Advancing the non-invasive assessment of brain communication in neurological disease

Joint Hierarchical Bayesian Learning of Sources and Noise for M/EEG Brain Source Imaging

Author(s): Ali Hashemi, Chang Cai, Yijing Gao, Sanjay Ghosh, Klaus-Robert Müller, Srikantan S. Nagara- jan, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

A state-space model for inferring effective connectivity of latent neural dynamics from simultaneous EEG/fMRI

Author(s): Tao Tu, John Paisley, Stefan Haufe, Paul Sajda
Published in: Advances in Neural Information Processing Systems, Issue 32, 2019, Page(s) 4662-4671
Publisher: Neural Information Processing Systems

Integrating subdural EEG-derived spectral and functional connectivity features of focal seizures to improve delineation of the epileptogenic zone

Author(s): Margarita Sison, Kara Götz, Tin Jurhar, Martin Holtkamp, Bernd Vorderwülbecke, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

ROIconnect: An open-source EEGLAB plugin for linear and non-linear functional connectivity analysis between brain source regions of interest

Author(s): Tien Dung Nguyen, Franziska Pellegrini, Zixuan Liu, Arnaud Delorme, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

The effect of whitening on explanation performance

Author(s): Benedict Clark, Stoyan Karastoyanov, Rick Wilming, Stefan Haufe
Published in: IAI Workshop @ NeurIPS 2024, 2024
Publisher: Neural Information Processing Systems Foundation

Distinguishing between- from within-site phase-amplitude coupling using antisymmetrized bispectra

Author(s): Franziska Pellegrini, Tien Dung Nguyen, Taliana Herrera, Vadim Nikulin, Guido Nolte, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Understanding brain function development and heterogeneity using normative modeling in a pediatric rs-EEG dataset

Author(s): Nikita Agarwal, Tzvetan Popov, Marius Tröndle, Nicolas Langer, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Evaluating the reconstruction of complex network measures of functional brain connectivity from M/EEG data

Author(s): Veronika Shamova, Subhi Arafat, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Robustly Estimating Transmission Time Delays under Mixed Noise Influence with Novel Cross- and Bispectrum Methods

Author(s): Tin Jurhar, Franziska Pellegrini, Ana I. Nunes del Toro, Guido Nolte, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Multivariate connectivity methods in the MNE-Python toolbox

Author(s): Thomas S. Binns, Mohammad Orabe, Tien Dung Nguyen, Richard M. Köhler, Franziska Pellegrini, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Theoretical Behavior of XAI Methods in the Presence of Suppressor Variables

Author(s): Wilming, Rick; Kieslich, Leo; Clark, Benedict; Haufe, Stefan
Published in: Proceedings of the 40th International Conference on Machine Learning, PMLR, Issue 202, 2023, Page(s) 37091-37107
Publisher: PMLR
DOI: 10.48550/arxiv.2306.01464

Investigating the effect of noise-level misspecification in M/EEG inverse solutions

Author(s): Anuja Negi, Stefan Haufe, Alexandre Gramfort, Ali Hashemi
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

The normal ranges of robust MEG functional connectomes as functions of age and gender

Author(s): Veronika Shamova, Elena Cesnaite, Vadim Nikulin, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Position: XAI needs formal notions of explanation correctness

Author(s): Stefan Haufe, Rick Wilming, Benedict Clark, Rustam Zhumagambetov, Danny Panknin, Ahcène Boubekki
Published in: IAI Workshop @ NeurIPS 2024, 2024
Publisher: Neural Information Processing Systems Foundation

Efficient hierarchical Bayesian inference for spatio-temporal regression models in neuroimaging

Author(s): Ali Hashemi, Yijing Gao, Chang Cai, Sanjay Ghosh, Klaus Robert Muller, Srikantan Nagarajan, Stefan Haufe
Published in: Advances in Neural Information Processing Systems, Issue 34, 2021
Publisher: Neural Information Processing Systems

PyBispectra: an open-source toolbox for advanced electrophysiological signal processing using the bispectrum

Author(s): Thomas S. Binns, Franziska Pellegrini, Tin Jurhar, Stefan Haufe
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Enhancing Brain Source Reconstruction Through Pseudo-Inverse Initialization and 3D Neural Networks

Author(s): Marco Morik, Ali Hashemi, Klaus-Robert Müller, Stefan Haufe, Shinichi Nakajima
Published in: Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop, 2025
Publisher: TU Berlin

Correlated Components Analysis - Extracting Reliable Dimensions in Multivariate Data

Author(s): Lucas C. Parra, Stefan Haufe, Jacek P. Dmochowski
Published in: Neurons, Behavior, Data analysis, and Theory, Issue 2, 2024, ISSN 2690-2664
Publisher: NBDT
DOI: 10.51628/001c.7125

Identifying good practices for detecting inter-regional linear functional connectivity from EEG

Author(s): Franziska Pellegrini; Arnaud Delorme; Vadim Nikulin; Stefan Haufe
Published in: NeuroImage, Issue 277, 2023, Page(s) 120218, ISSN 1095-9572
Publisher: 1053-8119
DOI: 10.1101/2022.10.05.510753

Machine learning models predict the emergence of depression in Argentinean college students during periods of COVID-19 quarantine

Author(s): Lorena Cecilia López Steinmetz, Margarita Sison, Rustam Zhumagambetov, Juan Carlos Godoy, Stefan Haufe
Published in: Frontiers in Psychiatry, Issue 15, 2024, ISSN 1664-0640
Publisher: Frontiers Research Foundation
DOI: 10.3389/fpsyt.2024.1376784

Performance reserves in brain-imaging-based phenotype prediction

Author(s): Marc-Andre Schulz; Danilo Bzdok; Stefan Haufe; John-Dylan Haynes; Kerstin Ritter
Published in: Cell Reports, Issue 43(1), 2024, Page(s) 113597, ISSN 2639-1856
Publisher: Cell Press
DOI: 10.1016/j.celrep.2023.113597

Benchmarking the influence of pre-training on explanation performance in MR image classification

Author(s): Marta Oliveira; Rick Wilming; Benedict Clark; Céline Budding; Fabian Eitel; Kerstin Ritter; Stefan Haufe; Stefan Haufe; Stefan Haufe
Published in: Frontiers in Artificial Intelligence, Issue 7, 2024, Page(s) 1330919, ISSN 2624-8212
Publisher: FrontiersIn
DOI: 10.3389/frai.2024.1330919

XAI-TRIS: non-linear image benchmarks to quantify false positive post-hoc attribution of feature importance

Author(s): Benedict Clark, Rick Wilming, Stefan Haufe
Published in: Machine Learning, Issue 113, 2024, Page(s) 6871-6910, ISSN 0885-6125
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10994-024-06574-3

Shared pathway-specific network mechanisms of dopamine and deep brain stimulation for the treatment of parkinson\textquoterights disease

Author(s): T. S. Binns, R. M. Köhler, J. Vanhoecke, M. Chikermane, M. Gerster, T. Merk, F. Pellegrini, J. L. Busch, J. G. V. Habets, A. Cavallo, J.-C. Beyer, B. Al-Fatly, N. Li, A. Horn, P. Krause, K. Faust, G.-H. Schneider, S. Haufe, A. A. Kühn, and W.-J. Neumann
Published in: Nature Communications, 2025, ISSN 2041-1723
Publisher: Nature Publishing Group

Unification of sparse Bayesian learning algorithms for electromagnetic brain imaging with the majorization minimization framework

Author(s): Ali Hashemi, Chang Cai, Gitta Kutyniok, Klaus-Robert Müller, Srikantan S. Nagarajan, Stefan Haufe
Published in: NeuroImage, Issue 239, 2021, Page(s) 118309, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2021.118309

Scrutinizing XAI using linear ground-truth data with suppressor variables

Author(s): Rick Wilming, Céline Budding, Klaus-Robert Müller, Stefan Haufe
Published in: Machine Learning, Issue 111, 2022, Page(s) 1903-1923, ISSN 1573-0565
Publisher: Springer
DOI: 10.1007/s10994-022-06167-y

Cortical networks of parkinsonian gait: a metabolic and functional connectivity study

Author(s): Franziska Pellegrini, Nicoló G. Pozzi, Chiara Palmisano, Giorgio Marotta, Andreas Buck, Stefan Haufe, Ioannis U. Isaias
Published in: Annals of Clinical and Translational Neurology, Issue 11 (10), 2024, Page(s) 2597 – 2608, ISSN 2328-9503
Publisher: Wiley
DOI: 10.1101/2023.10.09.23296653

Dopamine and deep brain stimulation accelerate the neural dynamics of volitional action in Parkinson's disease

Author(s): Richard M Köhler, Thomas S Binns, Timon Merk, Guanyu Zhu, Zixiao Yin, Baotian Zhao, Meera Chikermane, Jojo Vanhoecke, Johannes L Busch, Jeroen G V Habets, Katharina Faust, Gerd-Helge Schneider, Alessia Cavallo, Stefan Haufe, Jianguo Zhang, Andrea A Kühn, John-Dylan Haynes, Wolf-Julian Neumann
Published in: Brain, Issue 147, 2024, Page(s) 3358-3369, ISSN 0006-8950
Publisher: Oxford University Press
DOI: 10.1093/brain/awae219

Pallidal Recordings in Chronically Implanted Dystonic Patients: Mitigation of Tremor-Related Artifacts

Author(s): Jasmin Del Vecchio Del Vecchio; Ibrahem Hanafi; Nicoló Gabriele Pozzi; Philipp Capetian; Ioannis U. Isaias; Stefan Haufe; Chiara Palmisano
Published in: Bioengineering, Issue 10(2), 2023, Page(s) 476, ISSN 2306-5354
Publisher: MDPI
DOI: 10.3390/bioengineering10040476

Robust estimation of noise for electromagnetic brain imaging with the champagne algorithm

Author(s): Chang Cai, Ali Hashemi, Mithun Diwakar, Stefan Haufe, Kensuke Sekihara, Srikantan S. Nagarajan
Published in: NeuroImage, Issue 225, 2021, Page(s) 117411, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2020.117411

Joint Learning of Full-Structure Noise in Hierarchical Bayesian Regression Models

Author(s): Ali Hashemi; Chang Cai; Yijing Gao; Sanjay Ghosh; Klaus-Robert Müller; Srikantan S. Nagarajan; Stefan Haufe
Published in: IEEE Transactions on Medical Imaging, Issue 43(2), 2022, Page(s) 610 - 624, ISSN 0278-0062
Publisher: Institute of Electrical and Electronics Engineers
DOI: 10.1109/tmi.2022.3224085

EXACT: Towards a platform for empirically benchmarking machine learning model explanation methods

Author(s): Benedict Clark, Rick Wilming, Artur Dox, Paul Eschenbach, Sami Hached, Daniel Jin Wodke, Michias Taye Zewdie, Uladzislau Bruila, Marta Oliveira, Hjalmar Schulz, Luca Matteo Cornils, Danny Panknin, Ahcène Boubekki, Stefan Haufe
Published in: Measurement: Sensors, 2025, Page(s) 101794, ISSN 2665-9174
Publisher: Elsevier
DOI: 10.1016/j.measen.2024.101794

Quantifying the Effect of Demixing Approaches on Directed Connectivity Estimated Between Reconstructed EEG Sources

Author(s): Alessandra Anzolin, Paolo Presti, Frederik Van De Steen, Laura Astolfi, Stefan Haufe, Daniele Marinazzo
Published in: Brain Topography, Issue 32/4, 2019, Page(s) 655-674, ISSN 0896-0267
Publisher: Kluwer Academic/Plenum Publishers
DOI: 10.1007/s10548-019-00705-z

Gait Event Prediction Using Surface Electromyography in Parkinsonian Patients

Author(s): Stefan Haufe; Ioannis U. Isaias; Franziska Pellegrini; Chiara Palmisano
Published in: Bioengineering, Issue 10(2), 2023, Page(s) 212, ISSN 2306-5354
Publisher: MDPI
DOI: 10.3390/bioengineering10020212

Relationship between regional white matter hyperintensities and alpha oscillations in older adults

Author(s): Deniz Kumral, Elena Cesnaite, FraukeBeyer, Simon M. Hofmann, Tilman Hensch, Christian Sander, Ulrich Hegerl, Stefan Haufe, Arno Villringer, A. Veronica Witte, Vadim V. Nikulin
Published in: Neurobiology of Aging, Issue 01974580, 2022, Page(s) 1-11, ISSN 0197-4580
Publisher: Elsevier BV
DOI: 10.1016/j.neurobiolaging.2021.10.006

Empirical Bayesian localization of event-related time-frequency neural activity dynamics

Author(s): Chang Cai, Leighton Hinkley, Yijing Gao, Ali Hashemi, Stefan Haufe, Kensuke Sekihara, Srikantan S. Nagarajan
Published in: NeuroImage, Issue 258, 2024, Page(s) 119369, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2022.119369

Sensorimotor Functional Connectivity: A Neurophysiological Factor Related to BCI Performance

Author(s): Carmen Vidaurre, Stefan Haufe, Tania Jorajuría, Klaus-Robert Müller, Vadim V. Nikulin
Published in: Frontiers in Neuroscience, Issue 14, 2020, ISSN 1662-453X
Publisher: Frontiers
DOI: 10.3389/fnins.2020.575081

Test–retest reliability of resting‐state EEG in young and older adults

Author(s): Popov, Tzvetan; Tröndle, Marius; Barańczuk-Turska, Zofia; Pfeiffer, Christian; Haufe, Stefan; Langer, Nicolas
Published in: Psychophysiology, Issue 60, 2023, Page(s) e14268, ISSN 0048-5772
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/psyp.14268

A benchmark for prediction of psychiatric multimorbidity from resting EEG data in a large pediatric sample

Author(s): Langer, Nicolas; Plomecka, Martyna Beata; Tröndle, Marius; Negi, Anuja; Popov, Tzvetan; Milham, Michael; Haufe, Stefan
Published in: NeuroImage, Issue 258, 2022, Page(s) 119348, ISSN 1053-8119
Publisher: Academic Press
DOI: 10.1016/j.neuroimage.2022.119348

Temporal Signatures of Criticality in Human Cortical Excitability as Probed by Early Somatosensory Responses

Author(s): Tilman Stephani, Gunnar Waterstraat, Stefan Haufe, Gabriel Curio, Arno Villringer, Vadim V. Nikulin
Published in: The Journal of Neuroscience, Issue 40/34, 2020, Page(s) 6572-6583, ISSN 0270-6474
Publisher: Society for Neuroscience
DOI: 10.1523/jneurosci.0241-20.2020

Abstracts of Neural Traces 2024 - Advanced M/EEG Methods and Clinical Applications Workshop

Author(s): Stefan Haufe, Laura Marzetti, Nikita Agarwal, Margarita Sison, Tien Dung Nguyen, (Editors)
Published in: 2025
Publisher: TU Berlin
DOI: 10.14279/depositonce-21073

Advances in hierarchical Bayesian learning with applications to neuroimaging

Author(s): Ali Hashemi
Published in: 2023
Publisher: TU Berlin
DOI: 10.14279/depositonce-18490

Validated novel pipelines to study linear and non-linear be-tween-site functional brain interaction with application in Parkin-sonian gait

Author(s): Franziska Pellegrini
Published in: 2025
Publisher: FU Berlin

Estimating Time Delays between Signals under Mixed Noise Influence with Novel Cross- and Bispectral Methods

Author(s): Tin Jurhar, Franziska Pellegrini, Ana I. Nuñes del Toro, Tilman Stephani, Guido Nolte, Stefan Haufe
Published in: ArXiv preprint server, 2025
Publisher: ArXiv preprint server

Effect of MRI Defacing on EEG Forward and Inverse Modeling

Author(s): Angela Mitrovska, Stefan Haufe
Published in: biorXiv preprint server, 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.03.11.642561

How forgiving are M/EEG inverse solutions to noise level misspecification? An excursion into the BSI-Zoo

Author(s): Anuja Negi, Stefan Haufe, Alexandre Gramfort, Ali Hashemi
Published in: biorXiv preprint server, 2025
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2025.03.12.642831

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