Scientific CV

This page contains a summary of my scientific activities so far. For a shorter CV, see my profiles at Frontiers and my staff page at the INM-6.

Academic Background

• 2015-present: Postdoc at the Division High Performance Computing in Neuroscience and Simulation Lab Neuroscience of the Jülich Research Centre
• 2010-2014: Postdoc and Software Technology Coordinator at the Computational and Systems Neuroscience (INM-6) group at the Institute of Neuroscience and Medicine of the Jülich Research Centre
• 2010: Scientific Employee at the Bernstein Center for Computational Neuroscience in Freiburg
• 2010: Scientific Employee at the Norwegian University of Life Sciences in Ås, Norway
• 2006-2009: PhD studies at the Honda Research Institute Europe GmbH in Offenbach in collaboration with the Bernstein Center for Computational Neuroscience in Freiburg
• 1999-2006: Studies of Computer Science (major) and Bioinformatics (minor)

Journal Publications

• Kunkel S, Schmidt M, Eppler JM, Plesser HE, Masumoto G, Igarashi J, Ishii S, Fukai T, Morrison A, Diesmann M and Helias M (2014) Spiking network simulation code for petascale computers. Front. Neuroinform. 8:78. doi:10.3389/fninf.2014.00078
• Djurfeldt M, Davison AP and Eppler JM (2014) Efficient generation of connectivity in neuronal networks from simulator-independent descriptions. Front. Neuroinform. 8:43. doi:10.3389/fninf.2014.00043
• Crook SM, Bednar JA, Berger S, Cannon R, Davison AP, Djurfeldt M, Eppler JM, Kriener B, Furber S, Graham B, Plesser HE, Schwabe L, Smith L, Steuber V, van Albada S. (2012) Creating, documenting and sharing network models. Network: Computation in Neural Systems. 23:4. doi:10.3109/0954898X.2012.722743
• Helias M, Kunkel S, Masumoto G, Igarashi J, Eppler JM, Ishii S, Fukai T, Morrison A and Diesmann M (2012) Supercomputers ready for use as discovery machines for neuroscience. Front. Neuroinform. 6:26. doi:10.3389/fninf.2012.00026
• Kunkel S, Potjans TC, Eppler JM, Plesser HE, Morrison A, and Diesmann M (2011) Meeting the memory challenges of brain-scale network simulation. Front. Neuroinform. 5:35. doi:10.3389/fninf.2011.00035
• Djurfeldt M, Hjorth J, Eppler JM, Dudani N, Helias M, Potjans TC, Bhalla US, Diesmann M, Kotaleski JH, and Ekeberg Ö (2009) Run-Time Interoperability between Neuronal Network Simulators based on the MUSIC Framework. Neuroinformatics (2010) 8:43–60. doi:10.1007/s12021-010-9064-z
• Eppler JM (2009) A Python interface to NEST. The Neuromorphic Engineer. doi:10.2417/1200912.1703
• Davison AP, Brüderle D, Eppler JM, Kremkow J, Muller E, Pecevski DA, Perrinet L, and Yger P (2008) PyNN: A common interface for neuronal network simulators. Front. Neuroinform. doi:10.3389/neuro.11.011.2008
• Eppler JM, Helias M, Muller E, Diesmann M, and Gewaltig M-O (2008) PyNEST: A convenient interface to the NEST simulator. Front. Neuroinform. 2:12. doi:10.3389/neuro.11.012.2008

Invited Talks

• INCF Workshop on Code Generation from Model Description Languages: NEST Code Generation - Motivation and prior work
• CNS 2011: Python Guru Meditations. Tutorial: An introduction to Python for Computational Neuroscientists. Course Material is on neuralensemble.org
• CNS 2009: PyNEST: A convenient interface to the NEST simulator. Workshop: Python in Neuroscience.

Conference Contributions

• 3rd ECCOMAS Young Investigators Conference 2015: Schumann T, Frings W, Peyser A, Schenck W, ThustK, Eppler JM: Modeling the I/O behavior of the NEST simulator using a proxy. Abstract: PDF
• Nordic Neuroscience Conference 2015: Ippen T, Eppler JM, Diesmann M, Plesser HE: Massively Parallel Neuronal Network Model Construction. Abstract: PDF
• Neuroinformatics 2013: Davison AP, Djurfelt M, Eppler JM, Gleeson P, Hull M, Muller EB: An integration layer for neural simulation: PyNN in the software forest. Abstract: HTML.
• Tenth Göttingen Meeting of the German Neuroscience Society 2013: Kunkel S, Schmidt M, Eppler JM, Igarashi J, Masumoto G, Fukai T, Ishii S, Plesser HE, Morrison A, Diesmann M, Helias M: Supercomputers ready for use as discovery machines for Neuroscience. Abstract: PDF
• Neuroinformatics 2012: Helias M, Kunkel S, Eppler JM, Masumoto G, Igarashi J, Ishii S, Fukai T, Morrison A, Diesmann M: Spiking neuronal network simulation technology for contemporary supercomputers. Abstract: HTML
• Neuroinformatics 2012: Eppler JM, Djurfeldt M, Muller E, Diesmann M, Davison A: Combining simulator independent network descriptions with run-time interoperability based on PyNN and MUSIC. Abstract: HTML
• VisWeek 2012: Nowke C, Hentschel B, Kuhlen T, Eppler JM, van Albada S, Bakker R, Diesmann M, Schmidt M: VisNEST - Interactive Analysis of Neural Activity Data. Abstract: HTML
• Neuroinformatics 2011: Eppler JM, Enger H, Heiberg T, Kriener B, Plesser HE, Diesmann M, Djurfeldt M: Evaluating the Connection-Set Algebra for the neural simulator NEST. Abstract: doi:10.3389/conf.fninf.2011.08.00085, supplementary material: HTML
• Twentieth Annual Computational Neuroscience Meeting CNS 2011: Plesser HE and Eppler JM: Flexible and efficient recording of neuronal properties in large network simulations: The NEST Multimeter. Abstract: doi:10.1186/1471-2202-12-S1-P92.
• Ninth Göttingen Meeting of the German Neuroscience Society 2011: Eppler JM, Kunkel S, Plesser HE, Gewaltig M-O, Morrison A and Diesmann M: NEST: An efficient simulator for spiking neural networks. Proceedings: PDF
• BCCN Conference on Computational Neuroscience 2009: Eppler JM, Helias M, Muller E, Diesmann M and Gewaltig M-O: Convenient simulation of spiking neural networks with NEST 2. Abstract: doi:10.3389/conf.neuro.10.2009.14.103, Poster: PDF
• Neuroinformatics 2009: Muller E, Davison AP, Brizzi T, Bruederle D, Eppler JM, Kremkow J, Pecevski D, Perrinet L, Schmuker M, and Yger P: NeuralEnsembleOrg: Unifying neural simulators in Python to ease the model complexity bottleneck. Demo Session. Abstract: doi:10.3389/conf.neuro.11.2009.08.104
• Neuroinformatics 2009: Eppler JM, Kupper R, Plesser HE, and Diesmann M: NEST 2: A testsuite for a neural simulation engine. Abstract: doi:10.3389/conf.neuro.11.2009.08.042, Poster: PDF
• Neuroinformatics 2008: Diesmann M, Eppler JM, Gewaltig M-O, Morrison A, and Plesser HE: NEST 2: A parallel simulator for large neuronal networks. Demo Session. Abstract: doi:10.3389/conf.neuro.11.2008.01.137
• Neuroinformatics 2008: Eppler JM, Gewaltig M-O, Helias M, and Muller E: PyNEST: A convenient interface to the NEST simulator. Abstract: doi:10.3389/conf.neuro.11.2008.01.083, Poster: PDF
• EuroPVM/MPI 2007: Eppler JM, Plesser HE, Morrison A, Diesmann M, and Gewaltig M-O: Multithreaded and Distributed Simulation of Large Biological Neuronal Networks. Abstract: PDF, Poster: PDF
• EuroPar 2007: Plesser HE, Eppler JM, Morrison A, Diesmann M, and Gewaltig M-O: Efficient Parallel Simulation of Large-Scale Neuronal Networks on Clusters of Multiprocessor Computers. PDF, doi:10.1007/978-3-540-74466-5_71
• CNS 2006: Eppler JM, Morrison A, Diesmann M, Plesser HE, and Gewaltig M-O: Parallel and Distributed Simulation of Large Biological Neural Networks with NEST. Abstract: PDF, Poster: PDF

Teaching

• Scientific Programming 2011: Course on using the Python programming language for scientific Programming.
• Python in Computational Neuroscience 2008: Course on using the Python programming language for data analysis, plotting and setting up simulations. Course Material can be found here.
• FACETS Student Course "Modelling for beginners" 2007: Course on modelling neural networks on different levels of detail and with different tools.
• BNN 2005: Course on the simulation of biological neural networks at the Department for Computational Neurophysics at the University of Freiburg.

Miscellaneous

• 2010: PhD-Thesis: Architectures for communication between processes and software layers for a simulator for biological neural networks. Dissertation: PDF, Disputation: PDF
• 2006: Diploma thesis: A Multithreaded and Distributed System for the Simulation of Large Biological Neural Networks: PDF
• 2004: Student research project: Infoscreen