Publications in 2024

  • UPCOMING! Jakub Korenek, Pavel Sanda, Jaroslav Hlinka. Towards Definition of Higher Order Causality in Complex Systems. Submitted, arXiv preprint arXiv:2409.08295 (2024). Presented at CCS2024 as "Detection of Higher Order Causality in Complex Systems". (link).
  • Caputi, Luigi, Anna Pidnebesna, and Jaroslav Hlinka. "Integral Betti signature confirms the hyperbolic geometry of brain, climate, and financial networks." Submitted, arXiv preprint arXiv:2406.15505 (2024). (link).
  • Pavel Sanda, Jaroslav Hlinka, Monica van der Berg, Antonin Skoch, Maxim Bazhenov, Georgios A. Keliris, Giri P. Krishnan. Cholinergic modulation supports dynamic switching of resting state networks through selective DMN suppression. PLoS Computational Biology. 20, e1012099, 2024. (link).
  • Barbora Rehak Buckova, Charlotte Fraza, Rastislav Rehak, Marian Kolenic, Christian Beckmann, Filip Spaniel, Andre Marquand, Jaroslav Hlinka. Using normative models pre-trained on cross-sectional data to evaluate longitudinal changes in neuroimaging data. eLife. Online, 2024. (link).
  • Christian G. Fink, Pavel Sanda, Logan Bayer, Eroma Abeysinghe, Maxim Bazhenov, Giri P. Krishnan. Python/NEURON code for simulating biophysically realistic thalamocortical dynamics during sleep. Software Impacts. 21, 100667, 2024. (link).
  • David Hartman, Aneta Pokorna, Pavel Valtr. On the connectivity and the diameter of betweenness-uniform graphs. Discrete Applied Mathematics. 342, 27-37, 2024. (link).
  • Sean R. McWhinney, Jaroslav Hlinka, Eduard Bakstein, Lorielle M. F. Dietze, Emily L. V. Corkum, Christoph Abé, Martin Alda, Nina Alexander, Francesco Benedetti, Michael Berk, Erlend Bøen, Linda M. Bonnekoh, Birgitte Boye, Katharina Brosch, Erick J. Canales-Rodríguez, Dara M. Cannon, Udo Dannlowski, Caroline Demro, Ana Diaz-Zuluaga... Tomas Hajek. Human Brain Mapping. 45, 8, e26682, 2024. (link).
  • Petr Adamek, Dominika Grygarova, Lucia Jajcay, Eduard Bakstein, Petra Furstova, Veronika Jurickova, Juraj Jonas, Veronika Langova, Iryna Neskorodana, Ladislav Kesner, Jiri Horacek. The Gaze of Schizophrenia Patients Captured by Bottom-up Saliency. Schizophrenia 10, 21, 2024. (link).

Publications in 2023

  • Arthur Matsuo Yamashita Rios de Sousa, Jaroslav Hlinka. Sign patterns symbolization and its use in improved dependence test for complex network inference. Chaos 33. 083131, 2023. (link).
  • Jakub Kopal, Jaroslav Hlinka, Elodie Despouy, Luc Valton, Marie Denuelle, Jean-Christophe Sol, Jonathan Curot, Emmanuel J. Barbeau. Large-scale network dynamics underlying the first few hundred milliseconds after stimulus presentation: An investigation of visual recognition memory using iEEG. Human Brain Mapping. e26477, 2023. (link).
  • Isa Dallmer-Zerbe, Nikola Jajcay, Jan Chvojka, Radek Janca, Petr Jezdik, Pavel Krsek, Petr Marusic, Premysl Jiruska & Jaroslav Hlinka. Computational modeling allows unsupervised classification of epileptic brain states across species. Scientific reports. 13:13436, 2023. (link).
  • Eva Landova, Silvie Radlova, Anna Pidnebesna, David Tomecek, Marketa Janovcova, Sarka Peleskova, Kristyna Sedlackova, Iveta Stolhoferova, Jakub Polak, Jaroslav Hlinka, Daniel Frynta. Toward a reliable detection of arachnophobia: subjective, behavioral, and neurophysiological measures of fear response. Frontiers in Psychiatry. 14, 11967852023, 2023. (link).
  • Caglar Cakan, Nikola Jajcay, Klaus Obermayer. neurolib: A Simulation Framework for Whole-Brain Neural Mass Modeling. Cogn Comput 15, 1132–1152 (2023). (link).
  • Vincent S.C. Chien, Peng Wang, Burkhard Maess, Yonatan Fishman, Thomas R. Knösche. Laminar neural dynamics of auditory evoked responses: Computational modeling of local field potentials in auditory cortex of non-human primates. NeuroImage, Volume 281, 120364, 2023 (link).
  • Isa Dallmer-Zerbe, Premysl Jiruska, Jaroslav Hlinka. Personalized dynamic network models of the human brain as a future tool for planning and optimizing epilepsy therapy. Epilepsia. Online 20 Jun 2023 (2023). (link).
  • Barbora Rehák Bučková, David Kala, Jakub Kořenek, Veronika Matušková, Vojtěch Kumpošt, Lenka Svobodová, Jakub Otáhal, Antonín Škoch, Vlastimil Šulc, Anna Olšerová, Martin Vyhnálek, Petr Janský, Aleš Tomek, Petr Marusič, Přemysl Jiruška, Jaroslav Hlinka. Structural connectivity-based predictors of cognitive impairment in stroke patients attributable to aging. PLoS ONE, 18, 4, 2023. (link).
  • Anna Pidnebesna, Iveta Fajnerova, Jiri Horacek, Jaroslav Hlinka. Mixture Components Inference for Sparse Regression: Introduction and Application for Estimation of Neuronal Signal from fMRI BOLD. Applied Mathematical Modelling. 116, 735-748, 2023. (link).
  • Barbora Rehák Bučková, Jan Mareš, Antonín Škoch, Jakub Kopal, Jaroslav Tintěra, Robert Dineen, Kamila Řasová & Jaroslav Hlinka. Multimodal-neuroimaging machine-learning analysis of motor disability in multiple sclerosis. Brain Imaging and Behavior, 17, 18-34, 2023. (link).
  • Stella M. Sánchez, Helmut Schmidt, Guillermo Gallardo, Alfred Anwander, Jens Brauer, Angela D. Friederici, Thomas R. Knösche. White matter brain structure predicts language performance and learning success. Human Brain mapping, 44, 1445-1455. 2023. (link)

Publications in 2022

  • Anna Pidnebesna, Pavel Sanda, Adam Kalina, Jiri Hammer, Petr Marusic, Kamil Vlcek & Jaroslav Hlinka. Tackling the challenges of group network inference from intracranial EEG data. Front. Neurosci. 16:1061867, 2022. (link).
  • Ryan Golden, Jean Erik Delanois, Pavel Sanda, Maxim Bazhenov. Sleep prevents catastrophic forgetting in spiking neural networks by forming joint synaptic weight representations. PLoS Comput Biol, 18(11): e1010628, 2022. (link).
  • Antonín Škoch, Barbora Rehák Bučková, Jan Mareš, Jaroslav Tintěra, Pavel Sanda, Lucia Jajcay, Jiří Horáček, Filip Španiel and Jaroslav Hlinka. Human brain structural connectivity matrices–ready for modelling. Scientific Data, 9, 486, 2022. (link)
  • Arthur Matsuo Yamashita Rios de Sousa and Jaroslav Hlinka. Assessing serial dependence in ordinal patterns processes using chi-squared tests with application to EEG data analysis. Chaos 32, 073126, 2022. (link)
  • Nikola Jajcay, Caglar Cakan and Klaus Obermayer. Cross-frequency slow oscillation-spindle coupling in a biophysically realistic thalamocortical neural mass model. Frontiers in Computational Neuroscience, 16:769860, 2022. (link)
  • Lucia Jajcay, David Tomeček, Jiří Horáček, Filip Španiel and Jaroslav Hlinka. Brain Functional Connectivity Asymmetry: Left Hemisphere Is More Modular. Symmetry, 14(4), 833, 2022. (link)
  • Jaroslav Hlinka, Filip Děchtěrenko, Jan Rydlo, Renáta Androvičová, Martin Vejmelka, Lucia Jajcay, Jaroslav Tintěra, Jiří Lukavský, Jiří Horáček. The intra-session reliability of functional connectivity during naturalistic viewing conditions. Psychophysiology, 00, e14075, 2022. (link)
  • Jacob Billings, Ruxandra Tivadar, Micah M. Murray, Benedetta Franceschiello & Giovanni Petri. Topological Features of Electroencephalography are Robust to Re-referencing and Preprocessing. Brain Topography. 35(1), 79-95, 2022. (link).
  • Helmut Schmidt, Thomas R Knösche. Modelling the effect of ephaptic coupling on spike propagation in peripheral nerve fibres. Biological Cybernetics, 116, 461-473, 2022. (link)

Publications in 2021

  • Jakub Kořenek and Jaroslav Hlinka. Causality in reversed time series: Reversed or conserved? Entropy, 23(8), 1067, 2021. (link)
  • Kamila Řasová, Barbora Bučková, Terezie Prokopiusová, Marie Procházková, Gabriela Angel, Magdalena Marková, Natália Hrušková, Ivana Štětkářová, Šárka Špaňhelová, Jan Mareš, Jaroslav Tintěra, Petr Zach, Vladimír Musil and Jaroslav Hlinka. A three-arm parallel-group exploratory trial documents balance improvement without much evidence of white matter integrity changes in people with multiple sclerosis following two months ambulatory neuroproprioceptive" facilitation and inhibition" physical therapy. European Journal of Physical and Rehabilitation Medicine, 57(6), 889-899, 2021. (link)
  • Moritz Gerster, Halgurd Taher, Antonín Škoch, Jaroslav Hlinka, Maxime Guye, Fabrice Bartolomei, Viktor Jirsa, Anna Zakharova, and Simona Olmi. Patient-specific network connectivity combined with a next generation neural mass model to test clinical hypothesis of seizure propagation. Frontiers in Systems Neuroscience, 15, 675272, 2021. (link)
  • Radek Janča, Alena Jahodová, Jaroslav Hlinka, Petr Jezdík, Lenka Svobodová, Martin Kudr, Adam Kalina, Petr Marusič, Pavel Kršek, Přemysl Jiruška. Ictal gamma-band interactions localize ictogenic nodes of the epileptic network in focal cortical dysplasia. Clinical Neurophysiology, 132(8), 1927-1936, 2021. (link)
  • Luigi Caputi, Anna Pidnebesna, Jaroslav Hlinka. Promises and pitfalls of topological data analysis for brain connectivity analysis. NeuroImage 118254, 2021. (link)
  • Alberto Pérez-Cervera, Jaroslav Hlinka. Perturbations both trigger and delay seizures due to generic properties of slow-fast relaxation oscillators. PLOS Computational Biology, 17(3): e1008521, 2021. (link)
  • Jan Kudlacek, Jan Chvojka, Vojtech Kumpost, Barbora Hermanovska, Antonin Posuta, John G.R.Jefferys, Matias I. Maturana, Ondrej Novak, Mark J. Cook, Jakub Otahal, Jaroslav Hlinka, Premysl Jiruska. Long-term seizure dynamics are determined by the nature of seizures and the mutual interactions between them. Neurobiology of Disease, 2021. (link)
  • Jacob Billings, Manish Saggar, Jaroslav Hlinka, Shella Keilholz, and Giovanni Petri. Simplicial and topological descriptions of human brain dynamics. Network Neuroscience, 5(2), 549–568, 2021. (link)
  • Stanislav Jiricek, Vlastimil Koudelka, Jaroslav Lacik, Cestmir Vejmola, David Kuratko, Daniel K. Wojcik, Zbynek Raida, Jaroslav Hlinka, and Tomas Palenicek. Electrical source imaging in freely moving rats: Evaluation of a 12-electrode cortical electroencephalography system. Frontiers in Neuroinformatics, 14, 589228, 2021. (link)
  • Pavel Sanda, Paola Malerba, Xi Jiang, Giri P Krishnan, Jorge Gonzalez-Martinez, Eric Halgren, Maxim Bazhenov. Bidirectional Interaction of Hippocampal Ripples and Cortical Slow Waves Leads to Coordinated Spiking Activity During NREM Sleep. Cerebral Cortex, 31:324-340, 2021 (link)

Publications in 2020

  • Marek Piorecky, Vlastimil Koudelka, Eva Miletinova, Jitka Buskova, Jan Strobl, Jiri Horacek, Martin Brunovsky, Stanislav Jiricek, Jaroslav Hlinka, David Tomecek, et al. Simultaneous fmri-eeg-based characterisation of nrem parasomnia disease: Methods and limitations. Diagnostics, 10(12):1087, 2020. (link)
  • Moritz Gerster, Rico Berner, Jakub Sawicki, Anna Zakharova, Antonı́n Škoch, Jaroslav Hlinka, Klaus Lehnertz, and Eckehard Schöll. Fitzhugh–nagumo oscillators on complex networks mimic epileptic-seizure-related synchronization phenomena. Chaos: An Interdisciplinary Journal of Nonlinear Science, 30(12):123130, 2020. (link)
  • Barbora Bučková, Martin Brunovský, Martin Bareš, Jaroslav Hlinka. Predicting Sex From EEG: Validity and Generalizability of Deep-Learning-Based Interpretable Classifier. Frontiers in Neuroscience, 14:7, 2020 (link)
  • Marián Kolenič, Filip Španiel, Jaroslav Hlinka, Martin Matějka, Pavel Knytl, Antonín Šebela, Jiří Renka, Tomas Hájek. Higher Body-Mass Index and Lower Gray Matter Volumes in First Episode of Psychosis. Frontiers in Psychiatry, 11:10, 2020 (link)
  • Jakub Kopal, Anna Pidnebesna, David Tomeček, Jaroslav Tintěra, Jaroslav Hlinka. Typicality of functional connectivity robustly captures motion artifacts in rs‐fMRI across datasets, atlases, and preprocessing pipelines. Wiley Online Library: Human Brain Mapping, 2020 (link)
  • Ladislav Kesner, Iveta Fajnerová, Petr Adámek, Martin Buchtı́k, Dominika Grygarová, Jaroslav Hlinka, Pavel Kozelka, Tereza Nekovářová, Filip Španiel, Jaroslav Tintěra, et al. Fusiform activity distinguishes between subjects with low and high xenophobic attitudes toward refugees. Frontiers in Behavioral Neuroscience, 14:98, 2020 (link)
  • Jakub Kořenek and Jaroslav Hlinka. Causal network discovery by iterative conditioning: Comparison of algorithms. Chaos: An Interdisciplinary Journal of Nonlinear Science, 30(1):013117, 2020 (preprint available at arXiv: link)
  • Matias I Maturana, Christian Meisel, Katrina Dell, Philippa J Karoly, Wendyl DSouza, David B Grayden, Anthony N Burkitt, Premysl Jiruska, Jan Kudlacek, Jaroslav Hlinka, et al. Critical slowing down as a biomarker for seizure susceptibility. Nature Communications, 11(1):1–12, 2020 (link)
  • Michal Hadrava and Jaroslav Hlinka. A dynamical systems approach to spectral music: Modelling the role of roughness and inharmonicity in perception of musical tension. Frontiers in Applied Mathematics and Statistics, 6:18, 2020 (link)
  • David Tomeček, Renata Androvičová, Iveta Fajnerová, Filip Děchtěrenko, Jan Rydlo, Jiřı́ Horáček, Jiřı́ Lukavskỳ, Jaroslav Tintěra, and Jaroslav Hlinka. Personality reflection in the brains intrinsic functional architecture remains elusive. PloS one, 15(6):e0232570, 2020 (link)
  • Iveta Fajnerova, David Greguš, Anna Francová, Eliška Nosková, Jana Kopřivová, Pavla Stopková, Jaroslav Hlinka, and Jiřı́ Horáček. Functional connectivity changes in obsessive-compulsive disorder correspond with interference control and obsessions severity. Frontiers in Neurology, 11:568, 2020 (link)

Publications in 2019

  • Isaura Oliver, Jaroslav Hlinka, Jakub Kopal, Jörn Davidsen, Quantifying the Variability in Resting-State Networks, Entropy 21 (9), 882, 2019 (link)
  • Benjamin Wahl, Ulrike Feudel, Jaroslav Hlinka, Matthias Wächter, Joachim Peinke, Jan A Freund, Residual Predictive Information Flow in the Tight Coupling Limit: Analytic Insights from a Minimalistic Model, Entropy 21 (10), 1010, 2019 (link)
  • Lukas Ramlow, Jakub Sawicki, Anna Zakharova, Jaroslav Hlinka, Jens Christian Claussen, and Eckehard Schöll. Partial synchronization in empirical brain networks as a model for unihemispheric sleep. EPL (Europhysics Letters), 126(5):50007, 2019 (link)
  • Benjamin Wahl, Ulrike Feudel, Jaroslav Hlinka, Matthias Wächter, Joachim Peinke, and Jan A. Freund. Residual predictive information flow in the tight coupling limit: Analytic insights from a minimalistic model. Entropy, 21(10), 2019 (link)
  • Yuliya Zaytseva, Jiřı́ Horáček, Jaroslav Hlinka, Iveta Fajnerová, Renata Androvičová, Jaroslav Tintěra, Virginio Salvi, Marie Balı́ková, Tom Hložek, Filip Španiel, and Tomáš Pálenı́ček. Cannabis-induced altered states of consciousness are associated with specific dynamic brain connectivity states. Journal of Psychopharmacology, 33(7):811–821, 2019 (link)

Publications in 2018

  • Chang, W.C. - Kudláček, Jan - Hlinka, Jaroslav - Chvojka, Jan - Hadrava, Michal - Kumpošt, Vojtěch - Powell, A. D. - Janča, R. - Maturana, M. I. - Karoly, P. J. - Freestone, D. R. - Cook, M. J. - Paluš, Milan - Otáhal, Jakub - Jefferys, J. G. R. - Jiruška, Přemysl : Loss of neuronal network resilience precedes seizures and determines the ictogenic nature of interictal synaptic perturbations, Nature Neuroscience, 21(12), 1742-1752, 2018. (link)
  • Pidnebesna, Anna, Tomeček, David, Hlinka, Jaroslav. BRAD: Software for BRain Activity Detection from hemodynamic response. Computer Methods and Programs in Biomedicine. 2018, 156, 113-119. (link)
  • Marino, M., Liu, Q., Koudelka, V., Porcaro, C., Hlinka, Jaroslav, Wenderoth, N., Mantini, D. Adaptive Optimal Basis Set for BCG Artifact Removal in Simultaneous EEG-fMRI. Scientific Reports. 2018, 8, 8902. (link)
  • Hartman, David, Hlinka, Jaroslav. Nonlinearity in Stock Networks. Chaos. 2018, 28(8), 083127. (link)
  • Hartman, David, Hladík, M. Regularity Radius: Properties, Approximation and a Not A Priori Exponential Algorithm. Electronic Journal of Linear Algebra. 2018, 33, 122-136. (link)
  • Chouzouris, T., Omelchenko, I., Zakharova, A., Hlinka, Jaroslav, Jiruška, Přemysl, Schöll, E. Chimera States in Brain Networks: Empirical Neural vs. Modular Fractal Connectivity. Chaos. 2018, 28(4), 045112. (link)
  • Kolenic, M., Franke, K., Hlinka, Jaroslav, Matějka, M., Čapková, J., Pausova, Z., Uher, R., Alda, M., Španiel, F., Hájek, T. Obesity, dyslipidemia and brain age in first-episode psychosis. Journal of Psychiatric Research. 2018, 99, 151-158. (link)
  • Fajnerová, I., Greguš, D., Hlinka, Jaroslav, Nekovářová, T., Škoch, A., Zítka, T., Romportl, J., Horáček, J., Žáčková, E. Could Prolonged Usage of GPS Navigation Implemented in Augmented Reality Smart Glasses Affect Hippocampal Functional Connectivity? BioMed Research International. 2018, 2018, 2716134. (link)
  • Mikoláš, P., Hlinka, Jaroslav, Škoch, A., Pitra, Zbyněk, Frodl, T., Španiel, F., Hájek, T. Machine Learning Classification of First-Episode Schizophrenia Spectrum Disorders and Controls Using Whole Brain White Matter Fractional Anisotropy. BMC Psychiatry. 2018, 18, 97. (link)
  • Rosen, B. Q., Krishnan, G. P., Sanda, Pavel, Komarov, M., Sejnowski, T., Rulkov, N., Ulbert, I., Eross, L., Madsen, J., Devinsky, O., Doyle, W., Fabo, D., Cash, S., Bazhenov, M., Halgren, E. Simulating Human Sleep Spindle MEG and EEG from Ion Channel and Circuit Level Dynamics. Journal of Neuroscience Methods. 2019, Online October 2018. (link)