Digital Libraries and Multimedia Archives, volume 806 of Communications in Computer and Information Science, pp 81-92, Springer, 2018. (DOI).
  85. On-the-fly computation of frontal orbitals in density matrix expansions. Anastasia Kruchinina, Elias Rudberg, and Emanuel H. Rubensson. In Journal of Chemical Theory and Computation, volume 14, pp 139-153, 2018. (DOI).
  86. Radial basis function generated finite differences for option pricing problems. Slobodan Milovanovi? and Lina von Sydow. In Computers and Mathematics with Applications, volume 75, pp 1462-1481, 2018. (DOI).
  87. Radial basis function methods for the Rosenau equation and other higher order PDEs. Ali Safdari-Vaighani, Elisabeth Larsson, and Alfa Heryudono. In Journal of Scientific Computing, volume 75, pp 1555-1580, 2018. (DOI, Fulltext).
  88. Coupling atomistic and continuum modelling of magnetism. Mikhail Poluektov, Olle Eriksson, and Gunilla Kreiss. In Computer Methods in Applied Mechanics and Engineering, volume 329, pp 219-253, 2018. (DOI).
  89. Forward deterministic pricing of options using Gaussian radial basis functions. Jamal Amani Rad, Josef Höök, Elisabeth Larsson, and Lina von Sydow. In Journal of Computational Science, volume 24, pp 209-217, 2018. (DOI, fulltext:postprint).
  90. A fast massively parallel two-phase flow solver for microfluidic chip simulation. Martin Kronbichler, Ababacar Diagne, and Hanna Holmgren. In The international journal of high performance computing applications, volume 32, pp 266-287, 2018. (DOI).
  91. Surrogate assisted model reduction for stochastic biochemical reaction networks. Prashant Singh and Andreas Hellander. In Proc. 49th Winter Simulation Conference, pp 1773-1783, IEEE, Piscataway, NJ, 2017. (DOI).
  92. SNIC Science Cloud (SSC): A national-scale cloud infrastructure for Swedish academia. Salman Toor, Mathias Lindberg, Ingemar Fällman, Andreas Vallin, Olof Mohill, Pontus Freyhult, Linus Nilsson, Martin Agback, Lars Viklund, Henric Zazzi, Ola Spjuth, Marco Capuccini, Joakim Möller, Donal Murtagh, and Andreas Hellander. In Proc. 13th International Conference on e-Science, pp 219-227, IEEE Computer Society, Los Alamitos, CA, 2017. (DOI).
  93. Automatic document image binarization using Bayesian optimization. Ekta Vats, Anders Hast, and Prashant Singh. In Proc. 4th International Workshop on Historical Document Imaging and Processing, pp 89-94, ACM Press, New York, 2017. (DOI).
  94. A least squares radial basis function partition of unity method for solving PDEs. Elisabeth Larsson, Victor Shcherbakov, and Alfa Heryudono. In SIAM Journal on Scientific Computing, volume 39, pp A2538-A2563, 2017. (DOI).
  95. The role of chromatin density in cell population heterogeneity during stem cell differentiation. Mahdi Golkaram, Jiwon Jang, Stefan Hellander, Kenneth S. Kosik, and Linda R. Petzold. In Scientific Reports, volume 7, pp 13307:1-11, 2017. (DOI, Fulltext).
  96. Stability and strong convergence for spatial stochastic kinetics. Stefan Engblom. In Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology, pp 109-125, Springer, 2017. (DOI).
  97. Multiscale simulation of stochastic reaction–diffusion networks. Stefan Engblom, Andreas Hellander, and Per Lötstedt. In Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology, pp 55-79, Springer, 2017. (DOI).
  98. Data-driven computational disease spread modeling: from measurement to parametrization and control. Stefan Engblom and Stefan Widgren. In Disease Modelling and Public Health: Part A, volume 36 of Handbook of Statistics, pp 305-328, Elsevier, 2017. (DOI).
  99. Numerical solution of the viscous flow past a cylinder with a non-global yet spectrally convergent meshless collocation method. Francisco Bernal, Alfa R. H. Heryudono, and Elisabeth Larsson. In Spectral and High Order Methods for Partial Differential Equations: ICOSAHOM 2016, volume 119 of Lecture Notes in Computational Science and Engineering, pp 495-507, Springer, 2017. (DOI).
  100. A fast direct solver for the advection–diffusion equation using low-rank approximation of the Green's function. Jonathan R. Bull. In Spectral and High Order Methods for Partial Differential Equations: ICOSAHOM 2016, volume 119 of Lecture Notes in Computational Science and Engineering, pp 423-435, Springer, 2017. (DOI).
  101. Robustness analysis of spatiotemporal models in the presence of extrinsic fluctuations. Andreas Hellander, Jan Klosa, Per Lötstedt, and Shev MacNamara. In SIAM Journal on Applied Mathematics, volume 77, pp 1157-1183, 2017. (DOI).
  102. Artifact reduction in the CSPAD detectors used for LCLS experiments. Alberto Pietrini and Carl Nettelblad. In Journal of Synchrotron Radiation, volume 24, pp 1092-1097, 2017. (DOI).
  103. Human fat tissue: A microwave communication channel. Noor Badariah Asan, Syaiful Redzwan, Anders Rydberg, Robin Augustine, Daniel Noreland, Emadeldeen Hassan, and Thiemo Voigt. In Proc. 1st MTT-S International Microwave Bio Conference, IEEE, 2017. (DOI).
  104. The generation of turbulent inflow boundary conditions using precursor channel flow simulations. Timofey Mukha and Mattias Liefvendahl. In Computers & Fluids, volume 156, pp 21-33, 2017. (DOI).
  105. Estimates for the upscaling error in heterogeneous multiscale methods for wave propagation problems in locally periodic media. Doghonay Arjmand and Olof Runborg. In Multiscale Modeling & simulation, volume 15, pp 948-976, 2017. (DOI).
  106. Vascular sprouts induce local attraction of proangiogenic neutrophils. Gustaf Christoffersson, Jalal Lomei, Paul O'Callaghan, Johan Kreuger, Stefan Engblom, and Mia Phillipson. In Journal of Leukocyte Biology, volume 102, pp 741-751, 2017. (DOI).
  107. Intra-body microwave communication through adipose tissue. Noor Badariah Asan, Daniel Noreland, Emadeldeen Hassan, Syaiful Redzwan, Anders Rydberg, Taco J. Blokhuis, Per-Ola Carlsson, Thiemo Voigt, and Robin Augustine. In Healthcare Technology Letters, volume 4, number 4, pp 115-121, 2017. (DOI, Fulltext, fulltext:print).
  108. Cost-aware application development and management using CLOUD-METRIC. Alieu Jallow, Andreas Hellander, and Salman Toor. In Proc. 7th International Conference on Cloud Computing and Services Science, pp 515-522, SciTePress, Setúbal, Portugal, 2017. (DOI).
  109. Oriented clonal cell dynamics enables accurate growth and shaping of vertebrate cartilage. Marketa Kaucka, Tomas Zikmund, Marketa Tesarova, Daniel Gyllborg, Andreas Hellander, Josef Jaros, Jozef Kaiser, Julian Petersen, Bara Szarowska, Phillip T. Newton, Vyacheslav Dyachuk, Lei Li, Hong Qian, Anne-Sofie Johansson, Yuji Mishina, Josh Currie, Elly M. Tanaka, Alek Erickson, Andrew Dudley, Hjalmar Brismar, Paul Southam, Enrico Coen, Min Chen, Lee S. Weinstein, Ales Hampl, Ernest Arenas, Andrei S. Chagin, Kaj Fried, and Igor Adameyko. In eLIFE, volume 6, 2017. (DOI, Fulltext).
  110. Large-scale virtual screening on public cloud resources with Apache Spark. Marco Capuccini, Laeeq Ahmed, Wesley Schaal, Erwin Laure, and Ola Spjuth. In Journal of Cheminformatics, volume 9, 2017. (DOI, Fulltext).
  111. A hybrid method for the imputation of genomic data in livestock populations. Roberto Antolín, Carl Nettelblad, Gregor Gorjanc, Daniel Money, and John M. Hickey. In Genetics Selection Evolution, volume 49, 2017. (DOI, Fulltext).
  112. Accurate and stable time stepping in ice sheet modeling. Gong Cheng, Per Lötstedt, and Lina von Sydow. In Journal of Computational Physics, volume 329, pp 29-47, 2017. (DOI, fulltext:postprint).
  113. A meshfree approach to non-Newtonian free surface ice flow: Application to the Haut Glacier d'Arolla. Josefin Ahlkrona and Victor Shcherbakov. In Journal of Computational Physics, volume 330, pp 633-649, 2017. (DOI).
  114. A flexible computational framework using R and Map-Reduce for permutation tests of massive genetic analysis of complex traits. Behrang Mahjani, Salman Toor, Carl Nettelblad, and Sverker Holmgren. In IEEE/ACM Transactions on Computational Biology & Bioinformatics, volume 14, pp 381-392, 2017. (DOI).
  115. Micromechanics of semicrystalline polymers: Towards quantitative predictions. Johannes A. W. van Dommelen, Mikhail Poluektov, Amin Sedighiamiri, and Leon E. Govaert. In Mechanics research communications, volume 80, pp 4-9, 2017. (DOI).
  116. GillesPy: A Python package for stochastic model building and simulation. John H. Abel, Brian Drawert, Andreas Hellander, and Linda R. Petzold. In IEEE Life Sciences Letters, volume 2, pp 35-38, 2016. (DOI, Fulltext).
  117. Preconditioned Metropolis sampling as a strategy to improve efficiency in posterior exploration. Stefan Engblom and Vikram Sunkara. In , volume 49:26 of IFAC-PapersOnLine, pp 89-94, 2016. (DOI).
  118. Stochastic Simulation Service: Bridging the gap between the computational expert and the biologist. Brian Drawert, Andreas Hellander, Ben Bales, Debjani Banerjee, Giovanni Bellesia, Bernie J. Daigle Jr., Geoffrey Douglas, Mengyuan Gu, Anand Gupta, Stefan Hellander, Chris Horuk, Dibyendu Nath, Aviral Takkar, Sheng Wu, Per Lötstedt, Chandra Krintz, and Linda R. Petzold. In PloS Computational Biology, volume 12, number 12, 2016. (DOI, Fulltext).
  119. Pricing of basket options using dimension reduction and adaptive finite differences in space, and discontinuous Galerkin in time. Lina von Sydow, Paria Ghafari, Erik Lehto, and Mats Wångersjö. In Numerical Mathematics and Advanced Applications: ENUMATH 2015, volume 112 of Lecture Notes in Computational Science and Engineering, pp 607-615, Springer, 2016. (DOI).
  120. Parameterless stopping criteria for recursive density matrix expansions. Anastasia Kruchinina, Elias Rudberg, and Emanuel H. Rubensson. In Journal of Chemical Theory and Computation, volume 12, pp 5788-5802, 2016. (DOI).
  121. A note on terminology in multigrid methods. Philipp Birken, Jonathan Bull, and Antony Jameson. In Proceedings in Applied Mathematics and Mechanics: PAMM, volume 16, number 1, pp 721-722, 2016. (DOI).
  122. Scale transitions in magnetisation dynamics. Mikhail Poluektov, Olle Eriksson, and Gunilla Kreiss. In Communications in Computational Physics, volume 20, pp 969-988, 2016. (DOI).
  123. An adaptive interpolation scheme for molecular potential energy surfaces. Markus Kowalewski, Elisabeth Larsson, and Alfa Heryudono. In Journal of Chemical Physics, volume 145, pp 084104:1-10, 2016. (DOI).
  124. Data-driven network modelling of disease transmission using complete population movement data: spread of VTEC O157 in Swedish cattle. Stefan Widgren, Stefan Engblom, Pavol Bauer, Jenny Frössling, Ulf Emanuelson, and Ann Lindberg. In Veterinary research (Print), volume 47, pp 81:1-17, 2016. (DOI, Fulltext).
  125. Analysis of neural crest-derived clones reveals novel aspects of facial development. Marketa Kaucka, Evgeny Ivashkin, Daniel Gyllborg, Tomas Zikmund, Marketa Tesarova, Jozef Kaiser, Meng Xie, Julian Petersen, Vassilis Pachnis, Silvia K. Nicolis, Tian Yu, Paul Sharpe, Ernest Arenas, Hjalmar Brismar, Hans Blom, Hans Clevers, Ueli Suter, Andrei S. Chagin, Kaj Fried, Andreas Hellander, and Igor Adameyko. In Science Advances, volume 2, number 8, pp e1600060:1-16, 2016. (DOI, Fulltext).
  126. A matrix-free Legendre spectral method for initial–boundary value problems. Bernd Brumm and Emil Kieri. In Electronic Transactions on Numerical Analysis, volume 45, pp 283-304, 2016. (Article).
  127. Locality-aware parallel block-sparse matrix–matrix multiplication using the Chunks and Tasks programming model. Emanuel H. Rubensson and Elias Rudberg. In Parallel Computing, volume 57, pp 87-106, 2016. (DOI, fulltext:postprint).
  128. A stabilized Nitsche cut element method for the wave equation. Simon Sticko and Gunilla Kreiss. In Computer Methods in Applied Mechanics and Engineering, volume 309, pp 364-387, 2016. (DOI).
  129. Graph-based linear scaling electronic structure theory. Anders M. N. Niklasson, Susan M. Mniszewski, Christian F. A. Negre, Marc J. Cawkwell, Pieter J. Swart, Jamal Mohd-Yusof, Timothy C. Germann, Michael E. Wall, Nicolas Bock, Emanuel H. Rubensson, and Hristo Djidjev. In Journal of Chemical Physics, volume 144, pp 234101:1-8, 2016. (DOI, Fulltext).
  130. Efficient computation of the quasi likelihood function for discretely observed diffusion processes. Lars Josef Höök and Erik Lindström. In Computational Statistics & Data Analysis, volume 103, pp 426-437, 2016. (DOI).
  131. A study of multigrid smoothers used in compressible CFD based on the convection diffusion equation. Philipp Birken, Jonathan Bull, and Antony Jameson. In Proc. 7th ECCOMAS Congress, pp 2648-2663, European Community on Computional Methods in Applied Sciences (ECCOMAS), 2016. (DOI).
  132. A direct solver for the advection–diffusion equation using Green's functions and low-rank approximation. Jonathan Bull, Stefan Engblom, and Sverker Holmgren. In Proc. 7th ECCOMAS Congress, pp 7302-7316, European Community on Computional Methods in Applied Sciences (ECCOMAS), 2016. (DOI).
  133. On grid resolution requirements for LES of wall-bounded flows. Saleh Rezaeiravesh, Mattias Liefvendahl, and Christer Fureby. In Proc. 7th ECCOMAS Congress, pp 7454-7465, European Community on Computional Methods in Applied Sciences (ECCOMAS), 2016. (DOI).
  134. MOLNs: A cloud platform for interactive, reproducible, and scalable spatial stochastic computational experiments in systems biology using PyURDME. Brian Drawert, Michael Trogdon, Salman Toor, Linda Petzold, and Andreas Hellander. In SIAM Journal on Scientific Computing, volume 38, pp C179-C202, 2016. (DOI).
  135. Mesoscopic modeling of stochastic reaction–diffusion kinetics in the subdiffusive regime. Emilie Blanc, Stefan Engblom, Andreas Hellander, and Per Lötstedt. In Multiscale Modeling & simulation, volume 14, pp 668-707, 2016. (DOI).
  136. Hummingbird: monitoring and analyzing flash X-ray imaging experiments in real time. Benedikt J. Daurer, Max F. Hantke, Carl Nettelblad, and Filipe R. N. C. Maia. In Journal of applied crystallography, volume 49, pp 1042-1047, 2016. (DOI, Fulltext).
  137. Fast event-based epidemiological simulations on national scales. Pavol Bauer, Stefan Engblom, and Stefan Widgren. In The international journal of high performance computing applications, volume 30, pp 438-453, 2016. (DOI, Fulltext).
  138. Radial basis function partition of unity operator splitting method for pricing multi-asset American options. Victor Shcherbakov. In BIT Numerical Mathematics, volume 56, pp 1401-1423, 2016. (DOI, fulltext:postprint).
  139. Fast Matlab compatible sparse assembly on multicore computers. Stefan Engblom and Dimitar Lukarski. In Parallel Computing, volume 56, pp 1-17, 2016. (DOI).
  140. Discretized dynamical low-rank approximation in the presence of small singular values. Emil Kieri, Christian Lubich, and Hanna Walach. In SIAM Journal on Numerical Analysis, volume 54, pp 1020-1038, 2016. (DOI, fulltext:print).
  141. A time dependent approach for removing the cell boundary error in elliptic homogenization problems. Doghonay Arjmand and Olof Runborg. In Journal of Computational Physics, volume 314, pp 206-227, 2016. (DOI).
  142. Scalable long-term preservation of relational data through SPARQL queries. Silvia Stefanova and Tore Risch. In Semantic Web, volume 7, number 2, pp 117-137, 2016. (DOI).
  143. Shallow ice approximation, second order shallow ice approximation, and full Stokes models: A discussion of their roles in palaeo-ice sheet modelling and development. Nina Kirchner, Josefin Ahlkrona, Evan J. Gowan, Per Lötstedt, James M. Lea, Riko Noormets, Lina von Sydow, Julian A. Dowdeswell, and Toby Benham. In Quaternary Science Reviews, volume 135, pp 103-114, 2016. (DOI).
  144. Micromechanical modeling of roll-to-roll processing of oriented polyethylene terephthalate films. Mikhail Poluektov, Johannes A. W. van Dommelen, Leon E. Govaert, Duncan H. MacKerron, and Marc G. D. Geers. In Journal of Applied Polymer Science, volume 133, number 18, pp 43384:1-11, 2016. (DOI).
  145. Segmentation and track-analysis in time-lapse imaging of bacteria. Sajith Kecheril Sadanandan, Özden Baltekin, Klas E. G. Magnusson, Alexis Boucharin, Petter Ranefall, Joakim Jaldén, Johan Elf, and Carolina Wählby. In IEEE Journal on Selected Topics in Signal Processing, volume 10, number 1, pp 174-184, 2016. (DOI).
  146. Analysis and design of jump coefficients in discrete stochastic diffusion models. Lina Meinecke, Stefan Engblom, Andreas Hellander, and Per Lötstedt. In SIAM Journal on Scientific Computing, volume 38, pp A55-A83, 2016. (DOI, fulltext:print).
  147. A method to measure moisture induced swelling properties of a single wood cell. Thomas Joffre, Per Isaksson, Pierre J. J. Dumont, Sabine Rolland du Roscoat, Simon Sticko, Laurent Orgéas, and E. Kristofer Gamstedt. In Experimental mechanics, volume 56, pp 723-733, 2016. (DOI).
  148. Dynamically coupling the non-linear Stokes equations with the shallow ice approximation in glaciology: Description and first applications of the ISCAL method. Josefin Ahlkrona, Per Lötstedt, Nina Kirchner, and Thomas Zwinger. In Journal of Computational Physics, volume 308, pp 1-19, 2016. (DOI, fulltext:postprint).
  149. Radial basis function partition of unity methods for pricing vanilla basket options. Victor Shcherbakov and Elisabeth Larsson. In Computers and Mathematics with Applications, volume 71, pp 185-200, 2016. (DOI, fulltext:postprint).
  150. Explicit filtering and exact reconstruction of the sub-filter stresses in large eddy simulation. Jonathan R. Bull and Antony Jameson. In Journal of Computational Physics, volume 306, pp 117-136, 2016. (DOI, fulltext:postprint).
  151. Preconditioning for radial basis function partition of unity methods. Alfa Heryudono, Elisabeth Larsson, Alison Ramage, and Lina von Sydow. In Journal of Scientific Computing, volume 67, pp 1089-1109, 2016. (DOI, fulltext:postprint).
  152. Evaluation of the deflated preconditioned CG method to solve bubbly and porous media flow problems on GPU and CPU. Rohit Gupta, Dimitar Lukarski, Martin B. van Gijzen, and Cornelis Vuik. In International Journal for Numerical Methods in Fluids, volume 80, pp 666-683, 2016. (DOI).
  153. Conformal prediction in Spark: Large-scale machine learning with confidence. Marco Capuccini, Lars Carlsson, Ulf Norinder, and Ola Spjuth. In Proc. 2nd International Symposium on Big Data Computing, pp 61-67, IEEE Computer Society, Los Alamitos, CA, 2015. (DOI).
  154. Strong convergence for split-step methods in stochastic jump kinetics. Stefan Engblom. In SIAM Journal on Numerical Analysis, volume 53, pp 2655-2676, 2015. (DOI, fulltext:print).
  155. Canonical density matrix perturbation theory. Anders M. N. Niklasson, Marc J. Cawkwell, Emanuel H. Rubensson, and Elias Rudberg. In Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, volume 92, pp 063301:1-8, 2015. (DOI, fulltext:print).
  156. Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks. Andreas Milias-Argeitis, Stefan Engblom, Pavol Bauer, and Mustafa Khammash. In Journal of the Royal Society Interface, volume 12, number 113, pp 20150831:1-10, 2015. (DOI, fulltext:postprint).
  157. SuperGlue: A shared memory framework using data versioning for dependency-aware task-based parallelization. Martin Tillenius. In SIAM Journal on Scientific Computing, volume 37, pp C617-C642, 2015. (DOI, fulltext:print).
  158. Adaptive finite differences and IMEX time-stepping to price options under Bates model. Lina von Sydow, Jari Toivanen, and Chi Zhang. In International Journal of Computer Mathematics, volume 92, pp 2515-2529, 2015. (DOI, fulltext:postprint).
  159. BENCHOP—The BENCHmarking project in Option Pricing. Lina von Sydow, Lars Josef Höök, Elisabeth Larsson, Erik Lindström, Slobodan Milovanovi?, Jonas Persson, Victor Shcherbakov, Yuri Shpolyanskiy, Samuel Sirén, Jari Toivanen, Johan Waldén, Magnus Wiktorsson, Jeremy Levesley, Juxi Li, Cornelis W. Oosterlee, Maria J. Ruijter, Alexander Toropov, and Yangzhang Zhao. In International Journal of Computer Mathematics, volume 92, pp 2361-2379, 2015. (DOI, fulltext:postprint).
  160. Coupling of Gaussian beam and finite difference solvers for semiclassical Schrödinger equations. Emil Kieri, Gunilla Kreiss, and Olof Runborg. In Advances in Applied Mathematics and Mechanics, volume 7, pp 687-714, 2015. (DOI, fulltext:postprint).
  161. Swedish eScience Education – a Graduate School in eScience. Anders Hast, Michael Hanke, and Hans O. Karlsson. In Proc. 11th International Conference on e-Science, pp 31-35, IEEE Computer Society, 2015. (DOI).
  162. Wave packet simulations of antiproton scattering on molecular hydrogen. Henrik Stegeby, Markus Kowalewski, Konrad Piszczatowski, and Hans O. Karlsson. In Journal of Physics B: Atomic, Molecular and Optical Physics, volume 48, number 19, pp 195204:1-7, 2015. (DOI).
  163. Imputation of single nucleotide polymorphism genotypes in biparental, backcross, and topcross populations with a hidden Markov model. John M. Hickey, Gregor Gorjanc, Rajeev K. Varshney, and Carl Nettelblad. In Crop science, volume 55, pp 1934-1946, 2015. (DOI, Fulltext).
  164. A scalable RBF–FD method for atmospheric flow. Martin Tillenius, Elisabeth Larsson, Erik Lehto, and Natasha Flyer. In Journal of Computational Physics, volume 298, pp 406-422, 2015. (DOI, fulltext:postprint).
  165. Numerical option pricing without oscillations using flux limiters. Per Lötstedt and Lina von Sydow. In Computers and Mathematics with Applications, volume 70, pp 1-10, 2015. (DOI, fulltext:postprint).
  166. Self-adaptive multiprecision preconditioners on multicore and manycore architectures. Hartwig Anzt, Dimitar Lukarski, Stanimire Tomov, and Jack Dongarra. In High Performance Computing for Computational Science – VECPAR 2014, volume 8969 of Lecture Notes in Computer Science, pp 115-123, Springer, 2015. (DOI).
  167. Accuracy of the Michaelis–Menten approximation when analysing effects of molecular noise. Michael J. Lawson, Linda Petzold, and Andreas Hellander. In Journal of the Royal Society Interface, volume 12, number 106, pp 20150054:1-10, 2015. (DOI, fulltext:postprint).
  168. Stiff convergence of force-gradient operator splitting methods. Emil Kieri. In Applied Numerical Mathematics, volume 94, pp 33-45, 2015. (DOI, fulltext:postprint).
  169. Reaction rates for mesoscopic reaction-diffusion kinetics. Stefan Hellander, Andreas Hellander, and Linda Petzold. In Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, volume 91, pp 023312:1-12, 2015. (DOI, fulltext:print).
  170. Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters. Tomas Ekeberg, Stefan Engblom, and Jing Liu. In The international journal of high performance computing applications, volume 29, pp 233-243, 2015. (DOI, fulltext:postprint).
  171. Data structures and algorithms for high-dimensional structured adaptive mesh refinement. Magnus Grandin. In Advances in Engineering Software, volume 82, pp 75-86, 2015. (DOI).
  172. Resource-aware task scheduling. Martin Tillenius, Elisabeth Larsson, Rosa M. Badia, and Xavier Martorell. In ACM Transactions on Embedded Computing Systems, volume 14, number 1, pp 5:1-25, 2015. (DOI, Fulltext).
  173. Stable difference methods for block-oriented adaptive grids. Anna Nissen, Katharina Kormann, Magnus Grandin, and Kristoffer Virta. In Journal of Scientific Computing, volume 65, pp 486-511, 2015. (DOI).
  174. Scaling predictive modeling in drug development with cloud computing. Behrooz Torabi Moghadam, Jonathan Alvarsson, Marcus Holm, Martin Eklund, Lars Carlsson, and Ola Spjuth. In Journal of Chemical Information and Modeling, volume 55, pp 19-25, 2015. (DOI).
  175. Sensitivity estimation and inverse problems in spatial stochastic models of chemical kinetics. Pavol Bauer and Stefan Engblom. In Numerical Mathematics and Advanced Applications: ENUMATH 2013, volume 103 of Lecture Notes in Computational Science and Engineering, pp 519-527, Springer, 2015. (DOI).
  176. A radial basis function partition of unity collocation method for convection–diffusion equations arising in financial applications. Ali Safdari-Vaighani, Alfa Heryudono, and Elisabeth Larsson. In Journal of Scientific Computing, volume 64, pp 341-367, 2015. (DOI, fulltext:postprint).
  177. Accelerating COBAYA3 on multi-core CPU and GPU systems using PARALUTION. Nico Trost, Javier Jiménez, Dimitar Lukarski, and Victor Sanchez. In Annals of Nuclear Energy, volume 82, pp 252-259, 2015. (DOI).
  178. Matrix-free finite-element operator application on graphics processing units. Karl Ljungkvist. In Euro-Par 2014: Parallel Processing Workshops, Part II, volume 8806 of Lecture Notes in Computer Science, pp 450-461, Springer, 2014. (DOI).
  179. CPU and GPU performance of large scale numerical simulations in Geophysics. Ali Dorostkar, Dimitar Lukarski, Björn Lund, Maya Neytcheva, Yvan Notay, and Peter Schmidt. In Euro-Par 2014: Parallel Processing Workshops, Part I, volume 8805 of Lecture Notes in Computer Science, pp 12-23, Springer, 2014. (DOI).
  180. On the stability of stochastic jump kinetics. Stefan Engblom. In Applied Mathematics, volume 5, pp 3217-3239, 2014. (DOI).
  181. Scientific data as RDF with arrays: Tight integration of SciSPARQL queries into MATLAB. Andrej Andrejev, Xueming He, and Tore Risch. In Proc. ISWC 2014 Posters &amp; Demonstrations Track, volume 1272 of CEUR Workshop Proceedings, pp 221-224, RWTH Aachen University, 2014. (Fulltext).
  182. An IMEX-scheme for pricing options under stochastic volatility models with jumps. Santtu Salmi, Jari Toivanen, and Lina von Sydow. In SIAM Journal on Scientific Computing, volume 36, pp B817-B834, 2014. (DOI).
  183. Impact of code refactoring using object-oriented methodology on a scientific computing application. Malin Källén, Sverker Holmgren, and Ebba þóra Hvannberg. In Proc. 14th International Working Conference on Source Code Analysis and Manipulation, pp 125-134, IEEE Computer Society, Los Alamitos, CA, 2014. (DOI).
  184. Automatic and portable cloud deployment for scientific simulations. Christopher B. Horuk, Geoffrey Douglas, Anand Gupta, Chandra Krintz, Ben Bales, Giovanni Bellesia, Brian Drawert, Rich Wolski, Linda Petzold, and Andreas Hellander. In Proc. 12th International Conference on High Performance Computing and Simulation, pp 374-381, IEEE, Piscataway, NJ, 2014. (DOI).
  185. Dynamic autotuning of adaptive fast multipole methods on hybrid multicore CPU and GPU systems. Marcus Holm, Stefan Engblom, Anders Goude, and Sverker Holmgren. In SIAM Journal on Scientific Computing, volume 36, pp C376-C399, 2014. (DOI).
  186. A cut finite element method for a Stokes interface problem. Peter Hansbo, Mats G. Larson, and Sara Zahedi. In Applied Numerical Mathematics, volume 85, pp 90-114, 2014. (DOI).
  187. Image segmentation and identification of paired antibodies in breast tissue. Jimmy C. Azar, Martin Simonsson, Ewert Bengtsson, and Anders Hast. In Computational & Mathematical Methods in Medicine, pp 647273:1-11, 2014. (DOI, Fulltext, fulltext:print).
  188. Approximations for the moments of nonstationary and state dependent birth–death queues. Stefan Engblom and Jamol Pender. In Computing Research Repository, number 1406.6164, 2014. (DOI, External link).
  189. Nucleophilic substitution dynamics: Comparing wave packet calculations with experiment. Markus Kowalewski, Jochen Mikosch, Roland Wester, and Regina de Vivie-Riedle. In Journal of Physical Chemistry A, volume 118, pp 4661-4669, 2014. (DOI).
  190. X-ray laser imaging of biomolecules using multiple GPUs. Stefan Engblom and Jing Liu. In Parallel Processing and Applied Mathematics: Part I, volume 8384 of Lecture Notes in Computer Science, pp 480-489, Springer-Verlag, Berlin, 2014. (DOI).
  191. On the impact of the heterogeneous multicore and many-core platforms on iterative solution methods and preconditioning techniques. Dimitar Lukarski and Maya Neytcheva. In High-Performance Computing on Complex Environments, pp 13-32, Wiley-Blackwell, Hoboken, NJ, 2014. (DOI).
  192. Interior eigenvalues from density matrix expansions in quantum mechanical molecular dynamics. Emanuel H. Rubensson and Anders M. N. Niklasson. In SIAM Journal on Scientific Computing, volume 36, pp B147-B170, 2014. (DOI, fulltext:postprint).
  193. Local error estimates for adaptive simulation of the reaction–diffusion master equation via operator splitting. Andreas Hellander, Michael J. Lawson, Brian Drawert, and Linda Petzold. In Journal of Computational Physics, volume 266, pp 89-100, 2014. (DOI).
  194. Accelerated convergence for Schrödinger equations with non-smooth potentials. Emil Kieri. In BIT Numerical Mathematics, volume 54, pp 729-748, 2014. (DOI, fulltext:postprint).
  195. Composition schemes for the stochastic differential equation describing collisional pitch-angle diffusion. Lars Josef Höök and Thomas Johnson. In Computer Physics Communications, volume 185, pp 590-594, 2014. (DOI).
  196. Stochastic reaction–diffusion processes with embedded lower-dimensional structures. Siyang Wang, Johan Elf, Stefan Hellander, and Per Lötstedt. In Bulletin of Mathematical Biology, volume 76, pp 819-853, 2014. (DOI).
  197. Chunks and Tasks: A programming model for parallelization of dynamic algorithms. Emanuel H. Rubensson and Elias Rudberg. In Parallel Computing, volume 40, pp 328-343, 2014. (DOI).
  198. Accuracy of the zeroth- and second-order shallow-ice approximation: numerical and theoretical results. Josefin Ahlkrona, Nina Kirchner, and Per Lötstedt. In Geoscientific Model Development, volume 6, pp 2135-2152, 2013. (DOI).
  199. A Galerkin radial basis function method for the Schrödinger equation. Katharina Kormann and Elisabeth Larsson. In SIAM Journal on Scientific Computing, volume 35, pp A2832-A2855, 2013. (DOI).
  200. Scientific analysis by queries in extended SPARQL over a scalable e-Science data store. Andrej Andrejev, Salman Toor, Andreas Hellander, Sverker Holmgren, and Tore Risch. In Proc. 9th International Conference on e-Science, pp 98-106, IEEE Computer Society, Los Alamitos, CA, 2013. (DOI).
  201. On discontinuous Galerkin for time integration in option pricing problems with adaptive finite differences in space. Lina von Sydow. In Numerical Analysis and Applied Mathematics: ICNAAM 2013, volume 1558 of AIP Conference Proceedings, pp 2373-2376, American Institute of Physics (AIP), Melville, NY, 2013. (DOI).
  202. MAPfastR: Quantitative trait loci mapping in outbred line crosses. Ronald M. Nelson, Carl Nettelblad, Mats E. Pettersson, Xia Shen, Lucy Crooks, François Besnier, José Álvarez-Castro, Lars Rönnegård, Weronica Ek, Zheya Sheng, Marcin Kierczak, Sverker Holmgren, and Örjan Carlborg. In G3: Genes, Genomes, Genetics, volume 3, pp 2147-2149, 2013. (DOI, Fulltext).
  203. A numerical study of scaling relations for non-Newtonian thin-film flows with applications in ice sheet modelling. Josefin Ahlkrona, Nina Kirchner, and Per Lötstedt. In Quarterly Journal of Mechanics and Applied Mathematics, volume 66, pp 417-435, 2013. (DOI).
  204. Fast and accurate detection of multiple quantitative trait loci. Carl Nettelblad, Behrang Mahjani, and Sverker Holmgren. In Journal of Computational Biology, volume 20, pp 687-702, 2013. (DOI).
  205. Accurate surface embedding for higher order finite elements. Stefan Suwelack, Dimitar Lukarski, Vincent Heuveline, Rüdiger Dillmann, and Stefanie Speidel. In Proc. 12th ACM SIGGRAPH/Eurographics Symposium on Computer Animation, pp 187-192, ACM Press, New York, 2013. (DOI).
  206. Model-based validation of streaming data. Cheng Xu, Daniel Wedlund, Martin Helgoson, and Tore Risch. In Proc. 7th ACM International Conference on Distributed Event-Based Systems, pp 107-113, ACM Press, New York, 2013. (DOI).
  207. Single molecule simulations in complex geometries with embedded dynamic one-dimensional structures. Stefan Hellander. In Journal of Chemical Physics, volume 139, pp 014103:1-11, 2013. (DOI).
  208. Radial basis function methods in computational finance. Elisabeth Larsson, Sônia M. Gomes, Alfa Heryudono, and Ali Safdari-Vaighani. In Proc. 13th International Conference on Computational and Mathematical Methods in Science and Engineering: Volume III, pp 895-906, Universidad de Almería, Spain, 2013.
  209. Scalable reconstruction of RDF-archived relational databases. Silvia Stefanova and Tore Risch. In Proc. 5th International Workshop on Semantic Web Information Management, pp 5:1-4, ACM Press, New York, 2013. (DOI).
  210. Iterative methods for pricing American options under the Bates model. Santtu Salmi, Jari Toivanen, and Lina von Sydow. In Procedia Computer Science, volume 18, pp 1136-1144, 2013. (DOI).
  211. Preface: e-Science Applications and Tools. Erwin Laure and Sverker Holmgren. In Future Generation Computer Systems, volume 29, number 8, pp 2115-2116, 2013. (DOI).
  212. Transcription factor binding kinetics constrain noise suppression via negative feedback. Andreas Grönlund, Per Lötstedt, and Johan Elf. In Nature Communications, volume 4, pp 1864:1-5, 2013. (DOI).
  213. Breakdown of methods for phasing and imputation in the presence of double genotype sharing. Carl Nettelblad. In PLOS ONE, volume 8, pp e60354:1-5, 2013. (DOI, fulltext:print).
  214. Molecular wave packet dynamics decelerated by solvent environment: A theoretical approach. Sebastian Thallmair, Markus Kowalewski, Benjamin P. Fingerhut, Christian F. Sailer, and Regina de Vivie-Riedle. In Proc. 18th International Conference on Ultrafast Phenomena, volume 41 of EPJ Web of Conferences, pp 05043:1-3, EDP Sciences, 2013. (DOI).
  215. Femtosecond pump-probe spectroscopy for single trapped molecular ions. Markus Kowalewski, Steffen Kahra, Günther Leschhorn, Tobias Schätz, and Regina de Vivie-Riedle. In Proc. 18th International Conference on Ultrafast Phenomena, volume 41 of EPJ Web of Conferences, pp 02028:1-3, EDP Sciences, 2013. (DOI).
  216. Parallel implementation of the Sherman–Morrison matrix inverse algorithm. Xin He, Marcus Holm, and Maya Neytcheva. In Applied Parallel and Scientific Computing, volume 7782 of Lecture Notes in Computer Science, pp 206-219, Springer-Verlag, Berlin, 2013. (DOI).
  217. A uniformly well-conditioned, unfitted Nitsche method for interface problems. Eddie Wadbro, Sara Zahedi, Gunilla Kreiss, and Martin Berggren. In BIT Numerical Mathematics, volume 53, pp 791-820, 2013. (DOI).
  218. High-throughput gene expression analysis at the level of single proteins using a microfluidic turbidostat and automated cell tracking. Gustaf Ullman, Mats Walldén, Erik G. Marklund, Anel Mahmutovic, Ivan Razinkov, and Johan Elf. In Philosophical Transactions of the Royal Society of London. Biological Sciences, volume 368, number 1611, pp 20120025:1-8, 2013. (DOI).
  219. Control of shallow water and sediment continuity coupled system. Ababacar Diagne and Abdou Sène. In MCSS. Mathematics of Control, Signals and Systems, volume 25, pp 387-406, 2013. (DOI).
  220. Adaptive fast multipole methods on the GPU. Anders Goude and Stefan Engblom. In Journal of Supercomputing, volume 63, pp 897-918, 2013. (DOI).
  221. Efficient sampling in event-driven algorithms for reaction-diffusion processes. Mohammad Hossein Bani-Hashemian, Stefan Hellander, and Per Lötstedt. In Communications in Computational Physics, volume 13, pp 958-984, 2013. (DOI).
  222. High order stable finite difference methods for the Schrödinger equation. Anna Nissen, Gunilla Kreiss, and Margot Gerritsen. In Journal of Scientific Computing, volume 55, pp 173-199, 2013. (DOI).
  223. Programming models based on data versioning for dependency-aware task-based parallelisation. Afshin Zafari, Martin Tillenius, and Elisabeth Larsson. In Proc. 15th International Conference on Computational Science and Engineering, pp 275-280, IEEE Computer Society, Los Alamitos, CA, 2012. (DOI).
  224. Inferring haplotypes and parental genotypes in larger full sib-ships and other pedigrees with missing or erroneous genotype data. Carl Nettelblad. In BMC Genetics, volume 13, pp 85:1-13, 2012. (DOI, fulltext:print).
  225. Scientific SPARQL: Semantic web queries over scientific data. Andrej Andrejev and Tore Risch. In Proc. 28th International Conference on Data Engineering Workshops, pp 5-10, IEEE Computer Society, 2012. (DOI).
  226. Investigating an open source cloud storage infrastructure for CERN-specific data analysis. Salman Toor, Rainer Töebbicke, Maitane Zotes Resines, and Sverker Holmgren. In Proc. 7th International Conference on Networking, Architecture, and Storage, pp 84-88, IEEE Computer Society, Los Alamitos, CA, 2012. (DOI).
  227. Scalable ordered indexing of streaming data. Sobhan Badiozamany and Tore Risch. In 3rd International Workshop on Accelerating Data Management Systems using Modern Processor and Storage Architectures, p 11, 2012. (Fulltext).
  228. An adaptive pseudospectral method for wave packet dynamics. Emil Kieri, Sverker Holmgren, and Hans O. Karlsson. In Journal of Chemical Physics, volume 137, pp 044111:1-12, 2012. (DOI, fulltext:print).
  229. URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries. Brian Drawert, Stefan Engblom, and Andreas Hellander. In BMC Systems Biology, volume 6, pp 76:1-17, 2012. (DOI).
  230. Reducing complexity in management of eScience computations. Per-Olov Östberg, Andreas Hellander, Brian Drawert, Erik Elmroth, Sverker Holmgren, and Linda Petzold. In Proc. 12th International Symposium on Cluster, Cloud and Grid Computing, pp 845-852, IEEE Computer Society, Los Alamitos, CA, 2012. (DOI).
  231. Coupled mesoscopic and microscopic simulation of stochastic reaction-diffusion processes in mixed dimensions. Andreas Hellander, Stefan Hellander, and Per Lötstedt. In Multiscale Modeling & simulation, volume 10, pp 585-611, 2012. (DOI).
  232. A generic interface for parallel cell-based finite element operator application. Martin Kronbichler and Katharina Kormann. In Computers & Fluids, volume 63, pp 135-147, 2012. (DOI).
  233. Reaction-diffusion master equation in the microscopic limit. Stefan Hellander, Andreas Hellander, and Linda Petzold. In Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, volume 85, pp 042901:1-5, 2012. (DOI).
  234. Stability at nonconforming grid interfaces for a high order discretization of the Schrödinger equation. Anna Nissen, Gunilla Kreiss, and Margot Gerritsen. In Journal of Scientific Computing, volume 53, pp 528-551, 2012. (DOI).
  235. Coherent estimates of genetic effects with missing information. Carl Nettelblad, Örjan Carlborg, Ania Pino-Querido, and José M. Álvarez-Castro. In Open Journal of Genetics, volume 2, pp 31-38, 2012. (DOI, Fulltext).
  236. Performance and stability of the Chelonia storage system. Jon Kerr Nilsen, Salman Toor, Zsombor Nagy, Bjarte Mohn, and Alex Read. In Proc. International Symposium on Grids and Clouds 2012, volume 153 of Proceedings of Science, pp 009:1-14, SISSA, Trieste, Italy, 2012.
  237. Efficiently implementing Monte Carlo electrostatics simulations on multicore accelerators. Marcus Holm and Sverker Holmgren. In Applied Parallel and Scientific Computing: Part II, volume 7134 of Lecture Notes in Computer Science, pp 379-388, Springer-Verlag, Berlin, 2012. (DOI).
  238. Communication-efficient algorithms for numerical quantum dynamics. Magnus Gustafsson, Katharina Kormann, and Sverker Holmgren. In Applied Parallel and Scientific Computing: Part II, volume 7134 of Lecture Notes in Computer Science, pp 368-378, Springer-Verlag, Berlin, 2012. (DOI).
  239. Abstractions for scaling eScience applications to distributed computing environments: A StratUm integration case study in molecular systems biology. Per-Olov Östberg, Andreas Hellander, Brian Drawert, Erik Elmroth, Sverker Holmgren, and Linda Petzold. In Proc. 3rd International Conference on Bioinformatics Models, Methods and Algorithms, pp 290-294, SciTePress, Setúbal, Portugal, 2012. (DOI).
  240. Controlling errors in recursive Fermi–Dirac operator expansions with applications in electronic structure theory. Emanuel H. Rubensson. In SIAM Journal on Scientific Computing, volume 34, pp B1-B23, 2012. (DOI, fulltext:postprint).
  241. Comment on "On the optimal symmetric purification scheme of the one-particle density matrix" [Chem. Phys. Lett. 511 (2011) 159–160]. Emanuel H. Rubensson. In Chemical Physics Letters, volume 527, pp 84-85, 2012. (DOI).
  242. Difficulties in applying pure Kohn–Sham density functional theory electronic structure methods to protein molecules. Elias Rudberg. In Journal of Physics: Condensed Matter, volume 24, pp 072202:1-7, 2012. (DOI).
  243. Spurious currents in finite element based level set methods for two-phase flow. Sara Zahedi, Martin Kronbichler, and Gunilla Kreiss. In International Journal for Numerical Methods in Fluids, volume 69, pp 1433-1456, 2012. (DOI).
  244. Derivation of strictly stable high order difference approximations for variable-coefficient PDE. Katharina Kormann, Martin Kronbichler, and Bernhard Müller. In Journal of Scientific Computing, volume 50, pp 167-197, 2012. (DOI).
  245. Parallel finite element operator application: Graph partitioning and coloring. Katharina Kormann and Martin Kronbichler. In Proc. 7th International Conference on e-Science, pp 332-339, IEEE Computer Society, Los Alamitos, CA, 2011. (DOI).
  246. A scalable architecture for e-Science data management. Salman Toor, Manivasakan Sabesan, Sverker Holmgren, and Tore Risch. In Proc. 7th International Conference on e-Science, pp 210-217, IEEE Computer Society, Los Alamitos, CA, 2011. (DOI).
  247. Chelonia: A self-healing, replicated storage system. Jon Kerr Nilsen, Salman Toor, Zsombor Nagy, and Alex Read. In Computing in High Energy and Nuclear Physics: CHEP 2010, volume 331 of Journal of Physics: Conference Series, pp 062019:1-6, Institute of Physics Publishing (IOPP), Bristol, UK, 2011. (DOI).
  248. Radial basis functions for the time-dependent Schrödinger equation. Katharina Kormann and Elisabeth Larsson. In Numerical Analysis and Applied Mathematics: ICNAAM 2011, volume 1389 of AIP Conference Proceedings, pp 1323-1326, American Institute of Physics (AIP), Melville, NY, 2011. (DOI).
  249. Using hardware transactional memory for high-performance computing. Karl Ljungkvist, Martin Tillenius, David Black-Schaffer, Sverker Holmgren, Martin Karlsson, and Elisabeth Larsson. In Proc. 25th International Symposium on Parallel and Distributed Processing Workshops and PhD Forum, pp 1660-1667, IEEE, Piscataway, NJ, 2011. (DOI).
  250. Delay-induced anomalous fluctuations in intracellular regulation. Andreas Grönlund, Per Lötstedt, and Johan Elf. In Nature Communications, volume 2, pp 419:1-7, 2011. (DOI).
  251. On well-separated sets and fast multipole methods. Stefan Engblom. In Applied Numerical Mathematics, volume 61, pp 1096-1102, 2011. (DOI).
  252. An improved method for estimating chromosomal line origin in QTL analysis of crosses between outbred lines. Lucy Crooks, Carl Nettelblad, and Örjan Carlborg. In G3: Genes, Genomes, Genetics, volume 1, pp 57-64, 2011. (DOI).
  253. Nonmonotonic recursive polynomial expansions for linear scaling calculation of the density matrix. Emanuel H. Rubensson. In Journal of Chemical Theory and Computation, volume 7, pp 1233-1236, 2011. (DOI).
  254. Methods for Hartree–Fock and density functional theory electronic structure calculations with linearly scaling processor time and memory usage. Emanuel H. Rubensson, Elias Rudberg, and Pawel Salek. In Linear-Scaling Techniques in Computational Chemistry and Physics: Methods and Applications, pp 263-300, Springer, Dordrecht, The Netherlands, 2011. (DOI).
  255. Flexible single molecule simulation of reaction-diffusion processes. Stefan Hellander and Per Lötstedt. In Journal of Computational Physics, volume 230, pp 3948-3965, 2011. (DOI).
  256. Global error control of the time-propagation for the Schrödinger equation with a time-dependent Hamiltonian. Katharina Kormann, Sverker Holmgren, and Hans O. Karlsson. In Journal of Computational Science, volume 2, pp 178-187, 2011. (DOI).
  257. Assessment of density matrix methods for linear scaling electronic structure calculations. Elias Rudberg and Emanuel H. Rubensson. In Journal of Physics: Condensed Matter, volume 23, pp 075502:1-10, 2011. (DOI).
  258. Bringing about matrix sparsity in linear-scaling electronic structure calculations. Emanuel H. Rubensson and Elias Rudberg. In Journal of Computational Chemistry, volume 32, pp 1411-1423, 2011. (DOI).
  259. Kohn–Sham density functional theory electronic structure calculations with linearly scaling computational time and memory usage. Elias Rudberg, Emanuel H. Rubensson, and Pawel Salek. In Journal of Chemical Theory and Computation, volume 7, pp 340-350, 2011. (DOI).
  260. An optimized perfectly matched layer for the Schrödinger equation. Anna Nissen and Gunilla Kreiss. In Communications in Computational Physics, volume 9, pp 147-179, 2011. (DOI).
  261. Adaptive parallelization of queries calling dependent data providing web services. Manivasakan Sabesan and Tore Risch. In New Frontiers in Information and Software as Services: Service and Application Design Challenges in the Cloud, volume 74 of Lecture Notes in Business Information Processing, pp 132-154, Springer-Verlag, Berlin, 2011. (DOI).
  262. Haplotype inference based on hidden Markov models in the QTL–MAS 2010 multigenerational dataset. Carl Nettelblad. In Proc. 14th European Workshop on QTL Mapping and Marker Assisted Selection, volume 5:3 of BMC Proceedings, pp S10:1-7, BioMed Central, London, 2011. (DOI).
  263. The next-generation ARC middleware. Owen Appleton, David Cameron, Jozef Cernák, Péter Dóbé, Mattias Ellert, Thomas Frågåt, Michael Grønager, Daniel Johansson, Johan Jönemo, Josva Kleist, Marek Kocan, Aleksandr Konstantinov, Balázs Kónya, Iván Márton, Bjarte Mohn, Steffen Möller, Henning Müller, Zsombor Nagy, Jon K. Nilsen, Farid Ould-Saada, Katarina Pajchel, Weizhong Qiang, Alexander Read, Peter Rosendahl, Gábor Röczei, Martin Savko, Martin Skou Andersen, Oxana Smirnova, Péter Stefán, Ferenc Szalai, Adrian Taga, Salman Z. Toor, Anders Wäänänen, and Xin Zhou. In Annales des télécommunications, volume 65, pp 771-776, 2010. (DOI).
  264. Scalable Splitting of Massive Data Streams. Erik Zeitler and Tore Risch. In Database Systems for Advanced Applications: Part II, volume 5982 of Lecture Notes in Computer Science, pp 184-198, Springer-Verlag, Berlin, 2010. (DOI, fulltext).
  265. Error control for simulations of a dissociative quantum system. Katharina Kormann and Anna Nissen. In Numerical Mathematics and Advanced Applications: 2009, pp 523-531, Springer-Verlag, Berlin, 2010. (DOI).
  266. An implementation framework for solving high-dimensional PDEs on massively parallel computers. Magnus Gustafsson and Sverker Holmgren. In Numerical Mathematics and Advanced Applications: 2009, pp 417-424, Springer-Verlag, Berlin, 2010. (DOI).
  267. Stable perfectly matched layers for the Schrödinger equations. Kenneth Duru and Gunilla Kreiss. In Numerical Mathematics and Advanced Applications: 2009, pp 287-295, Springer-Verlag, Berlin, 2010. (DOI).
  268. Incorporating active transport of cellular cargo in stochastic mesoscopic models of living cells. Andreas Hellander and Per Lötstedt. In Multiscale Modeling & simulation, volume 8, pp 1691-1714, 2010. (DOI).
  269. A perfectly matched layer applied to a reactive scattering problem. Anna Nissen, Hans O. Karlsson, and Gunilla Kreiss. In Journal of Chemical Physics, volume 133, pp 054306:1-11, 2010. (DOI).
  270. Automated Web Service Query Service. Manivasakan Sabesan, Tore Risch, and Feng Luan. In International Journal of Web and Grid Services (IJWGS), volume 6, number 4, pp 400-423, 2010. (DOI).
  271. A Fourier-coefficient based solution of an optimal control problem in quantum chemistry. Katharina Kormann, Sverker Holmgren, and Hans O. Karlsson. In Journal of Optimization Theory and Applications, volume 147, pp 491-506, 2010. (DOI).
  272. An efficient task-based approach for solving the <em>n</em>-body problem on multicore architectures. Martin Tillenius and Elisabeth Larsson. PARA 2010: State of the Art in Scientific and Parallel Computing, University of Iceland, Reykjavík, 2010. (fulltext:postprint).
  273. Costs and constraints from time-delayed feedback in small gene regulatory motifs. Andreas Grönlund, Per Lötstedt, and Johan Elf. In Proceedings of the National Academy of Sciences of the United States of America, volume 107, pp 8171-8176, 2010. (DOI).
  274. SPARQL queries to RDFS views of Topic Maps. Silvia Stefanova and Tore Risch. In International Journal of Metadata, Semantics and Ontologies (IJMSO), volume 5, number 1, pp 1-16, Inderscience, 2010. (DOI).
  275. Chelonia — a self-healing storage cloud. Jon K. Nilsen, Salman Toor, Zsombor Nagy, and Bjarte Mohn. In Proc. 9th Cracow Grid Workshop, pp 5-12, ACC Cyfronet AGH, Kraków, Poland, 2010.
  276. Assessing a multiple QTL search using the variance component model. Kateryna Mishchenko, Lars Rönnegård, Sverker Holmgren, and Volodymyr Mishchenko. In Computational biology and chemistry (Print), volume 34, pp 34-41, 2010. (DOI).
  277. A Grid-Enabled Problem Solving Environment for QTL Analysis in R. Mahen Jayawardena, Carl Nettelblad, Salman Toor, Per-Olov Östberg, Erik Elmroth, and Sverker Holmgren. In Proc. 2nd International Conference on Bioinformatics and Computational Biology, pp 202-209, ISCA, Cary, NC, 2010.
  278. CellMC: a multiplatform model compiler for the Cell Broadband Engine and x86. Emmet Caulfield and Andreas Hellander. In Bioinformatics, volume 26, pp 426-428, 2010. (DOI).
  279. An adaptive algorithm for simulation of stochastic reaction-diffusion processes. Lars Ferm, Andreas Hellander, and Per Lötstedt. In Journal of Computational Physics, volume 229, pp 343-360, 2010. (DOI).
  280. Efficient algorithms for multidimensional global optimization in genetic mapping of complex traits. Kajsa Ljungberg, Kateryna Mishchenko, and Sverker Holmgren. In Advances and Applications in Bioinformatics and Chemistry, volume 3, pp 75-88, 2010. (DOI).

Unrefereed

Theses

Updated  2011-01-28 13:18:38 by Kurt Otto.