Publications by Omar Awile | EPFL Graph Search

A connectome manipulation framework for the systematic and reproducible study of structure–function relationships through simulations

Michael Reimann, Omar Awile, Matthias Wolf, James Bryden Isbister, Mustafa Kerem Kurban, Christoph Pokorny

Synaptic connectivity at the neuronal level is characterized by highly non-random features. Hypotheses about their role can be developed by correlating structural metrics to functional features. But to prove causation, manipulations of connectivity would h ...

2024

Modeling and simulation of neocortical micro- and mesocircuitry. Part II: Physiology and experimentation

Henry Markram, Felix Schürmann, James Gonzalo King, Rajnish Ranjan, Srikanth Ramaswamy, Alexis Arnaudon, Eilif Benjamin Muller, Daniel Keller, Michael Reimann, Vishal Sood, Jean-Denis Georges Emile Courcol, Werner Alfons Hilda Van Geit, Giuseppe Chindemi, Michael Emiel Gevaert, Pramod Shivaji Kumbhar, Armando Romani, Christian Andreas Rössert, Judit Planas Carbonell, Genrich Ivaska, András Ecker, Daniela Egas Santander, Natali Barros Zulaica, Alexander Dietz, Omar Awile, Samuel Lieven D. Lapere, Matthias Wolf, Sirio Bolaños Puchet, Thomas Brice Delemontex, Jorge Blanco Alonso, Mustafa Anil Tuncel, Tanguy Pierre Louis Damart, Maria Reva, James Bryden Isbister, Darshan Mandge, Weina Ji, Aleksandra Zuzanna Teska, Polina Litvak, Gianluca Ficarelli, Joni Henrikki Herttuainen, ,

MOD2IR: High-Performance Code Generation for a Biophysically Detailed Neuronal Simulation DSL

Felix Schürmann, Pramod Shivaji Kumbhar, Snehal Pramod Kumbhar, Omar Awile, Ioannis Magkanaris

Advances in computational capabilities and large volumes of experimental data have established computer simulations of brain tissue models as an important pillar in modern neuroscience. Alongside, a variety of domain specific languages (DSLs) have been dev ...

ACM2023

Editorial: Neuroscience, computing, performance, and benchmarks: Why it matters to neuroscience how fast we can compute

Felix Schürmann, Omar Awile

2023

Modernizing the NEURON Simulator for Sustainability, Portability, and Performance

Felix Schürmann, James Gonzalo King, Pramod Shivaji Kumbhar, Omar Awile, Ioannis Magkanaris

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 ...

2022

STEPS 4.0: Fast and memory-efficient molecular simulations of neurons at the nanoscale

Felix Schürmann, James Gonzalo King, Christos Kotsalos, Pramod Shivaji Kumbhar, Iain Hepburn, Weiliang Chen, Tristan Mathieu Carel, Samuel Marie A Melchior, Omar Awile, Baudouin Paul Michel Maria Joseph Del Marmol, Alessandro Cattabiani, Giacomo Castiglioni, Nicola Cantarutti

Recent advances in computational neuroscience have demonstrated the usefulness and importance of stochastic, spatial reaction-diffusion simulations. However, ever increasing model complexity renders traditional serial solvers, as well as naive parallel imp ...

FRONTIERS MEDIA SA2022

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

Felix Schürmann, James Gonzalo King, Michael Lee Hines, Pramod Shivaji Kumbhar, Omar Awile, Jorge Blanco Alonso, Liam Roger George Keegan

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 ...

Springer2020

CoreNEURON: Performance and Energy Efficiency Evaluation on Intel and Arm CPUs

Omar Awile, Ioannis Magkanaris

The simulation of detailed neuronal circuits is based on computationally expensive software simulations and requires access to a large computing cluster. The appearance of new Instruction Set Architectures (ISAs) in most recent High-Performance Computing ( ...

IEEE COMPUTER SOC2020