Publications de Juan Bautista Hernando Vieites

Modeling and Simulation of Neocortical Micro- and Mesocircuitry. Part I: Anatomy

Kathryn Hess Bellwald, Henry Markram, Felix Schürmann, James Gonzalo King, Srikanth Ramaswamy, Juan Bautista Hernando Vieites, Alexis Arnaudon, Eilif Benjamin Muller, Daniel Keller, Michael Reimann, Huanxiang Lu, Ying Shi, Vishal Sood, Jean-Denis Georges Emile Courcol, Werner Alfons Hilda Van Geit, Lida Kanari, Juan Luis Riquelme Roman, Ran Levi, Michael Emiel Gevaert, Pramod Shivaji Kumbhar, Liesbeth Maria L Vanherpe, Armando Romani, Cyrille Pierre Henri Favreau, Judit Planas Carbonell, Adrien Michel Achille Devresse, András Ecker, Nicolas René Jean Ninin, Daniela Egas Santander, Alexander Dietz, Benoît Jean-Albert Coste, Samuel Lieven D. Lapere, Matthias Wolf, Sirio Bolaños Puchet, Hugo Thabo Dictus, Thomas Brice Delemontex, James Bryden Isbister, Janis Lazovskis, Gianluca Ficarelli, Joni Henrikki Herttuainen,

Enhancement of brain atlases with region-specific coordinate systems: flatmaps and barrel column annotations

Felix Schürmann, Juan Bautista Hernando Vieites, Michael Reimann, Huanxiang Lu, Armando Romani, Sirio Bolaños Puchet, Aleksandra Zuzanna Teska

Digital brain atlases define a hierarchy of brain regions and their locations in three-dimensional space. They provide a standard coordinate system in which diverse datasets can be integrated for visualization and analysis. They also enable building of dat ...

2024

Community-based reconstruction and simulation of a full-scale model of region CA1 of rat hippocampus

Henry Markram, Felix Schürmann, James Gonzalo King, Srikanth Ramaswamy, Juan Bautista Hernando Vieites, Alexis Arnaudon, Eilif Benjamin Muller, Michael Reimann, Huanxiang Lu, Ying Shi, Marwan Muhammad Ahmed Abdellah, Vishal Sood, Jean-Denis Georges Emile Courcol, Werner Alfons Hilda Van Geit, Lida Kanari, Juan Luis Riquelme Roman, Michael Emiel Gevaert, Pramod Shivaji Kumbhar, Liesbeth Maria L Vanherpe, Armando Romani, Cyrille Pierre Henri Favreau, Michele Migliore, Mohameth François Sy, Szabolcs Kali, Judit Planas Carbonell, Genrich Ivaska, Sàra Sàray, Carmen Alina Lupascu, Rosanna Migliore, Audrey Mercer, András Ecker, Alberto Antonietti, Cristina Colangelo, Anna-Kristin Kaufmann, Julian Martin Budd, Elisabetta Giacalone, Thomas Brice Delemontex, Davide Bella, Fabien Petitjean, , , , ,

The SONATA data format for efficient description of large-scale network models

James Gonzalo King, Juan Bautista Hernando Vieites, Eilif Benjamin Muller, Jean-Denis Georges Emile Courcol, Werner Alfons Hilda Van Geit, Michael Emiel Gevaert, Judit Planas Carbonell, Adrien Michel Achille Devresse

Increasing availability of comprehensive experimental datasets and of high-performance computing resources are driving rapid growth in scale, complexity, and biological realism of computational models in neuroscience. To support construction and simulation ...

2020

Generating High Fidelity Surface Meshes of Neocortical Neurons using Skin Modifiers

Felix Schürmann, Juan Bautista Hernando Vieites, Marwan Muhammad Ahmed Abdellah, Cyrille Pierre Henri Favreau, Samuel Lieven D. Lapere

We present the results of exploring the capabilities of skinning modifiers to generate high fidelity polygonal surface meshes of neurons from their morphological skeletons that are segmented from optical microscopy slides. Our algorithm is implemented in B ...

2019

Reconstruction and visualization of large-scale volumetric models of neocortical circuits for physically-plausible in silico optical studies

Henry Markram, Felix Schürmann, Juan Bautista Hernando Vieites, Marwan Muhammad Ahmed Abdellah, Stefan Eilemann, Nicolas Antille

Background: We present a software workflow capable of building large scale, highly detailed and realistic volumetric models of neocortical circuits from the morphological skeletons of their digitally reconstructed neurons. The limitations of the existing a ...

2017

The neocortical microcircuit collaboration portal: a resource for rat somatosensory cortex

Selim Arsever, Henry Markram, Raphael Dumusc, Felix Schürmann, James Gonzalo King, Rajnish Ranjan, Srikanth Ramaswamy, Sean Lewis Hill, Juan Bautista Hernando Vieites, Eilif Benjamin Muller, Daniel Keller, Idan Segev, Michael Reimann, John Richard Walker, Martin Telefont, Yun Wang, Ying Shi, Joseph William Graham, Marwan Muhammad Ahmed Abdellah, Julian Charles Shillcock, Jean-Denis Georges Emile Courcol, Ahmet Bilgili, Werner Alfons Hilda Van Geit, Athanassia Chalimourda, Stefan Eilemann, Guy Antoine Atenekeng Kahou, Jeffrey Christopher Muller, Lida Kanari, Stefano Zaninetta, Giuseppe Chindemi, Jafet Villafranca Diaz, Yury Brukau, Michael Emiel Gevaert, Stanislaw Ryszard Adaszewski, Nicolas Antille

We have established a multi-constraint, data-driven process to digitally reconstruct, and simulate prototypical neocortical microcircuitry, using sparse experimental data. We applied this process to reconstruct the microcircuitry of the somatosensory corte ...

2015

Reconstruction and Simulation of Neocortical Microcircuitry

Nenad Buncic, Jean-Vincent Le Bé, Selim Arsever, Henry Markram, Gilad Silberberg, Sébastien Lasserre, Vincent Delattre, Raphael Dumusc, Rodrigo de Campos Perin, Imad Riachi, Thomas Berger, Felix Schürmann, James Gonzalo King, Rajnish Ranjan, Srikanth Ramaswamy, Michael Lee Hines, Sean Lewis Hill, Juan Bautista Hernando Vieites, Georges Khazen, Shruti Muralidhar, Anastasia Ailamaki, Eilif Benjamin Muller, Farhan Tauheed, Jean Pierre Ghobril, Julie Meystre, Daniel Keller, Idan Segev, Michael Reimann, Thomas Heinis, John Richard Walker, Martin Telefont, Yun Wang, Ying Shi, Joseph William Graham, Marwan Muhammad Ahmed Abdellah, Julian Charles Shillcock, Jean-Denis Georges Emile Courcol, Ahmet Bilgili, Werner Alfons Hilda Van Geit, Athanassia Chalimourda, , , , , , , , , , , , , , , , , , , , , , , , , , , ,

A neuron membrane mesh representation for visualization of electrophysiological simulations

Henry Markram, Sébastien Lasserre, Felix Schürmann, Sean Lewis Hill, Juan Bautista Hernando Vieites

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. ...

Institute of Electrical and Electronics Engineers2012

Towards real-time visualization of detailed neural tissue models: View frustum culling for parallel rendering

Felix Schürmann, Juan Bautista Hernando Vieites

Recent efforts to model neural tissue in great anatomical detail play an important role in the shift towards simulation-based brain research. Visualization of those detailed models is an important part of the scientific workflow, allowing domain scientists ...

IEEE2012