Publications
Publications SDL Neuroscience
Contribution to a book
Phenomenological Modeling of Diverse and Heterogeneous Synaptic Dynamics at Natural Density
New Aspects in Analyzing the Synaptic Organization of the Brain / Lübke, Joachim H.R. (Editor) ; New York, NY : Springer US, 2024, Chapter 15 ; ISSN: 0893-2336=1940-6045 ; ISBN: 978-1-0716-4018-0=978-1-0716-4019-7 ; doi:10.1007/978-1-0716-4019-7
New York, NY : Springer US, Neuromethods 212, 277 - 321 (2024) [10.1007/978-1-0716-4019-7_15]
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Poster (Other)
Virtual Brain Twins in EBRAINS
EDITH-CSA Ecosystem Meeting, AmsterdamAmsterdam, Netherlands, 15 Jul 2024 - 16 Jul 2024
[10.34734/FZJ-2024-05114]
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Journal Article
Impact of quantum and neuromorphic computing on biomolecular simulations: Current status and perspectives
Current opinion in structural biology 87, 102817 (2024) [10.1016/j.sbi.2024.102817]
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Poster (After Call)
Modeling and simulating spiking neurons and synaptic plasticity with NESTML on SpiNNaker
International Conference on Neuromorphic Computing and Engineering (ICNCE), AachenAachen, Germany, 3 Jun 2024 - 6 Jun 2024
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Journal Article
Multiscale co-simulation design pattern for neuroscience applications
Frontiers in neuroinformatics 18, 1156683 (2024) [10.3389/fninf.2024.1156683]
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Journal Article
Vast Parameter Space Exploration of the Virtual Brain: A Modular Framework for Accelerating the Multi-Scale Simulation of Human Brain Dynamics
Applied Sciences 14(5), 2211 (2024) [10.3390/app14052211]
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Journal Article
Emergent communication enhances foraging behavior in evolved swarms controlled by spiking neural networks
Swarm intelligence 18, 1-28 (2024) [10.1007/s11721-023-00231-6]
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Journal Article
PyDapsys: an open-source library for accessing electrophysiology data recorded with DAPSYS
Frontiers in neuroinformatics 17, 1250260 (2023) [10.3389/fninf.2023.1250260]
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Journal Article - Online First
Interplay between homeostatic synaptic scaling and homeostatic structural plasticity maintains the robust firing rate of neural networks
eLife 12, RP88376 (2023) [10.7554/eLife.88376.1]
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Journal Article
Enhanced simulations of whole-brain dynamics using hybrid resting-state structural connectomes
Frontiers in computational neuroscience 17, 1295395 (2023) [10.3389/fncom.2023.1295395]
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Poster (Outreach)
Heat: accelerating massive data processing in Python
CS & Physics Meet-Up by Lamarr & B3D, TU DortmundTU Dortmund, Germany, 29 Nov 2023 - 1 Dec 2023
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Poster (After Call)
Accelerating massive data processing in Python with Heat
Artificial Intelligence Symposium on Theory, Application and Research 2023, AI STAR#2023, ESOC, DarmstadtESOC, Darmstadt, Germany, 27 Sep 2023 - 28 Sep 2023
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Journal Article
European Human Brain Project Celebrates Successful Conclusion
Innovatives Supercomputing in Deutschland 32-2, 28-29 (2023)
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Poster (After Call)
Modeling and simulating spiking neurons and synaptic plasticity with NESTML
JSC's End-of-Year Colloquium 2023, JülichJülich, Germany, 5 Dec 2023 - 5 Dec 2023
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Poster (After Call)
Adjoint MPI for Non-Additive Separable Loss Functions
ISC High Performance 2023, HamburgHamburg, Germany, 21 May 2023 - 25 May 2023
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Poster (Outreach)
EBRAINS Computing Services
Human Brain Project Summit 2023, MarseilleMarseille, France, 28 Mar 2023 - 31 Mar 2023
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Poster (Outreach)
Simulation and Data Lab Neuroscience - Bridging Neuroscience and HPC
Bernstein Conference for Computational Neuroscience, BerlinBerlin, Germany, 27 Sep 2023 - 29 Sep 2023
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Poster (Outreach)
Simulation and Data Lab Neuroscience - Bridging Neuroscience and HPC
International Conference for High Performance Computing, Networking, Storage, and Analysis, SC23, DenverDenver, USA, 12 Nov 2023 - 17 Nov 2023
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Book/Dissertation / PhD Thesis
Gradient-Free Optimization of Artificial and Biological Networks using Learning to Learn
Jülich : Forschungszentrum Jülich GmbH Zentralbibliothek, Verlag, Schriften des Forschungszentrums Jülich IAS Series 55, 149 pp. (2023) [10.34734/FZJ-2023-03569] = Dissertation, RWTH Aachen University, 2023
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Poster (After Call)
Gradient free optimization of neuroscience models at different scales with L2L
HBP Summit 2023, MarseilleMarseille, France, 27 Mar 2023 - 31 Mar 2023
[10.34734/FZJ-2023-02678]
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Poster (After Call)
Microscale connectivity estimation from spiking activity in macaque visuomotor cortices
SMHB General Assembly, JuelichJuelich, Germany, 4 Apr 2023 - 5 Apr 2023
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Poster (Exhibition)
The World of EBRAINS Tools & Services
HBP Summit 2023, MarseilleMarseille, France, 28 Mar 2023 - 31 Mar 2023
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Poster (Exhibition)
The World of EBRAINS Tools & Services
NWG Göttingen, GöttingenGöttingen, Germany, 22 Mar 2023 - 24 Mar 2023
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Poster (After Call)
Modeling and simulating spiking neurons and synaptic plasticity with NESTML
HBP Summit 2023, MarseilleMarseille, France, 27 Mar 2023 - 31 Mar 2023
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Poster (After Call)
Estimation of microscale connectivity from spiking activity of macaque visuomotor cortices
7th HBP students conference, MadridMadrid, Spain, 18 Jan 2023 - 20 Jan 2023
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Poster (After Call)
Gradient free optimization of neuroscience models at different scales with L2L
CASA Kick off, JuelichJuelich, Germany, 26 Jan 2023 - 26 Jan 2023
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Poster (After Call)
Emergent self-coordination in simulated swarms steered by Spiking Neural Networks
HBP Student Conference 2023, Rey Juan Carlos UniversityMadrid, Rey Juan Carlos University, Spain, 18 Jan 2023 - 20 Jan 2023
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Poster (Outreach)
Vast TVB parameter space exploration: A Modular Framework for Accelerating the Multi-Scale Simulation of Human Brain Dynamics
JSC's End-of-Year Colloquium 2023, JülichJülich, Germany, 5 Dec 2023 - 5 Dec 2023
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Bachelor Thesis
Implementation of a Spiking Neural Network Model with Biologically Plausible Connectivity Characteristics for Neuromorphic Benchmarking
65 p. (2022) = Bachelorarbeit, RWTH Aachen, 2022
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Poster (After Call)
The Scientific Liaison Unit of EBRAINS - Our support for you!
6th HBP Student Conference on Interdisciplinary Brain Research, onlineonline, Austria, 22 Feb 2022 - 25 Feb 2022
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Poster (After Call)
SLU can help bring your research to EBRAINS infrastructure
Bernstein Conference 2022, BerlinBerlin, Germany, 13 Sep 2022 - 17 Sep 2022
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Poster (After Call)
The Scientific Liaison Unit of EBRAINS - Our support for you!
Young Researchers Event 2022: EBRAINS – a digital European Infrastructure for next generation basic & clinical neuroscience, CopenhagenCopenhagen, Denmark, 16 May 2022 - 16 May 2022
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Master Thesis
An applied waveform relaxation method for distributed gap junctions in the Arbor simulation library
48 pp. (2022) = Masterarbeit, RWTH Aachen, 2022
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Poster (Other)
A System-on-Chip Based Hybrid Neuromorphic Compute (HNC) Node Architecture for Reproducible Hyper-Real-Time Simulations of Spiking Neural Networks
ACA farewell meeting, JülichJülich, Germany, 19 Sep 2022 - 20 Sep 2022
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Proceedings
6th HBP Student Conference on Interdisciplinary Brain Research
6th HBP Student Conference on Interdisciplinary Brain Research, Virtual eventVirtual event, Germany, 22 Feb 2022 - 25 Feb 2022
Frontiers Media SA (2022) [10.3389/978-2-88971-014-0]
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Poster (After Call)
RateML: a code generation tool for BrainNetwork Models
6th HBP Student Conference on Interdisciplinary Brain Research, Innsbruck, OnlineInnsbruck, Online, Austria, 22 Feb 2022 - 25 Feb 2022
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Poster (After Call)
RateML: A Code Generation Tool for Brain Network Model
From Cortical Microcircuits to Consciousness, Corticon, ParisParis, France, 11 Apr 2022 - 13 Apr 2022
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Poster (After Call)
RateML: A Code Generation Tool for Brain Network Models
Association of Scientific Studies of Consciousness Meeting, ASSC25, AmsterdamAmsterdam, Netherlands, 12 Jul 2022 - 15 Jul 2022
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Master Thesis
Parallelization and optimization of measures in Network Neuroscience
107 p. (2022) = Masterarbeit, FH Aachen Campus Jülich, 2022
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Journal Article
Exploring Parameter and Hyper-Parameter Spaces of Neuroscience Models on High Performance Computers With Learning to Learn
Frontiers in computational neuroscience 16, 885207 (2022) [10.3389/fncom.2022.885207]
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Journal Article
Brain signal predictions from multi-scale networks using a linearized framework
PLoS Computational Biology 18(8), e1010353 (2022) [10.1371/journal.pcbi.1010353]
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Journal Article
A System-on-Chip Based Hybrid Neuromorphic Compute Node Architecture for Reproducible Hyper-Real-Time Simulations of Spiking Neural Networks
Frontiers in neuroinformatics 16, 884033 (2022) [10.3389/fninf.2022.884033] special issue: "Neuroscience, Computing, Performance, and Benchmarks: Why It Matters to Neuroscience How Fast We Can Compute"
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Journal Article
Deploying and Optimizing Embodied Simulations of Large-Scale Spiking Neural Networks on HPC Infrastructure
Frontiers in neuroinformatics 16, 884180 (2022) [10.3389/fninf.2022.884180]
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Journal Article
RateML: A Code Generation Tool for Brain Network Models
Frontiers in network physiology 2, 826345 (2022) [10.3389/fnetp.2022.826345]
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Journal Article
Brain simulation as a cloud service: The Virtual Brain on EBRAINS
NeuroImage 251, 118973 - (2022) [10.1016/j.neuroimage.2022.118973]
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Journal Article
ConGen a simulator-agnostic visual language for definition and generation of connectivity in large and multiscale neural networks
Frontiers in neuroinformatics 15, 766697 (2022) [10.3389/fninf.2021.766697] special issue: "Neuroscience, Computing, Performance, and Benchmarks: Why It Matters to Neuroscience How Fast We Can Compute"
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Poster (Other)
Hodgkin-Huxley Sensitivity Analysis with Arbor
HBP Summit 2021: Pushing the Boundaries of Brain Research, BrusselsBrussels, Belgium, 10 Oct 2021 - 15 Oct 2021
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Poster (Other)
Hodgkin-Huxley Sensitivity Analysis with Arbor
Bernstein Conference 2021, Berlin / onlineBerlin / online, Germany, 21 Sep 2021 - 23 Sep 2021
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Bachelor Thesis
Evolving autonomous agents with simulated brains using L2L and Netlogo
Jülich 76 p (2021) = Bachelorarbeit, RWTH Aachen, 2021
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Master Thesis
Deep learning for segmentation of 3D-PLI images
60 pp. (2021) = Masterarbeit, RWTH Aachen, 2021
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Journal Article
Long-Term Desynchronization by Coordinated Reset Stimulation in a Neural Network Model With Synaptic and Structural Plasticity
Frontiers in physiology 12, 716556 (2021) [10.3389/fphys.2021.716556]
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Journal Article
On the influence of prior information evaluated by fully Bayesian criteria in a personalized whole-brain model of epilepsy spread
PLoS Computational Biology 17(7), e1009129 - (2021) [10.1371/journal.pcbi.1009129]
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Master Thesis
Investigating self-supervised learning for diffusion MRI-based microstructure imaging
63 pages (2021) = Masterarbeit, FH Aachen, 2021
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Contribution to a conference proceedings/Contribution to a book
JUWELS Booster – A Supercomputer for Large-Scale AI Research
High Performance Computing / Jagode, Heike (Editor)
ISC High Performance 2021, ISC21, DigitalDigital, Germany, 24 Jun 2021 - 2 Jul 2021
Lecture Notes in Computer Science 12761, 453 - 468 (2021) [10.1007/978-3-030-90539-2_31]
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Poster (After Call)
Hyper-parameter space exploration of neuroscience models on high performance computers with the Learning to Learn framework
HBP Summit 2021, VirtualVirtual, Belgium, 12 Oct 2021 - 15 Oct 2021
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Book/Dissertation / PhD Thesis
Structural plasticity as a connectivity generation and optimization algorithm in neural networks
Jülich : Forschungszentrum Jülich GmbH Zentralbibliothek, Verlag, Schriften des Forschungszentrums Jülich IAS Series 47, 167 pp. (2021) = Dissertation, RWTH Aachen University, 2021
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Contribution to a conference proceedings/Contribution to a book
Fenix: Distributed e-Infrastructure Services for EBRAINS
Brain-Inspired Computing / Amunts, Katrin (Editor) [https://orcid.org/0000-0001-5828-0867] ; Cham : Springer International Publishing, 2021, Chapter 6 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-030-82426-6=978-3-030-82427-3 ; doi:10.1007/978-3-030-82427-3
BrainComp 2019 - Workshop on Brain-Inspired Computing, BrainComp 2019, CetraroCetraro, Italy, 15 Jul 2019 - 19 Jul 2019
Cham : Springer International Publishing, Lecture Notes in Computer Science 12339, 81 - 89 (2021) [10.1007/978-3-030-82427-3_6]
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Journal Article
Inter-subject and inter-parcellation variability of resting-state whole-brain dynamical modeling
NeuroImage 236, 118201 - (2021) [10.1016/j.neuroimage.2021.118201]
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Contribution to a conference proceedings/Contribution to a book
Modular Supercomputing for Neuroscience
Brain-Inspired Computing / Amunts, Katrin (Editor) [https://orcid.org/0000-0001-5828-0867] ; Cham : Springer International Publishing, 2021, Chapter 5 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-030-82426-6=978-3-030-82427-3 ; doi:10.1007/978-3-030-82427-3
BrainComp 2019 - Workshop on Brain-Inspired Computing, CetraroCetraro, Italy, 15 Jul 2019 - 19 Jul 2019
Cham : Springer International Publishing, Lecture Notes in Computer Science 12339, 63-80 (2021) [10.1007/978-3-030-82427-3_5]
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Poster (Other)
RateML, a spin-off of the NeuroML and LEMS Domain Specific Languages, tailored to generate rate-based-models suited for simulators such as the Virtual Brain (TVB) featuring high performance computing and parameter sweep capabilities.
Bernstein Conference, OnlineOnline, Germany, 29 Sep 2020 - 1 Oct 2020
[10.12751/NNCN.BC2020.0272]
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Contribution to a conference proceedings/Contribution to a book
HeAT – a Distributed and GPU-accelerated Tensor Framework for Data Analytics
2020 IEEE International Conference on Big Data (Big Data), AtlantaAtlanta, GA, 10 Dec 2020 - 13 Dec 2020
IEEE 276-287 (2020) [10.1109/BigData50022.2020.9378050]
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Contribution to a conference proceedings
Archival Data Repository Services to Enable HPC and Cloud Workflows in a Federated Research e-Infrastructure
2020 IEEE/ACM International Workshop on Interoperability of Supercomputing and Cloud Technologies (SuperCompCloud), AtlantaAtlanta, GA, 11 Nov 2020 - 11 Nov 2020
IEEE 39-44 (2020) [10.1109/SuperCompCloud51944.2020.00012]
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Poster (After Call)
Processing capacity of recurrent spiking networks
Organisation For Computational Neuroscience - 29th Annual Computational Neuroscience Meeting, CNS2020, OnlineOnline, Online, 18 Jul 2020 - 23 Jul 2020
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Contribution to a conference proceedings/Contribution to a book
Ensemble Kalman Filter Optimizing Deep Neural Networks: An Alternative Approach to Non-performing Gradient Descent
Machine Learning, Optimization, and Data Science
The Sixth International Conference on Machine Learning, Optimization, and Data Science, LOD2020, SienaSiena, Italy, 19 Jul 2020 - 22 Jul 2020
Cham : Springer, Lecture Notes in Computer Science 12566, : 5th ed., 78-92 (2020) [10.1007/978-3-030-64580-9_7]
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Journal Article
Analytical and fast Fiber Orientation Distribution reconstruction in 3D-Polarized Light Imaging
Medical image analysis 65, 101760 (2020) [10.1016/j.media.2020.101760]
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Poster (After Call)
NEST3 and NESTML: You'll love the new NEST user experience
Human Brain Project Summit 2020, AthensAthens, Greece, 4 Feb 2020 - 6 Feb 2020
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Contribution to a conference proceedings
Staged deployment of interactive multi-application HPC workflows
The 2019 International Conference on High Performance Computing & Simulation, HPCS 2019, DublinDublin, Ireland, 15 Jul 2019 - 19 Jul 2019
IEEE 305-311 (2020) [10.1109/HPCS48598.2019.9188104]
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Bachelor Thesis
Untersuchung räumlicher Muster in meteorologischen Modellen für die Ensemble-Kalibrierung mittels tiefer neuronaler Netze
64 pages (2019) = Bachelorarbeit, FH Aachen, 2019
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Master Thesis
In Transit Coupling of Neuroscientific Simulation and Analysis on High Performance Computing Systems
61 p. (2019) = Masterarbeit, FH Aachen, 2019
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Poster (After Call)
ICEI: HPC Centres Delivering Federated E-Infrastructure Services
34th International Conference, ISC High Performance 2019, ISC 2019, Frankfurt am MainFrankfurt am Main, Germany, 21 Jun 2019 - 25 Jun 2019
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Journal Article
Neuroscience Students Introduced to the World of HPC at HPC for Neuroscience Workshop
Innovatives Supercomputing in Deutschland 17(2), 30 (2019)
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Contribution to a conference proceedings/Contribution to a book
Performance Comparison for Neuroscience Application Benchmarks
Lecture Notes in Computer Science
ISC High Performance 2019, ISC, FrankfurtFrankfurt, Germany, 16 Jun 2019 - 20 Jun 2019
Heidelberg : Springer, Lecture Notes in Computer Science 11887, (2019) [10.1007/978-3-030-34356-9_31] special issue: "High Performance Computing" (978-3-030-34356-9)
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Journal Article
Das Helmholtz Analytics Toolkit (HeAT) - Eine High Performance Computing (HPC) Programmbibliothek für wissenschaftliche Big Data Analytik / The Helmholtz Analytics Toolkit (HeAT) - A High Performance Computing (HPC) Library for Scientific Big Data Analytics
Jülich : Bernstein Koordinationsstelle (BCOS) -, 32-33 (2019) special issue: "Bernstein Feature 2019"
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Contribution to a conference proceedings/Contribution to a book
The Helmholtz Analytics Toolkit (HeAT) - A Scientific Big Data Library for HPC -
Proceedings
Extreme Data Workshop 2018, JülichJülich, Germany, 18 Sep 2018 - 19 Sep 2018
Jülich : Forschungszentrum Jülich GmbH Zentralbibliothek, IAS Series 40, 57-60 (2019)
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Journal Article
Spiking Neural Networks that Learn to Learn / Gepulste Neuronale Netze lernen zu lernen
Jülich : Bernstein Koordinationsstelle (BCOS) -, 8-9 (2019) special issue: "Bernstein Feature 2019"
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Poster (After Call)
Learning to Learn on High Performance Computing
Society for Neuroscience Meeting 2019, ChicagoChicago, USA, 19 Oct 2019 - 23 Oct 2019
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Poster (After Call)
NESTML: An extensible modeling language for biologically plausible neural networks
NEST Conference 2019: A Forum for Users and Developers, AasAas, Norway, 24 Jun 2019 - 25 Jun 2019
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Poster (Other)
Impact of brain parcellation on parameter optimization of the whole-brain dynamical models
Organization for Human Brain Mapping 2019, OHBM 2019, RomeRome, Italy, 9 Jun 2019 - 13 Jun 2019
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Poster (Other)
Impact of brain parcellation on parameter optimization of the whole-brain dynamical models
CNS*2019, BarcelonaBarcelona, Spain, 13 Jul 2019 - 17 Jul 2019
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Journal Article
Editorial: Linking experimental and computational connectomics
Network neuroscience 3(4), 902-904 (2019) [10.1162/netn_e_00108]
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Poster (After Call)
Learning to Learn on High Performance Computing
OCNS2019, BarcelonaBarcelona, Spain, 13 Jul 2019 - 17 Jul 2019
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Contribution to a conference proceedings/Contribution to a book
Tracing of Nerve Fibers Through Brain Regions of Fiber Crossings in Reconstructed 3D-PLI Volumes
Bildverarbeitung für die Medizin 2019
Bildverarbeitung für die Medizin, LübeckLübeck, Germany, 17 Mar 2019 - 19 Mar 2019
Berlin, Heidelberg : Springer 62 - 67 (2019) [10.1007/978-3-658-25326-4_17]
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Contribution to a conference proceedings/Contribution to a book
Arbor — A Morphologically-Detailed Neural Network Simulation Library for Contemporary High-Performance Computing Architectures
2019 27th Euromicro International Conference on Parallel, Distributed and Network-Based Processing (PDP), PaviaPavia, Italy, 13 Feb 2019 - 15 Feb 2019
IEEE 274-282 (2019) [10.1109/EMPDP.2019.8671560]
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Journal Article
Quantitative Three-Dimensional Reconstructions of Excitatory Synaptic Boutons in Layer 5 of the Adult Human Temporal Lobe Neocortex: A Fine-Scale Electron Microscopic Analysis
Cerebral cortex 29(7), 2797–2814 (2019) [10.1093/cercor/bhy146]
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Contribution to a conference proceedings/Contribution to a book
Streaming Live Neuronal Simulation Data into Visualization and Analysis
High Performance Computing / Yokota, Rio (Editor) [0000-0001-7573-7873] ; Cham : Springer International Publishing, 2018, Chapter 18 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-030-02464-2=978-3-030-02465-9 ; doi:10.1007/978-3-030-02465-9
ISC High Performance 2018, FrankfurtFrankfurt, Germany, 24 Jun 2018 - 28 Jun 2018
Cham : Springer International Publishing, Lecture Notes in Computer Science 11203, 258 - 272 (2018) [10.1007/978-3-030-02465-9_18]
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Journal Article
Reproducible Neural Network Simulations: Statistical Methods for Model Validation on the Level of Network Activity Data
Frontiers in neuroinformatics 12, 90 (2018) [10.3389/fninf.2018.00090]
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Journal Article
Rigorous Neural Network Simulations: A Model Substantiation Methodology for Increasing the Correctness of Simulation Results in the Absence of Experimental Validation Data
Frontiers in neuroinformatics 12, 81 (2018) [10.3389/fninf.2018.00081] special issue: "Reproducibility and Rigour in Computational Neuroscience"
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Poster (Other)
Automatically generating HPC-optimized code for simulations using neural mass models in The Virtual Brain
Society for Neuroscience Meeting 2018, San DiegoSan Diego, USA, 3 Nov 2018 - 7 Nov 2018
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Poster (Other)
Co-Design Project 8 The Virtual Brain (TVB): Interfacing The Virtual Brain with HBP Platforms
Human Brain Project Summit, MaastrichtMaastricht, Netherlands, 16 Oct 2018 - 18 Oct 2018
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Poster (Other)
The Virtual Epileptic Patient Workflow
Human Brain Project Summit, MaastrichtMaastricht, Netherlands, 16 Oct 2018 - 18 Oct 2018
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Poster (Other)
Arbor: A morphologically detailed neural network simulation library for modern high performance computer architectures
Human Brain Project Summit, MaastrichtMaastricht, Netherlands, 15 Oct 2018 - 18 Oct 2018
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Journal Article
Code Generation in Computational Neuroscience: A Review of Tools and Techniques
Frontiers in neuroinformatics 12, 68 (2018) [10.3389/fninf.2018.00068]
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Journal Article
Automatically Selecting a Suitable Integration Scheme for Systems of Differential Equations in Neuron Models
Frontiers in neuroinformatics 12, 50 (2018) [10.3389/fninf.2018.00050]
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Journal Article
Fenix Consortium to build a Federated Data and Computing Infrastructure for the Human Brain Project and other communities
Innovatives Supercomputing in Deutschland 16(1), 26-28 (2018)
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Journal Article
Human Brain Project Successfully Enters the Next Phase
Innovatives Supercomputing in Deutschland 16(1), 17-19 (2018)
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Poster (After Call)
Modular Science: Towards Online Multi Application Coordination on Inhomogeneous High Performance Computing and Neuromorphic Hardware Systems
27th Annual Computational Neuroscience Meeting, CNS 2018, SeattleSeattle, USA, 13 Jul 2018 - 18 Jul 2018
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Poster (Other)
From MRI data to the whole-brain dynamical models: a work-flow of the Virtula Brain platform
INM-ICS Retreat 2018, JülichJülich, Germany, 27 Jun 2018 - 28 Jun 2018
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Journal Article
Toward Rigorous Parameterization of Underconstrained Neural Network Models Through Interactive Visualization and Steering of Connectivity Generation
Frontiers in neuroinformatics 12, 32 (2018) [10.3389/fninf.2018.00032]
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Book/Dissertation / PhD Thesis
NESTML - die domänenspezifische Sprache für den NEST-Simulator neuronaler Netzwerke im Human Brain Project
Aachen : Shaker Verlag, Aachener Informatik-Berichte, Software Engineering 33, 254 pp. (2018) = Dissertation, RWTH Aachen, 2017
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Master Thesis
Generating Neural Network Connectivity from a Visual Representation
64 pp. (2017) = Masterarbeit, Ruhr-Universität Bochum, 2017
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Journal Article
A scalable algorithm for simulating the structural plasticity of the brain
Journal of parallel and distributed computing 120, 251-266 (2017) [10.1016/j.jpdc.2017.11.019]
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Poster (Other)
Full dynamic brain simulation using GATE in a high-performance computer
2017 IEEE Nuclear Science Symposium and Medical Imaging Conference, IEEE NPSS, Atlanta,Georgia,U.S.A.Atlanta,Georgia,U.S.A., U.S.A, 21 Oct 2017 - 28 Oct 2017
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Poster (After Call)
Using structural plasticity to study the relationship between structure and function in the brain
SMHB General Assembly 2017, JülichJülich, Germany, 7 Nov 2017 - 8 Nov 2017
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Poster (Other)
Arbor: A morphologically detailed neural network simulator for modern high performance computer architectures
HBP summit 2017, GlasgowGlasgow, England, 17 Oct 2017 - 20 Oct 2017
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Poster (Other)
NestMC: A morphologically detailed neural network simulator for modern high performance computer architectures
HBP student conference 2017, ViennaVienna, Austria, 8 Feb 2017 - 10 Feb 2017
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Poster (Other)
Arbor: A morphologically detailed neural network simulator for modern high performance computer architectures
Neuroscience 2017: Society for Neuroscience, Washington, DCWashington, DC, United States, 15 Nov 2017 - 15 Nov 2017
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Poster (After Call)
Using structural plasticity to study the relationship between structure and function in the brain
HBP Summit 2017, GlasgowGlasgow, Scotland, 17 Oct 2017 - 20 Oct 2017
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Poster (After Call)
Visual exploration and generation of connectivity in neural networks: bridging the gap between empirical data and theoretical model definition.
Bernstein Conference 2017, GöttingenGöttingen, Germany, 12 Sep 2017 - 15 Sep 2017
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Poster (Other)
Automatically generating HPC-optimized code for simulations using neural mass models
26th Computational Neuroscience Meeting, CNS 2017, AntwerpAntwerp, Belgium, 25 Jul 2017 - 25 Jul 2017
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Poster (Other)
Arbor: A morphologically detailed neural network simulator for modern high performance computer architectures
26th Computational Neuroscience Meeting, CNS 2017, University of AntwerpAntwerp, University of Antwerp, Belgium, 15 Jul 2017 - 20 Jul 2017
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Journal Article
The NEST Dry-Run Mode: Efficient Dynamic Analysis of Neuronal Network Simulation Code
Frontiers in neuroinformatics 11, 40 (2017) [10.3389/fninf.2017.00040]
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Contribution to a book
NestMC: A new multi-compartment neuronal network simulator
JUQUEEN Extreme Scaling Workshop 2017
Seminar, JülichJülich, Germany, 23 Jan 2017 - 25 Jan 2017
Jülich : Forschungszentrum Jülich Jülich Supercomputing Centre, JSC Internal Report FZJ-JSC-IB-2017-01, 31-36 (2017)
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Journal Article
Pre-Commercial Procurement of the Human Brain Project Completed
Innovatives Supercomputing in Deutschland 15(1), 27-28 (2017)
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Journal Article
Constructing Neuronal Network Models in Massively Parallel Environments
Frontiers in neuroinformatics 11, 30 (2017) [10.3389/fninf.2017.00030]
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Contribution to a conference proceedings/Contribution to a book
A Collaborative Simulation-Analysis Workflow for Computational Neuroscience Using HPC
High-Performance Scientific Computing / Di Napoli, Edoardo (Editor) ; Cham : Springer International Publishing, 2017, Chapter 21 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-319-53861-7=978-3-319-53862-4 ; doi:10.1007/978-3-319-53862-4
Jülich Aachen Research Alliance (JARA) High-Performance Computing Symposium, JHPCS '16, AachenAachen, Germany, 4 Oct 2016 - 5 Oct 2016
Cham : Springer International Publishing, Lecture Notes in Computer Science 10164, 243 - 256 (2017) [10.1007/978-3-319-53862-4_21]
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Contribution to a conference proceedings/Contribution to a book
NESTML: a modeling language for spiking neurons
Modellierung 2016, KarlsruheKarlsruhe, Germany, 17 Mar 2016 - 19 Mar 2016
Gesellschaft für Informatik e.V. (GI), Lecture Notes in Informatics (LNI) P-254, 93-108 (2016)
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Book
Anatomy and Plasticity in Large-Scale Brain Models
Lausanne : Frontiers Media SA, Frontiers Research Topics 173 pp. (2016)
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Contribution to a book
Editorial: Anatomy and Plasticity in Large-Scale Brain Models
Anatomy and Plasticity in Large-Scale Brain Models
Lausanne : Frontiers Research Foundation (2016) [10.3389/fnana.2016.00108]
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Contribution to a conference proceedings
A Scalable Algorithm for Simulating the Structural Plasticity of the Brain
2016 28th International Symposium on Computer Architecture and High Performance Computing (SBAC-PAD), Los AngelesLos Angeles, CA, USA, 26 Oct 2016 - 28 Oct 2016
IEEE 1-8 (2016) [10.1109/SBAC-PAD.2016.9]
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Contribution to a conference proceedings/Contribution to a book
Including Gap Junctions into Distributed Neuronal Network Simulations
Brain-Inspired Computing / Amunts, Katrin (Editor) ; Cham : Springer International Publishing, 2016, Chapter 4 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-319-50861-0=978-3-319-50862-7 ; doi:10.1007/978-3-319-50862-7
International Workshop on Brain-Inspired Computing, BrainComp 2015, CetraroCetraro, Italy, 6 Jul 2015 - 10 Jul 2015
Cham : Springer International Publishing, Lecture Notes in Computer Science 10087, 43 - 57 (2016) [10.1007/978-3-319-50862-7_4]
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Poster (Other)
Multiscale approach to explore the relationships between connectivity and function in whole brain simulations
Bernstein Conference 2016, BerlinBerlin, Germany, 21 Sep 2016 - 21 Sep 2016
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Poster (Other)
Nidus by NEST: A morphologically detailed neural network simulator for many core high performance computer architectures
Human Brain Project Summit 2016, FlorenceFlorence, Italy, 12 Oct 2016 - 15 Oct 2016
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Contribution to a conference proceedings/Contribution to a book
Towards Large-Scale Fiber Orientation Models of the Brain – Automation and Parallelization of a Seeded Region Growing Segmentation of High-Resolution Brain Section Images
Brain-Inspired Computing
International Workshop on Brain-Inspired Computing, BrainComp 2015, CetraroCetraro, Italy, 6 Jul 2015 - 10 Jul 2015
Cham : Springer International Publishing, Lecture Notes in Computer Science 10087, 28 - 42 (2016) [10.1007/978-3-319-50862-7_3]
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Journal Article
Human Brain Project: Towards a European infrastructure for brain research
Innovatives Supercomputing in Deutschland 14(2), 88-92 (2016)
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Poster (Other)
Multiscale approach to explore the relationships between connectivity and function in whole brain simulations
HBP Summit 2016, FlorenceFlorence, Italy, 12 Oct 2016 - 14 Oct 2016
[10.12751/nncn.bc2016.0059]
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Journal Article
Closed Loop Interactions between Spiking Neural Network and Robotic Simulators Based on MUSIC and ROS
Frontiers in neuroinformatics 10, 31 (2016) [10.3389/fninf.2016.00031]
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Journal Article
Automatic Generation of Connectivity for Large-Scale Neuronal Network Models through Structural Plasticity
Frontiers in neuroanatomy 10(57), 1662-5129 (2016) [10.3389/fnana.2016.00057]
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Journal Article
Estimating Fiber Orientation Distribution Functions in 3D-Polarized Light Imaging
Frontiers in neuroanatomy 10, 40 (2016) [10.3389/fnana.2016.00040]
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Journal Article
Integrating Visualizations into Modeling NEST Simulations
Frontiers in neuroinformatics 9, 29 (2015) [10.3389/fninf.2015.00029]
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Dissertation / PhD Thesis
Simulation technology for plastic neuronal networks on high-performance computers
188 pp. (2015) [10.6094/UNIFR/10419] = Dissertation, Universität Freiburg, 2015
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Journal Article
Supercomputing for Neuroscientists: How HPC can help your Neuroscience Projects
Innovatives Supercomputing in Deutschland 13(2), 83-84 (2015)
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Journal Article
Preparatory Access to Computing and Support Resources at JSC
Innovatives Supercomputing in Deutschland 13(2), 9 (2015)
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Journal Article
Cation Selectivity in Biological Cation Channels Using Experimental Structural Information and Statistical Mechanical Simulation
PLoS one 10(10), e0138679 - (2015) [10.1371/journal.pone.0138679]
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Journal Article
Reconstruction of recurrent synaptic connectivity of thousands of neurons from simulated spiking activity
Journal of computational neuroscience 39(1), 77 - 103 (2015) [10.1007/s10827-015-0565-5]
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Journal Article
A unified framework for spiking and gap-junction interactions in distributed neuronal network simulations
Frontiers in computational neuroscience 9(22), 00022 (2015) [10.3389/fninf.2015.00022]
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Contribution to a conference proceedings/Contribution to a book
Modeling the I/O behavior of the NEST simulator using a proxy
Conference Proceedings of the YIC GACM 2015 / ed.: Stefanie Elgeti ; Jaan-Willem Simon
3rd ECCOMAS Young Investigators Conference, YIC GACM 2015, AachenAachen, Germany, 20 Jul 2015 - 23 Jul 2015
RWTh Aachen University 4 p. (2015)
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Journal Article
Helmholtz Portfolio Theme "Supercomputing and Modelling for the Human Brain" − General Assembly 2015
Innovatives Supercomputing in Deutschland 13(1), 106-107 (2015)
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Contribution to a conference proceedings/Contribution to a book
Performance Evaluation of Scientific Applications on POWER8
High Performance Computing Systems. Performance Modeling, Benchmarking, and Simulation / ; Cham : Springer International Publishing, 2015, Chapter 2 ; ISSN: 0302-9743=1611-3349 ; ISBN: 978-3-319-17247-7=978-3-319-17248-4 ; doi:10.1007/978-3-319-17248-4
5th International Workshop on Performance Modeling, Benchmarking and Simulation of High Performance Computer Systems (held as part of SC14), PMBS 2014, New Orleans, LANew Orleans, LA, USA, 16 Nov 2014 - 16 Nov 2014
Cham : Springer International Publishing, Lecture Notes in Computer Science 8966, 24 - 45 (2015) [10.1007/978-3-319-17248-4_2]
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Poster (After Call)
Effect of Alzheimer disease on the dynamical and computational characteristics of recurrent neural networks
11th Göttingen Meeting of the German Neuroscience Society, GöttingenGöttingen, Germany, 18 Mar 2015 - 28 Mar 2015
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Contribution to a conference proceedings/Contribution to a book
Supercomputing Infrastructure for Simulations of the Human Brain
Brain-inspired computing : international workshop, BrainComp 2013, Cetraro, Italy, July 8 - 11, 2013 ; revised selected papers / Grandinetti, Lucio ; Lippert, Thomas ; Petkov, Nicolai , Cham [u.a.] : Springer, 2014,
Brain-Inspired Computing, International Workshop, BrainComp 2013, BrainComp 2013, CetraroCetraro, Italy, 8 Jul 2013 - 11 Jul 2013
Cham [u.a.] : Springer, Lecture notes in computer science 8603, 198 - 212 (2014) [10.1007/978-3-319-12084-3]
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Dissertation / PhD Thesis
Interplay of connectivity and dynamics in recurrent neuronal networks
122 p. (2014) = Dissertation, Albert-Ludwigs-Universität Freiburg im Breisgau, 2014
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Poster (After Call)
Performance Model for Large-Scale Neural Simulations with NEST
Supercomputing 2014, SC14, New OrleansNew Orleans, USA, 16 Nov 2014 - 21 Nov 2014
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Journal Article
"Bernstein Network – Simulation Lab Neuroscience" HPC Workshop
Innovatives Supercomputing in Deutschland 12(2), 93-94 (2014)
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Journal Article
JSC Guest Student Programme 2014 – Experience Scientific Computing
Innovatives Supercomputing in Deutschland 12(2), 86-87 (2014)
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Journal Article
Spiking network simulation code for petascale computers
Frontiers in neuroinformatics 8, 78 (2014) [10.3389/fninf.2014.00078]
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Poster (Other)
Simulating structural plasticity of large scale networks in NEST
Twenty Third Annual Computational Neuroscience Meeting, CNS*2014, Quebec CityQuebec City, Canada, 26 Jul 2014 - 31 Jul 2014
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Journal Article
Domain and Interdomain Energetics Underlying Gating in Shaker-Type Kv Channels
Biophysical journal 107(8), 1841 - 1852 (2014) [10.1016/j.bpj.2014.08.015]
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Journal Article
Homeostatic structural plasticity can account for topology changes following deafferentation and focal stroke
Frontiers in neuroanatomy 8, 115 (2014) [10.3389/fnana.2014.00115] special issue: "Quantitative analysis of neuroanatomy"
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Contribution to a conference proceedings/Contribution to a book
Integrating brain structure and dynamics on supercomputers
Brain-inspired Computing
1st International Workshop on Brain-inspired Computing, BrainComp 2013, CetraroCetraro, Italy, 8 Jul 2013 - 11 Jul 2013
Cham Heidelberg New York Dordrecht London : Springer, Lecture Notes in Computer Science 8603, 22-32 (2014) [10.1007/978-3-319-12084-3_3]
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Journal Article
Open Dialogue on Pre-Commercial Procurement of Innovative HPC Technology
Innovatives Supercomputing in Deutschland 12(1), 94.95 (2014)
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Journal Article
Homeostatic structural plasticity increases the efficiency of small-world networks
Frontiers in synaptic neuroscience 6(7), 14 (2014) [10.3389/fnsyn.2014.00007]
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Journal Article
CyNEST: a maintainable Cython-based interface for the NEST simulator
Frontiers in neuroinformatics 8, 23 (2014) [10.3389/fninf.2014.00023] special issue: "Python in Neuroscience II"
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Contribution to a conference proceedings/Contribution to a book
Hybrid parallelization of a seeded region growing segmentation of brain images for a GPU cluster
ARCS 2014: 27th International Conference on Architecture of Computing Systems - Workshop Proceedings
27th International Conference on Architecture of Computing Systems, ARCS2014, LübeckLübeck, Germany, 25 Feb 2014 - 28 Feb 2014
Berlin : VDE Verlag 190 pp. (2014)
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Contribution to a conference proceedings/Contribution to a book
Paving the Road towards Pre-Exascale Supercomputing
NIC Symposium 2014 - Proceedings
NIC Symposium 2014, JülichJülich, Germany, 12 Feb 2014 - 13 Feb 2014
Jülich : John von Neumann Institute for Computing, NIC Series 47, 1-14 (2014)
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Poster (Other)
20 years of NEST: a mature brain simulator
INM Retreat 2013, JülichJülich, Germany, 2 Jul 2013 - 3 Jul 2013
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Journal Article
Neural system prediction and identification challenge
Frontiers in neuroinformatics 7(43), 1-10 (2013) [10.3389/fninf.2013.00043]
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Journal Article
Relating Polarized Light Imaging Data Across Scales
Imaging the brain at different scales: How to integrate multi-scale structural information?, AntwerpAntwerp, Belgium, 2 Sep 2013 - 6 Sep 2013
Frontiers in neuroinformatics 7, 3 (2013) [10.3389/conf.fninf.2013.10.00029]
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Poster (Other)
Relating PLI Data Across Scales
Imaging the brain at different scales: How to integrate multi-scale structural information?, AntwerpAntwerp, Belgium, 2 Sep 2013 - 6 Sep 2013
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Journal Article
Jülich Supercomputing Centre contributes to visionary "Human Brain Project"
Innovatives Supercomputing in Deutschland 11(2), 108-109 (2013)
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Journal Article
JSC Guest Student Programme on Scientific Computing 2013
Innovatives Supercomputing in Deutschland 11(2), 104-105 (2013)
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Journal Article
A Simple Rule for Dendritic Spine and Axonal Bouton Formation Can Account for Cortical Reorganization after Focal Retinal Lesions
PLoS Computational Biology 9(10), e1003259 (2013) [10.1371/journal.pcbi.1003259]
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Contribution to a conference proceedings
Effect of Alzheimer's disease on the dynamical and computational characteristics of recurrent neural networks
Twenty Second Annual Computational Neuroscience Meeting: CNS*2013, ParisParis, France, 13 Jul 2013 - 18 Jul 2013
14(Suppl 1), 282 pp. (2013) [10.1186/1471-2202-14-S1-P282]
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Contribution to a conference proceedings
Effect of Alzheimer’s disease on the dynamical and computational characteristics of recurrent neural networks
22nd Annual Computational Neuroscience Meeting, CNS*2013, ParisParis, France, 13 Jul 2013 - 18 Jul 2013
14(Suppl 1), P282 (2013)
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Poster (Other)
Effect of Alzheimer’s disease on the dynamical and computational characteristics of recurrent neural networks
22nd Annual Computational Neuroscience Meeting, CNS*2013, ParisParis, France, 13 Jul 2013 - 18 Jul 2013
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Poster
From laptops to supercomputers: a single highly scalable code base for spiking neuronal network simulations
Annual CNS Meeting 2013, ParisParis, France, 13 Jul 2013 - 18 Jul 2013
BMC neuroscience 14(Suppl 1), P163 - (2013) [10.1186/1471-2202-14-S1-P163]
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Contribution to a conference proceedings
Supercomputers ready for use as discovery machines for neuroscience
Proceedings of the 10th Meeting of the German Neuroscience Society
10th Meeting of the German Neuroscience Society, NWG 2013, GoettingenGoettingen, Germany, 13 Mar 2013 - 16 Mar 2013
T26-8B (2013)
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Poster (After Call)
Supercomputers ready for use as discovery machines for neuroscience
10th Meeting of the German Neuroscience Society, NWG 2013, GoettingenGoettingen, Germany, 13 Mar 2013 - 18 Mar 2013
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Poster (Other)
Estimation of fiber orientation distribution functions in 3D-polarized light imaging
19th Annual Meeting of the Organization for Human Brain Mapping, SeattleSeattle, USA, 16 Jun 2013 - 20 Jun 2013
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Journal Article
Simulation Lab Neuroscience launched
Innovatives Supercomputing in Deutschland 11(1), 100-101 (2013)
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Journal Article
Increasing quality and managing complexity in neuroinformatics software development with continuous integration.
Frontiers in neuroinformatics 6(31), 1-16 (2013) [10.3389/fninf.2012.00031]
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