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Andreas Hellander
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Journal Articles
- 2024
- [j27]Tianru Zhang
, Ankit Gupta, María Andreína Francisco Rodríguez, Ola Spjuth
, Andreas Hellander, Salman Toor:
Data management of scientific applications in a reinforcement learning-based hierarchical storage system. Expert Syst. Appl. 237(Part B): 121443 (2024) - [j26]Sadi Alawadi
, Addi Ait-Mlouk, Salman Toor, Andreas Hellander:
Toward efficient resource utilization at edge nodes in federated learning. Prog. Artif. Intell. 13(2): 101-117 (2024) - 2023
- [j25]Sonja Mathias
, Igor Adameyko, Andreas Hellander, Jochen Kursawe
:
Contributions of cell behavior to geometric order in embryonic cartilage. PLoS Comput. Biol. 19(11) (2023) - [j24]Tianru Zhang
, Andreas Hellander, Salman Toor
:
Efficient Hierarchical Storage Management Empowered by Reinforcement Learning. IEEE Trans. Knowl. Data Eng. 35(6): 5780-5793 (2023) - 2022
- [j23]Sonja Mathias
, Adrien Coulier, Andreas Hellander:
CBMOS: a GPU-enabled Python framework for the numerical study of center-based models. BMC Bioinform. 23(1): 55 (2022) - [j22]Richard M. Jiang
, Prashant Singh
, Fredrik Wrede
, Andreas Hellander
, Linda R. Petzold
:
Identification of dynamic mass-action biochemical reaction networks using sparse Bayesian methods. PLoS Comput. Biol. 18(1) (2022) - [j21]Adrien Coulier, Prashant Singh
, Marc Sturrock
, Andreas Hellander
:
Systematic comparison of modeling fidelity levels and parameter inference settings applied to negative feedback gene regulation. PLoS Comput. Biol. 18(12): 1010683 (2022) - [j20]Mattias Åkesson, Prashant Singh
, Fredrik Wrede, Andreas Hellander:
Convolutional Neural Networks as Summary Statistics for Approximate Bayesian Computation. IEEE ACM Trans. Comput. Biol. Bioinform. 19(6): 3353-3365 (2022) - 2021
- [j19]Prashant Singh, Fredrik Wrede, Andreas Hellander:
Scalable machine learning-assisted model exploration and inference using Sciope. Bioinform. 37(2): 279-281 (2021) - [j18]Richard M. Jiang, Bruno Jacob, Matthew Geiger, Sean Matthew, Bryan Rumsey, Prashant Singh, Fredrik Wrede, Tau-Mu Yi, Brian Drawert
, Andreas Hellander, Linda R. Petzold:
Epidemiological modeling in StochSS Live! Bioinform. 37(17): 2787-2788 (2021) - [j17]Richard M. Jiang
, Fredrik Wrede, Prashant Singh, Andreas Hellander, Linda R. Petzold:
Accelerated regression-based summary statistics for discrete stochastic systems via approximate simulators. BMC Bioinform. 22(1): 339 (2021) - 2019
- [j16]Fredrik Wrede, Andreas Hellander:
Smart computational exploration of stochastic gene regulatory network models using human-in-the-loop semi-supervised learning. Bioinform. 35(24): 5199-5206 (2019) - 2018
- [j15]Kristiina Ausmees
, Aji John, Salman Zubair Toor, Andreas Hellander, Carl Nettelblad
:
BAMSI: a multi-cloud service for scalable distributed filtering of massive genome data. BMC Bioinform. 19(1): 240:1-240:11 (2018) - 2017
- [j14]Andreas Hellander, Jan Klosa
, Per Lötstedt, Shev MacNamara:
Robustness Analysis of Spatiotemporal Models in the Presence of Extrinsic Fluctuations. SIAM J. Appl. Math. 77(4): 1157-1183 (2017) - 2016
- [j13]Emilie Blanc, Stefan Engblom
, Andreas Hellander
, Per Lötstedt:
Mesoscopic Modeling of Stochastic Reaction-Diffusion Kinetics in the Subdiffusive Regime. Multiscale Model. Simul. 14(2): 668-707 (2016) - [j12]Brian Drawert
, Andreas Hellander, Benjamin B. Bales, Debjani Banerjee, Giovanni Bellesia, Bernie J. Daigle Jr., Geoffrey Douglas, Mengyuan Gu, Anand Gupta, Stefan Hellander, Christopher B. Horuk, Dibyendu Nath, Aviral Takkar, Sheng Wu
, Per Lötstedt, Chandra Krintz
, Linda R. Petzold:
Stochastic Simulation Service: Bridging the Gap between the Computational Expert and the Biologist. PLoS Comput. Biol. 12(12) (2016) - [j11]Lina Meinecke, Stefan Engblom
, Andreas Hellander
, Per Lötstedt:
Analysis and Design of Jump Coefficients in Discrete Stochastic Diffusion Models. SIAM J. Sci. Comput. 38(1) (2016) - [j10]Brian Drawert, Michael Trogdon, Salman Zubair Toor, Linda R. Petzold, Andreas Hellander
:
MOLNs: A Cloud Platform for Interactive, Reproducible, and Scalable Spatial Stochastic Computational Experiments in Systems Biology Using PyURDME. SIAM J. Sci. Comput. 38(3) (2016) - 2014
- [j9]Andreas Hellander
, Michael J. Lawson, Brian Drawert, Linda R. Petzold:
Local error estimates for adaptive simulation of the reaction-diffusion master equation via operator splitting. J. Comput. Phys. 266: 89-100 (2014) - 2012
- [j8]Brian Drawert, Stefan Engblom
, Andreas Hellander
:
URDME: a modular framework for stochastic simulation of reaction-transport processes in complex geometries. BMC Syst. Biol. 6: 76 (2012) - [j7]Andreas Hellander
, Stefan Hellander, Per Lötstedt:
Coupled Mesoscopic and Microscopic Simulation of Stochastic Reaction-Diffusion Processes in Mixed Dimensions. Multiscale Model. Simul. 10(2): 585-611 (2012) - 2010
- [j6]Emmet Caulfield
, Andreas Hellander
:
CellMC - a multiplatform model compiler for the Cell Broadband Engine and x86. Bioinform. 26(3): 426-428 (2010) - [j5]Lars Ferm, Andreas Hellander
, Per Lötstedt:
An adaptive algorithm for simulation of stochastic reaction-diffusion processes. J. Comput. Phys. 229(2): 343-360 (2010) - [j4]Andreas Hellander
, Per Lötstedt:
Incorporating Active Transport of Cellular Cargo in Stochastic Mesoscopic Models of Living Cells. Multiscale Model. Simul. 8(5): 1691-1714 (2010) - 2009
- [j3]Stefan Engblom
, Lars Ferm, Andreas Hellander
, Per Lötstedt:
Simulation of Stochastic Reaction-Diffusion Processes on Unstructured Meshes. SIAM J. Sci. Comput. 31(3): 1774-1797 (2009) - 2008
- [j2]Lars Ferm, Per Lötstedt, Andreas Hellander
:
A Hierarchy of Approximations of the Master Equation Scaled by a Size Parameter. J. Sci. Comput. 34(2): 127-151 (2008) - 2007
- [j1]Andreas Hellander
, Per Lötstedt:
Hybrid method for the chemical master equation. J. Comput. Phys. 227(1): 100-122 (2007)
Conference and Workshop Papers
- 2023
- [c16]Tianru Zhang, Andreas Hellander, Salman Toor:
Efficient Hierarchical Storage Management Empowered by Reinforcement Learning Extended Abstract. ICDE 2023: 3869-3870 - 2022
- [c15]Morgan Ekmefjord, Addi Ait-Mlouk, Sadi Alawadi, Mattias Åkesson, Prashant Singh, Ola Spjuth, Salman Toor, Andreas Hellander:
Scalable federated machine learning with FEDn. CCGRID 2022: 555-564 - [c14]Fredrik Wrede, Robin Eriksson, Richard M. Jiang, Linda R. Petzold, Stefan Engblom, Andreas Hellander, Prashant Singh:
Robust and integrative Bayesian neural networks for likelihood-free parameter inference. IJCNN 2022: 1-10 - 2020
- [c13]Oliver Stein, Ben Blamey
, Johan Karlsson, Alan Sabirsh, Ola Spjuth, Andreas Hellander, Salman Toor:
Smart Resource Management for Data Streaming using an Online Bin-packing Strategy. IEEE BigData 2020: 2207-2216 - 2019
- [c12]Ben Blamey
, Andreas Hellander
, Salman Toor
:
Apache Spark Streaming, Kafka and HarmonicIO: A Performance Benchmark and Architecture Comparison for Enterprise and Scientific Computing. Bench 2019: 335-347 - [c11]Ben Blamey
, Fredrik Wrede, Johan Karlsson, Andreas Hellander, Salman Toor:
Adapting the Secretary Hiring Problem for Optimal Hot-Cold Tier Placement Under Top-K Workloads. CCGRID 2019: 576-583 - 2018
- [c10]Preechakorn Torruangwatthana, Håkan Wieslander
, Ben Blamey
, Andreas Hellander, Salman Zubair Toor:
HarmonicIO: Scalable Data Stream Processing for Scientific Datasets. IEEE CLOUD 2018: 879-882 - [c9]Adrien Coulier, Andreas Hellander:
Orchestral: A Lightweight Framework for Parallel Simulations of Cell-Cell Communication. eScience 2018: 168-176 - [c8]Prashant Singh, Andreas Hellander:
Hyperparameter Optimization for Approximate Bayesian Computation. WSC 2018: 1718-1729 - 2017
- [c7]Alieu Jallow, Andreas Hellander, Salman Zubair Toor:
Cost-aware Application Development and Management using CLOUD-METRIC. CLOSER 2017: 487-494 - [c6]Salman Zubair Toor, Mathias Lindberg, Ingemar Falman, Andreas Vallin, Olof Mohill, Pontus Freyhult, Linus Nilsson, Martin Agback, Lars Viklund, Henric Zazzik, Ola Spjuth, Marco Capuccini
, Joakim Moller, Donal Murtagh, Andreas Hellander:
SNIC Science Cloud (SSC): A National-Scale Cloud Infrastructure for Swedish Academia. eScience 2017: 219-227 - [c5]Prashant Singh, Andreas Hellander:
Surrogate assisted model reduction for stochastic biochemical reaction networks. WSC 2017: 1773-1783 - 2014
- [c4]Christopher B. Horuk, Geoffrey Douglas, Anand Gupta, Chandra Krintz, Benjamin B. Bales, Giovanni Bellesia, Brian Drawert, Rich Wolski, Linda R. Petzold, Andreas Hellander
:
Automatic and portable cloud deployment for scientific simulations. HPCS 2014: 374-381 - 2013
- [c3]Andrej Andrejev
, Salman Zubair Toor, Andreas Hellander
, Sverker Holmgren, Tore Risch:
Scientific Analysis by Queries in Extended SPARQL over a Scalable e-Science Data Store. e-Science 2013: 98-106 - 2012
- [c2]Per-Olov Östberg, Andreas Hellander, Brian Drawert, Erik Elmroth, Sverker Holmgren, Linda R. Petzold:
Abstractions for Scaling eScience Applications to Distributed Computing Environments - A StratUm Integration Case Study in Molecular Systems Biology. BIOINFORMATICS 2012: 290-294 - [c1]Per-Olov Östberg, Andreas Hellander
, Brian Drawert, Erik Elmroth, Sverker Holmgren, Linda R. Petzold:
Reducing Complexity in Management of eScience Computations. CCGRID 2012: 845-852
Informal and Other Publications
- 2023
- [i16]Li Ju, Tianru Zhang, Salman Toor, Andreas Hellander:
Accelerating Fair Federated Learning: Adaptive Federated Adam. CoRR abs/2301.09357 (2023) - [i15]Addi Ait-Mlouk, Sadi Alawadi, Salman Toor, Andreas Hellander:
FedBot: Enhancing Privacy in Chatbots with Federated Learning. CoRR abs/2304.03228 (2023) - [i14]Sadi Alawadi, Addi Ait-Mlouk, Salman Toor, Andreas Hellander:
Toward efficient resource utilization at edge nodes in federated learning. CoRR abs/2309.10367 (2023) - 2022
- [i13]Tianru Zhang, Salman Toor, Andreas Hellander:
Efficient Hierarchical Storage Management Framework Empowered by Reinforcement Learning. CoRR abs/2201.11668 (2022) - [i12]Addi Ait-Mlouk, Sadi Alawadi, Salman Toor, Andreas Hellander:
FedQAS: Privacy-aware machine reading comprehension with federated learning. CoRR abs/2202.04742 (2022) - 2021
- [i11]Fredrik Wrede, Robin Eriksson, Richard M. Jiang, Linda R. Petzold, Stefan Engblom, Andreas Hellander, Prashant Singh:
Robust and integrative Bayesian neural networks for likelihood-free parameter inference. CoRR abs/2102.06521 (2021) - [i10]Morgan Ekmefjord, Addi Ait-Mlouk, Sadi Alawadi, Mattias Åkesson, Desislava Stoyanova, Ola Spjuth, Salman Toor, Andreas Hellander:
Scalable federated machine learning with FEDn. CoRR abs/2103.00148 (2021) - [i9]Ola Spjuth
, Marco Capuccini, Matteo Carone, Anders Larsson, Wesley Schaal
, Jon Ander Novella, Oliver Stein
, Morgan Ekmefjord, Paolo Di Tommaso, Evan W. Floden, Cédric Notredame, Pablo A. Moreno, Andreas Hellander, Payam Emami Khoonsari, Stephanie Herman, Kim Kultima
, Samuel Lampa
:
Approaches for containerized scientific workflows in cloud environments with applications in life science. F1000Research 10: 513 (2021) - 2020
- [i8]Oliver Stein, Ben Blamey, Johan Karlsson, Alan Sabirsh, Ola Spjuth, Andreas Hellander, Salman Toor:
Smart Resource Management for Data Streaming using an Online Bin-packing Strategy. CoRR abs/2001.10865 (2020) - [i7]Mattias Åkesson, Prashant Singh, Fredrik Wrede, Andreas Hellander:
Convolutional Neural Networks as Summary Statistics for Approximate Bayesian Computation. CoRR abs/2001.11760 (2020) - 2019
- [i6]Ben Blamey, Fredrik Wrede, Johan Karlsson, Andreas Hellander, Salman Toor:
Adapting The Secretary Hiring Problem for Optimal Hot-Cold Tier Placement under Top-K Workloads. CoRR abs/1901.07335 (2019) - [i5]Ben Blamey
, Ida-Maria Sintorn, Andreas Hellander, Salman Toor:
Resource- and Message Size-Aware Scheduling of Stream Processing at the Edge with application to Realtime Microscopy. CoRR abs/1912.09088 (2019) - 2018
- [i4]Prashant Singh, Andreas Hellander:
Multi-Statistic Approximate Bayesian Computation with Multi-Armed Bandits. CoRR abs/1805.08647 (2018) - [i3]Ben Blamey, Andreas Hellander, Salman Zubair Toor:
Apache Spark Streaming and HarmonicIO: A Performance and Architecture Comparison. CoRR abs/1807.07724 (2018) - 2015
- [i2]Brian Drawert, Michael Trogdon, Salman Zubair Toor, Linda R. Petzold, Andreas Hellander:
MOLNs: A cloud platform for interactive, reproducible and scalable spatial stochastic computational experiments in systems biology using PyURDME. CoRR abs/1508.03604 (2015) - 2013
- [i1]Andreas Hellander, Michael J. Lawson, Brian Drawert, Linda R. Petzold:
Local error estimates for adaptive simulation of the Reaction-Diffusion Master Equation via operator splitting. CoRR abs/1305.3639 (2013)
Coauthor Index
aka: Salman Toor
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