Publications by Lida Kanari | EPFL Graph Search

Of mice and men: Dendritic architecture differentiates human from mouse neuronal networks

Kathryn Hess Bellwald, Henry Markram, Rodrigo de Campos Perin, Alexis Arnaudon, Julie Meystre, Maurizio Ferdinando Pezzoli, Ying Shi, Lida Kanari, Natali Barros Zulaica

The organizational principles that distinguish the human brain from other species have been a long-standing enigma in neuroscience. Focusing on the uniquely evolved human cortical layers 2 and 3, we computationally reconstruct the cortical architecture for ...

2025

Computational Generation of Long-range Axonal Morphologies

Henry Markram, Lida Kanari

Long-range axons are fundamental to brain connectivity and functional organization, enabling communication between different brain regions. Recent advances in experimental techniques have yielded a substantial number of whole-brain axonal reconstructions. ...

HUMANA PRESS INC2025

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,

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, , , , ,

BlueCelluLab: Biologically Detailed Neural Network Experimentation API

Henry Markram, Eilif Benjamin Muller, Werner Alfons Hilda Van Geit, Lida Kanari, Aurélien Tristan Jaquier, Mustafa Anil Tuncel, Darshan Mandge

The NEURON simulator, established in 1984 and continuously developed since, stands as the preeminent tool for neuron simulation within computational neuroscience. Its widespread adoption and compatibility with computational clusters and supercomputers unde ...

The Open Journal2024

Controlling morpho-electrophysiological variability of neurons with detailed models

Henry Markram, Alexis Arnaudon, Werner Alfons Hilda Van Geit, Lida Kanari, Maria Reva, Mickael Maurice Zbili

Variability, which is known to be a universal feature among biological units such as neuronal cells, holds significant importance, as, for example, it enables a robust encoding of a high volume of information in neuronal circuits and prevents hypersynchron ...

Cell Press2023

Computational synthesis of cortical dendritic morphologies

Kathryn Hess Bellwald, Henry Markram, Alexis Arnaudon, Julian Charles Shillcock, Werner Alfons Hilda Van Geit, Lida Kanari, Benoît Jean-Albert Coste, Hugo Thabo Dictus

Neuronal morphologies provide the foundation for the electrical behavior of neurons, the connectomes they form, and the dynamical properties of the brain. Comprehensive neuron models are essential for defining cell types, discerning their functional roles, ...

CELL PRESS2022

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

Henry Markram, Felix Schürmann, Lida Kanari, Natali Barros Zulaica

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 ...

OXFORD UNIV PRESS INC2022

A tool for mapping microglial morphology, morphOMICs, reveals brain-region and sex-dependent phenotypes

Kathryn Hess Bellwald, Lida Kanari, Martina Scolamiero

Environmental cues influence the highly dynamic morphology of microglia. Strategies to characterize these changes usually involve user-selected morphometric features, which preclude the identification of a spectrum of context-dependent morphological phenot ...

NATURE PORTFOLIO2022

Synthesis of branching morphologies

Henry Markram, Lida Kanari

Methods, systems, and apparatus, including computer programs encoded on a computer storage medium for generating model neurons. In one aspect, a method includes receiving a plurality of descriptions of branches of dendrites of one or more neurons and gener ...

2021

Digital Reconstruction of the Neuro-Glia-Vascular Architecture

Kathryn Hess Bellwald, Henry Markram, Felix Schürmann, Corrado Cali, Alexis Arnaudon, Daniel Keller, Marwan Muhammad Ahmed Abdellah, Lida Kanari, Eleftherios Zisis, Michael Emiel Gevaert, Benoît Jean-Albert Coste, Thomas Brice Delemontex, Alessandro Enrico Foni

Astrocytes connect the vasculature to neurons mediating the supply of nutrients and biochemicals. They are involved in a growing number of physiological and pathophysiological processes that result from biophysical, physiological, and molecular interaction ...

OXFORD UNIV PRESS INC2021

From Trees to Barcodes and Back Again: Theoretical and Statistical Perspectives

Kathryn Hess Bellwald, Lida Kanari, Adélie Eliane Garin

Methods of topological data analysis have been successfully applied in a wide range of fields to provide useful summaries of the structure of complex data sets in terms of topological descriptors, such as persistence diagrams. While there are many powerful ...

2020

Topological classification of retinal microglia during development

Kathryn Hess Bellwald, Lida Kanari

ASSOC RESEARCH VISION OPHTHALMOLOGY INC2019

Objective Morphological Classification of Neocortical Pyramidal Cells

Kathryn Hess Bellwald, Henry Markram, Rodrigo de Campos Perin, Srikanth Ramaswamy, Julie Meystre, Yun Wang, Ying Shi, Marwan Muhammad Ahmed Abdellah, Lida Kanari

A consensus on the number of morphologically different types of pyramidal cells (PCs) in the neocortex has not yet been reached, despite over a century of anatomical studies, due to the lack of agreement on the subjective classifications of neuron types, w ...

Oxford University Press (OUP)2019

Neuronal morphologies: the shapes of thoughts

Lida Kanari

The mammalian brain, one of the most fascinating systems in nature, is a complex biological structure that has kept scientists busy for over a century. Many of the brain's mysteries have been unraveled due to the enormous efforts of the scientific communit ...

EPFL2018

Comprehensive Morpho-Electrotonic Analysis Shows 2 Distinct Classes of L2 and L3 Pyramidal Neurons in Human Temporal Cortex

Idan Segev, Guy Antoine Atenekeng Kahou, Lida Kanari, Guy Eyal, Yair Deitcher

There have been few quantitative characterizations of the morphological, biophysical, and cable properties of neurons in the human neocortex. We employed feature-based statistical methods on a rare data set of 60 3D reconstructed pyramidal neurons from L2 ...

2017

Framework for efficient synthesis of spatially embedded morphologies

Julian Charles Shillcock, Guy Antoine Atenekeng Kahou, Lida Kanari, Juan Pablo Palacios, Liesbeth Maria L Vanherpe

Many problems in science and engineering require the ability to grow tubular or polymeric structures up to large volume fractions within a bounded region of three-dimensional space. Examples range from the construction of fibrous materials and biological c ...

Amer Physical Soc2016

In situ synthesis and simulation of polydisperse amphiphilic membranes

Julian Charles Shillcock, Guy Antoine Atenekeng Kahou, Lida Kanari, Juan Pablo Palacios, Liesbeth Maria L Vanherpe

The field of coarse-grained simulations of biopolymers and membranes has grown rapidly in recent years. Industrial groups manufacture and use polymers in fields as diverse as chemicals processing and personal care products, while academic researchers are i ...

Springer India2015

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, , , , , , , , , , , , , , , , , , , , , , , , , , , ,

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