Advanced simulation, analysis and interpretation of network structures in biological data

Project Information

SmartNets

Grant agreement ID: 860949

DOI

10.3030/860949

Project closed

EC signature date 22 June 2020

Start date 1 September 2020

End date 28 February 2025

Funded under

• EXCELLENT SCIENCE - Marie Skłodowska-Curie Actions

Total cost

€ 3 356 292,60

EU contribution

€ 3 356 292,60

Coordinated by

STICHTING RADBOUD UNIVERSITEIT
Netherlands

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Other (1)

Final Meeting and Symposium

Websites, patent fillings, videos etc. (1)

Website

Publications

Other (15)

Structure and individuality of navigation in zebrafish larvae

Author(s): Dommanget-Kott, Mattéo; Fernandez-De-Cossio-Diaz, Jorge; Coraggioso, Monica; Bormuth, Volker; Monasson, Rémi; Debrégeas, Georges; Cocco, Simona
Published in: https://hal.science/hal-04445557, Issue 1, 2024
Publisher: HAL Open Science

Structure and individuality of navigation in zebrafish larvae

Author(s): Dommanget-Kott, Mattéo; Fernandez-De-Cossio-Diaz, Jorge; Coraggioso, Monica; Bormuth, Volker; Monasson, Rémi; Debrégeas, Georges; Cocco, Simona
Published in: https://hal.science/hal-04445557, Issue 1, 2024
Publisher: HAL Open Science

Where top-down meets bottom-up: Cell-type specific connectivity map of the whisker system

Author(s): N. Rault, T. Bergmans, N. Delfstra, BJ Kleijnen, F. Zeldenrust, T. Celikel
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2023.07.31.551377

DendroTweaks: An interactive approach for unraveling dendritic dynamics

Author(s): Roman Makarov, Spyridon Chavlis, Panayiota Poirazi
Published in: 2024
Publisher: eLife Sciences Publications, Ltd
DOI: 10.7554/elife.103324

Linking Brain and Behavior States in Zebrafish Larvae Locomotion using Hidden Markov Models

Author(s): Mattéo Dommanget-Kott, Jorge Fernandez-de-Cossio-Diaz, Monica Coraggioso, Volker Bormuth, Rémi Monasson, Georges Debrégeas, Simona Cocco
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.11.22.624881

Dendrites and Efficiency: Optimizing Performance and Resource Utilization

Author(s): Roman Makarov, Michalis Pagkalos, Panayiota Poirazi
Published in: 2023
Publisher: arXiv
DOI: 10.48550/arxiv.2306.07101

Brain Olympiad reader on Computational Neuroscience & Artificial Intelligence

Author(s): Tido Bergmans, Nicolas Rault, Tousif Jamal, Nishant Joshi, Matthew Lennon, Hilal Nizamoğlu, Ildefonso Ferreira Pica, Nicole Vissers, Devin Kellis, Tobio Aarts & Fleur Zeldenrust
Published in: 2021
Publisher: Dutch Brain Olympiad

<i>DendroTweaks</i>: An interactive approach for unraveling dendritic dynamics

Author(s): Roman Makarov, Spyridon Chavlis, Panayiota Poirazi
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.09.06.611191

Neuronal Identity is Not Static—An Input-Driven Perspective

Author(s): Nishant Joshi, Sven van Der Burg, Tansu Celikel, Fleur Zeldenrust
Published in: 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.16.618657

NETSCOPE: Information-Theory based Network Discovery and Analysis

Author(s): Tido Bergmans, Tousif Jamal, Tansu Celikel
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2022.04.18.488630

Source Code - Self-consistent sharp interface theory of active condensate dynamics

Author(s): Goychuk, Andriy; Demarchi, Leonardo; Maryshev, Ivan; Frey, Erwin
Published in: Physical Review Research, 2024, Issue 1, 2024
Publisher: Zenodo
DOI: 10.5281/zenodo.12685053

Leveraging dendritic properties to advance machine learning and neuro-inspired computing

Author(s): Michalis Pagkalos, Roman Makarov, Panayiota Poirazi
Published in: 2023
Publisher: arXiv
DOI: 10.48550/arxiv.2306.08007

Structured stabilization in recurrent neural circuits through inhibitory synaptic plasticity

Author(s): Dylan Festa, Claudia Cusseddu, Julijana Gjorgjieva
Published in: 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.12.618014

Brain Olympiad Reader on Computational Neuroscience & Artificial Intelligence

Author(s): Tido Bergmans, Nicolas Rault, Tousif Jamal, Nishant Joshi, Matthew Lennon, Hilal Nizamoğlu, Ildefonso Ferreira Pica, Nicole Vissers, Devin Kellis, Tobio Aarts & Fleur Zeldenrust
Published in: Issue 1.1 (2023), 2023
Publisher: Dutch Brain Olympiad

DendroTweaks: An interactive approach for unraveling dendritic dynamics

Author(s): Roman Makarov, Spyridon Chavlis, Panayiota Poirazi
Published in: eLife, Issue 13:RP103324, 2024
Publisher: eLife Sciences Publications, Ltd
DOI: 10.7554/elife.103324.1

Conference proceedings (13)

Co-evolved structural and temporal network heterogeneity

Author(s): Iacob, S., Joshi, N., & Zeldenrust, F.
Published in: Bernstein Conference 2024, Issue 2024, 2024
Publisher: Bernstein Network
DOI: 10.12751/nncn.bc2024.309

Delay-Sensitive Local Plasticity in Echo State Networks

Author(s): Stefan Iacob, Spyridon Chavlis, Panayiota Poirazi, Joni Dambre
Published in: 2023 International Joint Conference on Neural Networks (IJCNN), 2023, Page(s) 1-8
Publisher: IEEE
DOI: 10.1109/ijcnn54540.2023.10191901

Distance-Based Delay Networks

Author(s): Stefan Iacob, Joni Dambre
Published in: International conference on neuromorphic, natural and physical computing (NNPC 2024), Issue 2024, 2024
Publisher: Neuromorphic, Natural and Physical Computing Conference

Network discovery using information theory: From molecular to functional networks

Author(s): Tido Bergmans, Tousif Jamal, Tansu Celikel
Published in: Society for Neuroscience (SfN 2023), Issue 2023, 2023
Publisher: Society for Neuroscience

Deciphering the Regulatory Control of Neuromodulatory Signaling in the Somatosensory Cortex after Sensory Deprivation

Author(s): Tousif Jamal, Tansu Celikel
Published in: Society for Neuroscience (SfN 2023), Issue 2023, 2023
Publisher: Society for Neuroscience

32nd Annual Computational Neuroscience Meeting: CNS*2023

Author(s): Rault, N., Celikel, T., & Fleur Zeldenrust
Published in: Journal of Computational Neuroscience, Issue 52, 2024, Page(s) 3-166, ISSN 0929-5313
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10827-024-00871-5

A Bio-Inspired Model for Audio Processing

Author(s): Tanguy Cazalets, Joni Dambre
Published in: 2023 RIVF International Conference on Computing and Communication Technologies (RIVF), 2024, Page(s) 458-463
Publisher: IEEE
DOI: 10.1109/rivf60135.2023.10471845

Tactile integration in the mechanoreceptors

Author(s): Rault. N., Zeldenrust, F., & Celikel, T.,
Published in: Society for Neuroscience (SfN 2024), Issue 2024, 2024
Publisher: Society for Neuroscience

Distance-Based Delays in Echo State Networks

Author(s): Stefan Iacob, Matthias Freiberger & Joni Dambre
Published in: Intelligent Data Engineering and Automated Learning – IDEAL 2022, Issue 23rd International Conference, IDEAL 2022, 2022, Page(s) 211-222, ISBN 978-3-031-21752-4
Publisher: Springer, Cham
DOI: 10.1007/978-3-031-21753-1_21

Information flow in the somatosensory system: From Mechanoreceptor to Cortex

Author(s): Rault, N., Tompos, T., Celikel, T., & Zeldenrust, F.
Published in: Bernstein Conference 2024, Issue 2024, 2024
Publisher: Bernstein Network
DOI: 10.12751/nncn.bc2024.289

High dimensional clustering reveals heterogeneity in excitatory and inhibitory cells in the neocortex

Author(s): Nishant, J., Celikel, T., & Zeldenrust, F.
Published in: Bernstein Conference 2023, Issue 2023, 2023
Publisher: Bernstein Network
DOI: 10.12751/nncn.bc2023.095

An homeostatic activity-dependent structural plasticity algorithm for richer input combination

Author(s): Tanguy Cazalets, Joni Dambre
Published in: 2023 International Joint Conference on Neural Networks (IJCNN), 2023, Page(s) 1-8
Publisher: IEEE
DOI: 10.1109/ijcnn54540.2023.10191230

DendroTweaks: An interactive approach for unraveling dendritic dynamics.

Author(s): Roman Makarov, Spyridon Chavlis, Panayiota Poirazi
Published in: FENS Forum 2024, Issue 2024, 2024
Publisher: Federation of European Neuroscience Societies
DOI: 10.57736/abba-7149

Peer reviewed articles (11)

Memory–Non-Linearity Trade-Off in Distance-Based Delay Networks

Author(s): Stefan Iacob, Joni Dambre
Published in: Biomimetics, Issue 9, 2024, Page(s) 755, ISSN 2313-7673
Publisher: MDPI
DOI: 10.3390/biomimetics9120755

Exploiting Signal Propagation Delays to Match Task Memory Requirements in Reservoir Computing

Author(s): Stefan Iacob, Joni Dambre
Published in: Biomimetics, Issue 9, 2024, Page(s) 355, ISSN 2313-7673
Publisher: MDPI journals
DOI: 10.3390/biomimetics9060355

Dendrites and efficiency: Optimizing performance and resource utilization

Author(s): Roman Makarov, Michalis Pagkalos, Panayiota Poirazi
Published in: Current Opinion in Neurobiology, Issue 83, 2024, Page(s) 102812, ISSN 0959-4388
Publisher: Elsevier BV
DOI: 10.1016/j.conb.2023.102812

Modeling the Emergence of Circuit Organization and Function during Development

Author(s): Shreya Lakhera, Elizabeth Herbert, Julijana Gjorgjieva
Published in: Cold Spring Harbor Perspectives in Biology, 2024, Page(s) a041511, ISSN 1943-0264
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/cshperspect.a041511

The dendritic engram

Author(s): George Kastellakis; Simone Tasciotti; Simone Tasciotti; Ioanna Pandi; Ioanna Pandi; Panayiota Poirazi
Published in: Frontiers in Behavioral Neuroscience, Issue Volume 17 (2023), 2023, ISSN 1662-5153
Publisher: Frontiers Research Foundation
DOI: 10.3389/fnbeh.2023.1212139

Enzyme-Enriched Condensates Show Self-Propulsion, Positioning, and Coexistence

Author(s): Demarchi, Leonardo; Goychuk, Andriy; Maryshev, Ivan; Frey, Erwin
Published in: Physical Review Letters, Issue Volume 130, Issue 12 (March 2023), 2023, ISSN 0031-9007
Publisher: American Physical Society
DOI: 10.1103/physrevlett.130.128401

Self-consistent sharp interface theory of active condensate dynamics

Author(s): Andriy Goychuk, Leonardo Demarchi, Ivan Maryshev, Erwin Frey
Published in: Physical Review Research, Issue 6, 2024, ISSN 2643-1564
Publisher: American Physical Society
DOI: 10.1103/physrevresearch.6.033082

Experience-dependent regulation of dopaminergic signaling in the somatosensory cortex

Author(s): Tousif Jamal, Xuan Yan, Angelica da Silva Lantyer, Judith G. ter Horst & Tansu Celikel
Published in: Progress in Neurobiology, Issue 2024, 2024, ISSN 0301-0082
Publisher: Pergamon Press Ltd.
DOI: 10.1016/j.pneurobio.2024.102630

Leveraging dendritic properties to advance machine learning and neuro-inspired computing

Author(s): Michalis Pagkalos, Roman Makarov, Panayiota Poirazi
Published in: Current Opinion in Neurobiology, Issue 85, 2024, Page(s) 102853, ISSN 0959-4388
Publisher: Elsevier BV
DOI: 10.1016/j.conb.2024.102853

Source Code - Self-consistent sharp interface theory of active condensate dynamics

Author(s): Goychuk, Andriy; Demarchi, Leonardo; Maryshev, Ivan; Frey, Erwin
Published in: Physical Review Research, Issue 6, 2024, ISSN 2643-1564
Publisher: American Physical Society
DOI: 10.5281/zenodo.12685053

Where Top‑Down Meets Bottom‑Up: Cell‑Type Specific Connectivity Map of the Whisker System

Author(s): Nicolas Rault, Tido Bergmans, Natasja Delfstra, Bisley J. Kleijnen, Fleur Zeldenrust & Tansu Celikel
Published in: Neuroinformatics, Issue Volume 22, Issue 2 (April 2024), 2024, ISSN 1559-0089
Publisher: Springer Science
DOI: 10.1007/s12021-024-09658-6

Thesis and dissertations (1)

Self-consistent sharp interface theory of active condensate dynamics

Author(s): Goychuk, Andriy; Demarchi, Leonardo; Maryshev, Ivan; Frey, Erwin
Published in: Issue arXiv:2401.17111 [physics.bio-ph], 2024
Publisher: arXiv
DOI: 10.48550/arxiv.2401.17111