Publications by Felix Schürmann

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Neuron tree topology equations can be split into two subtrees and solved on different processors with no change in accuracy, stability, or computational effort; communication costs involve only sending and receiving two double precision values by each subt ...

Reproducibility is a key requirement to scientific development. Any scientific process, including software simulations, must be able to be replicated in order to prove the robustness of its process and the validity of its results. If an approach based on t ...

We present a first-draft digital reconstruction of the microcircuitry of somatosensory cortex of juvenile rat. The reconstruction uses cellular and synaptic organizing principles to algorithmically reconstruct detailed anatomy and physiology from sparse ex ...

Domain-specific languages (DSLs) play an increasingly important role in the generation of high performing software. They allow the user to exploit domain knowledge for the generation of more efficient code on target architectures. Here, we describe a new c ...

Scientific workflows are often composed of compute-intensive simulations and data-intensive analysis and visualization, both equally important for productivity. High-performance computers run the compute-intensive phases efficiently, but data-intensive pro ...

The need for reproducible, credible, multiscale biological modeling has led to the development of standardized simulation platforms, such as the widely-used NEURON environment for computational neuroscience. Developing and maintaining NEURON over several d ...

Ultraliser is a neuroscience-specific software framework capable of creating accurate and biologically realistic 3D models of complex neuroscientific structures at intracellular (e.g. mitochondria and endoplasmic reticula), cellular (e.g. neurons and glia) ...

State-of-the-art simulations of detailed neurons follow the Bulk Synchronous Parallel execution model. Execution is divided in equidistant communication intervals, with parallel neurons interpolation and collective communication guiding synchronization. Su ...

The hippocampus is a widely studied brain region thought to play an important role in higher cognitive functions such as learning, memory, and navigation. The amount of data on this region increases every day and delineates a complex and fragmented picture ...

The spatial arrangement of Ca2+ channels and vesicles remains unknown for most CNS synapses, despite of the crucial importance of this geometrical parameter for the Ca2+ control of transmitter release. At a large model synapse, the calyx of Held, transmitt ...

We explore a first proof-of-concept application for visualizing large scale digitally reconstructed brain circuitry using signed distance functions. The significance of our method is demonstrated in comparison with using implicit geometry that is limited t ...

For neural network simulations on parallel machines, Interprocessor spike communication can be a significant portion of the total simulation time. The performance of several spike exchange methods using a Blue Gene/P (BG/P) supercomputer has been tested wi ...

Today's scientists are quickly moving from in vitro to in silico experimentation: they no longer analyze natural phenomena in a petri dish, but instead they build models and simulate them. Managing and analyzing the massive amounts of data involved in simu ...

Synaptic transmission constitutes the primary mode of communication between neurons. It is extensively studied in rodent but not human neocortex. We characterized synaptic transmission between pyramidal neurons in layers 2 and 3 using neurosurgically resec ...

The thick-tufted layer 5b pyramidal cell extends its dendritic tree to all six layers of the mammalian neocortex and serves as a major building block for the cortical column. L5b pyramidal cells have been the subject of extensive experimental and modeling ...

We present here an online platform for sharing resources underlying publications in neuroscience. It enables authors to easily upload and distribute digital resources, such as data, code, and notebooks, in a structured and systematic way. Interactivity is ...

A key element of the European Union's Human Brain Project (HBP) and other large-scale brain research projects is the simulation of large-scale model networks of neurons. Here, we argue why such simulations will likely be indispensable for bridging the scal ...

We present a process to automatically generate three-dimensional mesh representations of the complex, arborized cell membrane surface of cortical neurons (the principal information processing cells of the brain) from nonuniform morphological measurements. ...

The evaluation of small degree polynomials is critical for the computation of elementary functions. It has been extensively studied and is well documented. In this article, we evaluate existing methods for polynomial evaluation on superscalar architecture. ...

In 2020 the world was hit by the COVID-19 pandemic putting entire governments and civil societies in crisis mode. Around the globe unprecedented shortages of equipment and qualified personnel were reported in hospitals and diagnostic laboratories. When a c ...

Felix Schürmann

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Neuron splitting in compute-bound parallel network simulations enables runtime scaling with twice as many processors

Nix based fully automated workflows and ecosystem to guarantee scientific result reproducibility across software environments and systems

Reconstruction and Simulation of Neocortical Microcircuitry

An Optimizing Multi-platform Source-to-source Compiler Framework for the NEURON MODeling Language

Key/Value-enabled Flash Memory for Complex Scientific Workflows with On-line Analysis and Visualization

Modernizing the NEURON Simulator for Sustainability, Portability, and Performance

Ultraliser: a framework for creating multiscale, high-fidelity and geometrically realistic 3D models for in silico neuroscience

Fully-Asynchronous Fully-Implicit Variable-Order Variable-Timestep Simulation of Neural Networks

Reconstruction of the Hippocampus

An Exclusion Zone for Ca2+ Channels around Docked Vesicles Explains Release Control by Multiple Channels at a CNS Synapse

High Fidelity Visualization of Large Scale Digitally Reconstructed Brain Circuitry with Signed Distance Functions

Comparison of neuronal spike exchange methods on a Blue Gene/P supercomputer

SCOUT: Prefetching for Latent Structure Following Queries

Strong and reliable synaptic communication between pyramidal neurons in adult human cerebral cortex

Models of neocortical layer 5b pyramidal cells capturing a wide range of dendritic and perisomatic active properties

EBRAINS Live Papers-Interactive Resource Sheets for Computational Studies in Neuroscience

The Scientific Case for Brain Simulations

A neuron membrane mesh representation for visualization of electrophysiological simulations

Polynomial Evaluation on Superscalar Architecture, Applied to the Elementary Function e(x)

ARC: An Open Web-Platform for Request/Supply Matching for a Prioritized and Controlled COVID-19 Response