diff --git a/doc/publications.txt b/doc/publications.txt index 9139e381..e5a8d75d 100644 --- a/doc/publications.txt +++ b/doc/publications.txt @@ -2,101 +2,308 @@ Publications about, relating to or using PyNN ============================================= -* Schmuker, Michael, Pfeil, Thomas and Nawrot, Martin Paul (2014) **A neuromorphic network for generic multivariate - data classification** - Proceedings of the National Academy of Sciences 111: 2081-2086. doi: 10.1073/pnas.1303053111 +* Singh KK, Linssen C, Müller E, Mathioulaki E, Klijn W and Oden L (2026) + **Unifying von-Neumann HPC and Neuromorphic Acceleration via the EBRAINS Research + Infrastructure: A Framework for High-Performance Workflows.** + arXiv:2606.08515 [cs.DC]. doi: 10.48550/arXiv.2606.08515 + `[link] `_ + +* Senk J, Kurth AC, Furber S, Gemmeke T, Golosio B, Heittmann A, Knight JC, Müller E, + Noll T, Nowotny T, Peraza Coppola G, Peres L, Rhodes O, Rowley A, Schemmel J, + Stadtmann T, Tetzlaff T, Tiddia G, van Albada SJ, Villamar J and Diesmann M (2026) + **Constructive community race: full-density spiking neural network model drives + neuromorphic computing.** + Neuromorphic Computing and Engineering 6(1):012001. + doi: 10.1088/2634-4386/ae379a + `[link] `_ + +* Gruel A, Lewden P, Vincent AF and Saïghi S (2026) + **Line-based Event Preprocessing: Towards Low-Energy Neuromorphic Computer Vision.** + arXiv:2601.10742 [cs.NE]. + doi: 10.48550/arXiv.2601.10742 + `[link] `_ + +* Lundstrom-Imanov GOYL and Yilmaz T (2026) + **EdgeSpike: Spiking Neural Networks for Low-Power Autonomous Sensing in Edge IoT + Architectures.** + arXiv:2604.27004 [cs.NE]. + doi: 10.48550/arXiv.2604.27004 + `[link] `_ + +* Vogginger B, Thanasoulis V, Partzsch J and Mayr C (2026) + **Characterization of Off-wafer Pulse Communication in BrainScaleS Neuromorphic + System.** + arXiv:2603.24854 [cs.ET]. + doi: 10.48550/arXiv.2603.24854 + `[link] `_ + +* Plesser HE, Davison AP, Diesmann M, Fukai T, Gemmeke T, Gleeson P, Knight JC, + Nowotny T, René A, Rhodes O, Roque AC, Senk J, Schwalger T, Stadtmann T, + Tiddia G and van Albada SJ (2025) + **Building on models, a perspective for computational neuroscience.** + Cerebral Cortex 35(11):bhaf295. + doi: 10.1093/cercor/bhaf295 + `[link] `_ + +* Sinha A, Gleeson P, Marin B, Dura-Bernal S, Panagiotou S, Crook S, Cantarelli M, + Cannon RC, Davison AP, Gurnani H and Silver RA (2025) + **The NeuroML ecosystem for standardized multi-scale modeling in neuroscience.** + eLife 13:RP95135. + doi: 10.7554/eLife.95135.3 + `[link] `_ + +* Pedersen JE, Abreu S, Jobst M, Lenz G, Eshraghian JK, Müller E, Furber S, + Corradi F, Conradt J and Lindeberg T (2024) + **Neuromorphic intermediate representation: A unified instruction set for + interoperable brain-inspired computing.** + Nature Communications 15:8122. + doi: 10.1038/s41467-024-52259-9 + `[link] `_ + +* Ayuso-Martinez A, Casanueva-Morato D, Dominguez-Morales JP, + Jimenez-Fernandez A and Jimenez-Moreno G (2024) + **A Low-Cost Real-Time Spiking System for Obstacle Detection based on Ultrasonic + Sensors and Rate Coding.** + arXiv:2409.02680 [cs.RO]. + doi: 10.48550/arXiv.2409.02680 + `[link] `_ + +* Schmidt H, Grübl A, Montes J, Müller E, Schmitt S and Schemmel J (2024) + **Demonstrating the Advantages of Analog Wafer-Scale Neuromorphic Hardware.** + arXiv:2412.02619 [cs.NE]. + doi: 10.48550/arXiv.2412.02619 + `[link] `_ + +* Wang C, Zhang T, He S, Gu H, Li S and Wu S (2024) + **A differentiable brain simulator bridging brain simulation and brain-inspired + computing.** + arXiv:2311.05106 [cs.NE]. + doi: 10.48550/arXiv.2311.05106 + `[link] `_ + +* Albers J, Pronold J, Kurth AC, Vennemo SB, Haghighi Mood K, Patronis A, + Terhorst D, Jordan J, Kunkel S, Tetzlaff T, Diesmann M and Senk J (2022) + **A Modular Workflow for Performance Benchmarking of Neuronal Network + Simulations.** + Frontiers in Neuroinformatics 16:837549. + doi: 10.3389/fninf.2022.837549 + `[link] `_ + +* Senk J, Kriener B, Djurfeldt M, Voges N, Jiang H-J, Schüttler L, + Gramelsberger G, Diesmann M, Plesser HE and van Albada SJ (2022) + **Connectivity concepts in neuronal network modeling.** + PLoS Computational Biology 18(9):e1010086. + doi: 10.1371/journal.pcbi.1010086 + `[link] `_ + +* Mendes A, Rodrigues S, Duarte A, Costa V, Carrapiço F and Castelo-Branco M + (2022) + **Benchmarking spiking neural network simulators.** + Neurocomputing 502:574-588. + doi: 10.1016/j.neucom.2022.05.081 + `[link] `_ + +* Balaji, Adarsha, Adiraju, Prathyusha, Kashyap, Hirak J., Das, Anup, + Krichmar, Jeffrey L., Dutt, Nikil and Catthoor, Francky (2020) + **PyCARL: A PyNN Interface for Hardware-Software Co-Simulation of Spiking Neural + Network.** + In: 2020 International Joint Conference on Neural Networks (IJCNN). + Glasgow, United Kingdom (virtual). IEEE. + doi: 10.1109/IJCNN48605.2020.9207142 + `[link] `_ + +* Martone M, Das S, Goscinski W, Hellgren-Kotaleski J, Ho ETW, Kennedy D, + Leergaard T, Wachtler T, Yamaguchi Y and Abrams M (2019) + **Call for community review of PyNN, a simulator-independent language for + building neuronal network models** [version 1, not peer reviewed]. + F1000Research 8:74 (document). + doi: 10.7490/f1000research.1116399.1 + `[link] `_ + +* Knight JC and Nowotny T (2018) + **GPUs Outperform Current HPC and Neuromorphic Solutions in Terms of Speed and + Energy When Simulating a Highly-Connected Cortical Model.** + Frontiers in Neuroscience 12:941. + doi: 10.3389/fnins.2018.00941 + `[link] `_ + +* Rhodes O, Bogdan PA, Brenninkmeijer C, Davidson S, Fellows D, Gait A, + Lester DR, Mikaitis M, Plana LA, Rowley AGD, Stokes AB and Furber SB (2018) + **sPyNNaker: a Software Package for Running PyNN Simulations on SpiNNaker.** + Frontiers in Neuroscience 12:816. + doi: 10.3389/fnins.2018.00816 + `[link] `_ + +* Van Albada SJ, Rowley AG, Senk J, Hopkins M, Schmidt M, Stokes AB, + Lester DR, Diesmann M and Furber SB (2018) + **Performance Comparison of the Digital Neuromorphic Hardware SpiNNaker and the + Neural Network Simulation Software NEST for a Full-Scale Cortical Microcircuit + Model.** + Frontiers in Neuroscience 12:291. + doi: 10.3389/fnins.2018.00291 + `[link] `_ + +* Tingley D and Buzsáki G (2018) + **Transformation of a Spatial Map across the Hippocampal-Lateral Septal Circuit.** + Neuron 98(6):1229-1242.e5. + doi: 10.1016/j.neuron.2018.04.028 + `[link] `_ + +* Kardamakis AA (2018) + **Flowing from sense to action. Are neural integrators necessary?** + The Journal of Physiology 596(24):6131. + doi: 10.1113/JP276927 + `[link] `_ + +* Schmuker, Michael, Pfeil, Thomas and Nawrot, Martin Paul (2014) + **A neuromorphic network for generic multivariate data classification** + Proceedings of the National Academy of Sciences 111:2081-2086. + doi: 10.1073/pnas.1303053111 `[link] `_ -* Kaplan, BA, Khoei, MA, Lansner, A, & Perrinet, LU (2014) **Signature of an anticipatory response in area VI as modeled - by a probabilistic model and a spiking neural network.** In: Neural Networks (IJCNN), 2014 International Joint - Conference on (pp. 3205-3212). Beijing, China. IEEE. doi: 10.1109/IJCNN.2014.6889847 - `[link] `_ +* Kaplan BA, Khoei MA, Lansner A and Perrinet LU (2014) + **Signature of an anticipatory response in area VI as modeled by a probabilistic + model and a spiking neural network.** + In: Neural Networks (IJCNN), 2014 International Joint Conference, + pp. 3205-3212. Beijing, China. IEEE. + doi: 10.1109/IJCNN.2014.6889847 + `[link] `_ -* Djurfeldt M., Davison A.P. and Eppler J.M. (2014) **Efficient generation of connectivity in neuronal networks from - simulator-independent descriptions.** Frontiers in Neuroinformatics 8:43: doi: 10.3389/fninf.2014.00043 - `[link] `_ +* Djurfeldt M, Davison AP and Eppler JM (2014) + **Efficient generation of connectivity in neuronal networks from + simulator-independent descriptions.** + Frontiers in Neuroinformatics 8:43. + doi: 10.3389/fninf.2014.00043 + `[link] `_ -* Antolík J. and Davison A.P. (2013) **Integrated workflows for spiking neuronal network simulations.** - Frontiers in Neuroinformatics 7:34: 10.3389/fninf.2013.00034 +* Antolík J and Davison AP (2013) + **Integrated workflows for spiking neuronal network simulations.** + Frontiers in Neuroinformatics 7:34. + doi: 10.3389/fninf.2013.00034 `[link] `_ -* Pfeil, Thomas, Grübl, Andreas, Jeltsch, Sebastian, Müller, Eric, Müller, Paul, Petrovici, Mihai A., Schmuker, Michael, - Brüderle, Daniel, Schemmel, Johannes and Meier, Karlheinz (2013) **Six networks on a universal neuromorphic computing - substrate.** Frontiers in Neuroscience 7:11 doi: 10.3389/fnins.2013.00011 +* Pfeil T, Grübl A, Jeltsch S, Müller E, Müller P, Petrovici MA, Schmuker M, + Brüderle D, Schemmel J and Meier K (2013) + **Six networks on a universal neuromorphic computing substrate.** + Frontiers in Neuroscience 7:11. + doi: 10.3389/fnins.2013.00011 `[link] `_ -* Kaplan BA, Lansner A, Masson GS and Perrinet LU (2013) **Anisotropic connectivity implements motion-based prediction in - a spiking neural network.** Front. Comput. Neurosci. 7:112. doi: 10.3389/fncom.2013.00112 +* Kaplan BA, Lansner A, Masson GS and Perrinet LU (2013) + **Anisotropic connectivity implements motion-based prediction in a spiking + neural network.** + Frontiers in Computational Neuroscience 7:112. + doi: 10.3389/fncom.2013.00112 `[link] <>`_ -* Brüderle D., Petrovici M.A., Vogginger B., Ehrlich M., Pfeil T., Millner S., Grübl A., Wendt K., Müller E., - Schwartz M.O., Husmann de Oliveira D., Jeltsch S., Fieres J., Schilling M., Müller P., Breitwieser O., Petkov V., - Muller L., Davison A.P., Krishnamurthy P., Kremkow J., Lundqvist M., Muller E., Partzsch J., Scholze S., Zühl L., - Mayr C., Destexhe A., Diesmann M., Potjans T.C., Lansner A., Schüffny R., Schemmel J., Meier K. (2011) - **A Comprehensive Workflow for General-Purpose Neural Modeling with Highly Configurable Neuromorphic Hardware - Systems.** Biological Cybernetics 104: 263-296. doi: 10.1007/s00422-011-0435-9 +* Brüderle D, Petrovici MA, Vogginger B, Ehrlich M, Pfeil T, Millner S, + Grübl A, Wendt K, Müller E, Schwartz MO, Husmann de Oliveira D, + Jeltsch S, Fieres J, Schilling M, Müller P, Breitwieser O, Petkov V, + Muller L, Davison AP, Krishnamurthy P, Kremkow J, Lundqvist M, + Muller E, Partzsch J, Scholze S, Zühl L, Mayr C, Destexhe A, + Diesmann M, Potjans TC, Lansner A, Schüffny R, Schemmel J and + Meier K (2011) + **A Comprehensive Workflow for General-Purpose Neural Modeling with Highly + Configurable Neuromorphic Hardware Systems.** + Biological Cybernetics 104:263-296. + doi: 10.1007/s00422-011-0435-9 `[link] `_ -* Galluppi, Francesco, Rast, Alexander, Davies, Sergio and Furber, Steve (2010) **A general-purpose model translation - system for a universal neural chip.** Neural Information Processing. Theory and Algorithms; Lecture Notes in Computer - Science vol 6443, pp58-65 +* Galluppi F, Rast A, Davies S and Furber S (2010) + **A general-purpose model translation system for a universal neural chip.** + Neural Information Processing. Theory and Algorithms. + Lecture Notes in Computer Science 6443:58-65. `[link] `_ -* J. Nageswaran, N. Dutt, J. L. Krichmar, A. Nicolau, A. V. Veidenbaum (2009) **A configurable simulation environment - for the efficient simulation of large-scale spiking neural networks on graphics processors.** - Neural Networks 22:5-6, doi:10.1016/j.neunet.2009.06.028. +* J. Nageswaran, N. Dutt, J. L. Krichmar, A. Nicolau and A. V. Veidenbaum (2009) + **A configurable simulation environment for the efficient simulation of + large-scale spiking neural networks on graphics processors.** + Neural Networks 22(5-6). + doi: 10.1016/j.neunet.2009.06.028 `[link] `_ -* Davison AP, Hines M and Muller E (2009) **Trends in programming languages for neuroscience simulations.** - Front. Neurosci. doi:10.3389/neuro.01.036.2009. +* Davison AP, Hines M and Muller E (2009) + **Trends in programming languages for neuroscience simulations.** + Frontiers in Neuroscience. + doi: 10.3389/neuro.01.036.2009 `[link] `_ -* Davison AP, Brüderle D, Eppler J, Kremkow J, Muller E, Pecevski D, Perrinet L and Yger P (2009) **PyNN: a - common interface for neuronal network simulators.** Front. Neuroinform. 2:11. doi:10.3389/neuro.11.011.2008. +* Davison AP, Brüderle D, Eppler J, Kremkow J, Muller E, Pecevski D, + Perrinet L and Yger P (2009) + **PyNN: a common interface for neuronal network simulators.** + Frontiers in Neuroinformatics 2:11. + doi: 10.3389/neuro.11.011.2008 `[link] `_ -* Brüderle D, Muller E, Davison A, Muller E, Schemmel J and Meier K (2009) **Establishing a novel modeling tool: a - python-based interface for a neuromorphic hardware system.** - Front. Neuroinform. 3:17. doi:10.3389/neuro.11.017.2009. +* Brüderle D, Muller E, Davison A, Muller E, Schemmel J and Meier K (2009) + **Establishing a novel modeling tool: a python-based interface for a + neuromorphic hardware system.** + Frontiers in Neuroinformatics 3:17. + doi: 10.3389/neuro.11.017.2009 `[link] `_ -* Bednar JA (2009) **Topographica: building and analyzing map-level simulations from Python, C/C++, MATLAB, NEST, or - NEURON components.** Front. Neuroinform. 3:8. doi:10.3389/neuro.11.008.2009. +* Bednar JA (2009) + **Topographica: building and analyzing map-level simulations from Python, + C/C++, MATLAB, NEST, or NEURON components.** + Frontiers in Neuroinformatics 3:8. + doi: 10.3389/neuro.11.008.2009 `[link] `_ -* Goodman D and Brette R (2008) **Brian: a simulator for spiking neural networks in Python.** - Front. Neuroinform. 2:5. doi:10.3389/neuro.11.005.2008. - `[link] `_ - -* Pecevski D, Natschläger T and Schuch K (2009) **PCSIM: a parallel simulation environment for neural circuits fully - integrated with Python.** Front. Neuroinform. 3:11. doi:10.3389/neuro.11.011.2009. +* Pecevski D, Natschläger T and Schuch K (2009) + **PCSIM: a parallel simulation environment for neural circuits fully + integrated with Python.** + Frontiers in Neuroinformatics 3:11. + doi: 10.3389/neuro.11.011.2009 `[link] `_ -* Ray S and Bhalla US (2008) **PyMOOSE: interoperable scripting in Python for MOOSE.** - Front. Neuroinform. 2:6. doi:10.3389/neuro.11.006.2008. - `[link] `_ - -* Sharon Crook, R Angus Silver and Padraig Gleeson (2009) **Describing and exchanging models of neurons and neuronal - networks with NeuroML.** BMC Neuroscience, 10(Suppl 1):L1doi:10.1186/1471-2202-10-S1-L1. +* Sharon Crook, R Angus Silver and Padraig Gleeson (2009) + **Describing and exchanging models of neurons and neuronal networks with + NeuroML.** + BMC Neuroscience 10(Suppl 1):L1. + doi: 10.1186/1471-2202-10-S1-L1 `[link] `_ -* D. Brüderle, A. Grübl, K. Meier, E. Muller and J. Schemmel (2007) **A Software Framework for Tuning the Dynamics of - Neuromorphic Silicon Towards Biology.** LNCS 4507. doi:10.1007/978-3-540-73007-1. - `[link] `_ - -* B. Kaplan, D. Brüderle, J. Schemmel and K. Meier (2009) **High-Conductance States on a Neuromorphic Hardware System.** +* B. Kaplan, D. Brüderle, J. Schemmel and K. Meier (2009) + **High-Conductance States on a Neuromorphic Hardware System.** Proceedings of IJCNN 2009. `[link] `_ -* D. Brüderle (2009) **Neuroscientific Modeling with a Mixed-Signal VLSI Hardware System.** - Doctoral Dissertation, Kirchhoff-Institute for Physics, University of Heidelberg. +* D. Brüderle (2009) + **Neuroscientific Modeling with a Mixed-Signal VLSI Hardware System.** + Doctoral Dissertation, Kirchhoff-Institute for Physics, + University of Heidelberg. `[link] `_ -* A. Davison, P. Yger, J. Kremkow, L. Perrinet and E. Muller (2007) **PyNN: towards a universal neural simulator API in - Python.** BMC Neuroscience 2007, 8(Suppl 2):P2. doi:10.1186/1471-2202-8-S2-P2. - `[link] `_ - -* E. Muller, A. P. Davison, T. Brizzi, D. Bruederle, M. J. Eppler, J. Kremkow, D. Pecevski, L. Perrinet, M. Schmuker and - P. Yger (2009) **NeuralEnsemble.Org: Unifying neural simulators in Python to ease the model complexity bottleneck.** - Frontiers in Neuroinformatics Conference Abstract: Neuroinformatics 2009. doi: 10.3389/conf.neuro.11.2009.08.104. +* E. Muller, A. P. Davison, T. Brizzi, D. Bruederle, M. J. Eppler, + J. Kremkow, D. Pecevski, L. Perrinet, M. Schmuker and P. Yger (2009) + **NeuralEnsemble.Org: Unifying neural simulators in Python to ease the model + complexity bottleneck.** + Frontiers in Neuroinformatics Conference Abstract: + Neuroinformatics 2009. + doi: 10.3389/conf.neuro.11.2009.08.104 `[link] `_ + +* Goodman D and Brette R (2008) + **Brian: a simulator for spiking neural networks in Python.** + Frontiers in Neuroinformatics 2:5. + doi: 10.3389/neuro.11.005.2008 + `[link] `_ + +* Ray S and Bhalla US (2008) + **PyMOOSE: interoperable scripting in Python for MOOSE.** + Frontiers in Neuroinformatics 2:6. + doi: 10.3389/neuro.11.006.2008 + `[link] `_ + +* D. Brüderle, A. Grübl, K. Meier, E. Muller and J. Schemmel (2007) + **A Software Framework for Tuning the Dynamics of Neuromorphic Silicon + Towards Biology.** + Lecture Notes in Computer Science 4507. + doi: 10.1007/978-3-540-73007-1 + `[link] `_ + +* A. Davison, P. Yger, J. Kremkow, L. Perrinet and E. Muller (2007) + **PyNN: towards a universal neural simulator API in Python.** + BMC Neuroscience 8(Suppl 2):P2. + doi: 10.1186/1471-2202-8-S2-P2 + `[link] `_