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Multi-Subject Analysis for Brain Developmental Patterns Discovery via Tensor Decomposition of MEG Data. Neuroinformatics 2023; 21:115-141. [PMID: 36001238 DOI: 10.1007/s12021-022-09599-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/04/2022] [Indexed: 01/18/2023]
Abstract
Identification of informative signatures from electrophysiological signals is important for understanding brain developmental patterns, where techniques such as magnetoencephalography (MEG) are particularly useful. However, less attention has been given to fully utilizing the multidimensional nature of MEG data for extracting components that describe these patterns. Tensor factorizations of MEG yield components that encapsulate the data's multidimensional nature, providing parsimonious models identifying latent brain patterns for meaningful summarization of neural processes. To address the need for meaningful MEG signatures for studies of pediatric cohorts, we propose a tensor-based approach for extracting developmental signatures of multi-subject MEG data. We employ the canonical polyadic (CP) decomposition for estimating latent spatiotemporal components of the data, and use these components for group level statistical inference. Using CP decomposition along with hierarchical clustering, we were able to extract typical early and late latency event-related field (ERF) components that were discriminative of high and low performance groups ([Formula: see text]) and significantly correlated with major cognitive domains such as attention, episodic memory, executive function, and language comprehension. We demonstrate that tensor-based group level statistical inference of MEG can produce signatures descriptive of the multidimensional MEG data. Furthermore, these features can be used to study group differences in brain patterns and cognitive function of healthy children. We provide an effective tool that may be useful for assessing child developmental status and brain function directly from electrophysiological measurements and facilitate the prospective assessment of cognitive processes.
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Wang X, Liu W, Wang X, Mu Z, Xu J, Chang Y, Zhang Q, Wu J, Cong F. Shared and Unshared Feature Extraction in Major Depression During Music Listening Using Constrained Tensor Factorization. Front Hum Neurosci 2021; 15:799288. [PMID: 34975439 PMCID: PMC8714749 DOI: 10.3389/fnhum.2021.799288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Accepted: 11/22/2021] [Indexed: 11/13/2022] Open
Abstract
Ongoing electroencephalography (EEG) signals are recorded as a mixture of stimulus-elicited EEG, spontaneous EEG and noises, which poses a huge challenge to current data analyzing techniques, especially when different groups of participants are expected to have common or highly correlated brain activities and some individual dynamics. In this study, we proposed a data-driven shared and unshared feature extraction framework based on nonnegative and coupled tensor factorization, which aims to conduct group-level analysis for the EEG signals from major depression disorder (MDD) patients and healthy controls (HC) when freely listening to music. Constrained tensor factorization not only preserves the multilinear structure of the data, but also considers the common and individual components between the data. The proposed framework, combined with music information retrieval, correlation analysis, and hierarchical clustering, facilitated the simultaneous extraction of shared and unshared spatio-temporal-spectral feature patterns between/in MDD and HC groups. Finally, we obtained two shared feature patterns between MDD and HC groups, and obtained totally three individual feature patterns from HC and MDD groups. The results showed that the MDD and HC groups triggered similar brain dynamics when listening to music, but at the same time, MDD patients also brought some changes in brain oscillatory network characteristics along with music perception. These changes may provide some basis for the clinical diagnosis and the treatment of MDD patients.
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Affiliation(s)
- Xiulin Wang
- Department of Radiology, Affiliated Zhongshan Hospital of Dalian University, Dalian, China
- School of Biomedical Engineering, Faculty of Electronic Information and Electrical Engineering, Dalian University of Technology, Dalian, China
| | - Wenya Liu
- School of Biomedical Engineering, Faculty of Electronic Information and Electrical Engineering, Dalian University of Technology, Dalian, China
- Faculty of Information Technology, University of Jyväskylä, Jyvaskyla, Finland
| | - Xiaoyu Wang
- School of Biomedical Engineering, Faculty of Electronic Information and Electrical Engineering, Dalian University of Technology, Dalian, China
| | - Zhen Mu
- Department of Psychology, College of Humanities and Social Sciences, Dalian Medical University, Dalian, China
| | - Jing Xu
- Department of Neurology and Psychiatry, First Affiliated Hospital, Dalian Medical University, Dalian, China
| | - Yi Chang
- Department of Neurology and Psychiatry, First Affiliated Hospital, Dalian Medical University, Dalian, China
| | - Qing Zhang
- Department of Radiology, Affiliated Zhongshan Hospital of Dalian University, Dalian, China
| | - Jianlin Wu
- Department of Radiology, Affiliated Zhongshan Hospital of Dalian University, Dalian, China
| | - Fengyu Cong
- School of Biomedical Engineering, Faculty of Electronic Information and Electrical Engineering, Dalian University of Technology, Dalian, China
- Faculty of Information Technology, University of Jyväskylä, Jyvaskyla, Finland
- School of Artificial Intelligence, Faculty of Electronic Information and Electrical Engineering, Dalian University of Technology, Dalian, China
- Key Laboratory of Integrated Circuit and Biomedical Electronic System, Dalian University of Technology, Dalian, China
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Labounek R, Wu Z, Bridwell DA, Brázdil M, Jan J, Nestrašil I. Blind Visualization of Task-Related Networks From Visual Oddball Simultaneous EEG-fMRI Data: Spectral or Spatiospectral Model? Front Neurol 2021; 12:644874. [PMID: 33981283 PMCID: PMC8107237 DOI: 10.3389/fneur.2021.644874] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2020] [Accepted: 03/22/2021] [Indexed: 02/01/2023] Open
Abstract
Various disease conditions can alter EEG event-related responses and fMRI-BOLD signals. We hypothesized that event-related responses and their clinical alterations are imprinted in the EEG spectral domain as event-related (spatio)spectral patterns (ERSPat). We tested four EEG-fMRI fusion models utilizing EEG power spectra fluctuations (i.e., absolute spectral model - ASM; relative spectral model - RSM; absolute spatiospectral model - ASSM; and relative spatiospectral model - RSSM) for fully automated and blind visualization of task-related neural networks. Two (spatio)spectral patterns (high δ 4 band and low β 1 band) demonstrated significant negative linear relationship (p FWE < 0.05) to the frequent stimulus and three patterns (two low δ 2 and δ 3 bands, and narrow θ 1 band) demonstrated significant positive relationship (p < 0.05) to the target stimulus. These patterns were identified as ERSPats. EEG-fMRI F-map of each δ 4 model showed strong engagement of insula, cuneus, precuneus, basal ganglia, sensory-motor, motor and dorsal part of fronto-parietal control (FPCN) networks with fast HRF peak and noticeable trough. ASM and RSSM emphasized spatial statistics, and the relative power amplified the relationship to the frequent stimulus. For the δ 4 model, we detected a reduced HRF peak amplitude and a magnified HRF trough amplitude in the frontal part of the FPCN, default mode network (DMN) and in the frontal white matter. The frequent-related β 1 patterns visualized less significant and distinct suprathreshold spatial associations. Each θ 1 model showed strong involvement of lateralized left-sided sensory-motor and motor networks with simultaneous basal ganglia co-activations and reduced HRF peak and amplified HRF trough in the frontal part of the FPCN and DMN. The ASM θ 1 model preserved target-related EEG-fMRI associations in the dorsal part of the FPCN. For δ 4, β 1, and θ 1 bands, all models provided high local F-statistics in expected regions. The most robust EEG-fMRI associations were observed for ASM and RSSM.
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Affiliation(s)
- René Labounek
- Division of Clinical Behavioral Neuroscience, Department of Pediatrics, University of Minnesota, Minneapolis, MN, United States
| | - Zhuolin Wu
- Division of Clinical Behavioral Neuroscience, Department of Pediatrics, University of Minnesota, Minneapolis, MN, United States
- Department of Biomedical Engineering, University of Minnesota, Minneapolis, MN, United States
| | | | - Milan Brázdil
- Central European Institute of Technology, Masaryk University, Brno, Czechia
| | - Jiří Jan
- Department of Biomedical Engineering, Brno University of Technology, Brno, Czechia
| | - Igor Nestrašil
- Division of Clinical Behavioral Neuroscience, Department of Pediatrics, University of Minnesota, Minneapolis, MN, United States
- Center for Magnetic Resonance Research, Department of Radiology, University of Minnesota, Minneapolis, MN, United States
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Dong L, Liu X, Zhao L, Lai Y, Gong D, Liu T, Yao D. A Comparative Study of Different EEG Reference Choices for Event-Related Potentials Extracted by Independent Component Analysis. Front Neurosci 2019; 13:1068. [PMID: 31680810 PMCID: PMC6798171 DOI: 10.3389/fnins.2019.01068] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2019] [Accepted: 09/24/2019] [Indexed: 12/16/2022] Open
Abstract
In the event-related potential (ERP) of scalp electroencephalography (EEG) studies, the vertex reference (Cz), linked mastoids or ears (LM), and average reference (AVG) are popular reference methods, and the reference electrode standardization technique (REST) is increasingly applied. Because scalp EEG recordings are considered as spatially degraded signals, independent component analysis (ICA) is a widely used data-driven method for obtaining ERPs by decomposing EEG data. However, the accurate estimation of the differences in ERP components extracted by ICA with different references remains unclear. In this study, we first provided formal descriptions of the above reference methods (Cz, LM, AVG, and REST) and ICA decomposition in ERP and then investigated the influences of different reference techniques on simulation and real EEG datasets. The results revealed that (1) the reference method did not change the peak amplitudes and latencies of relative ERPs corresponding to some IC time courses; (2) there were non-negligible effects of different reference methods on both temporal ERPs and spatial topographies of some ICs; and (3) compared to Cz, LM, and AR, considering both the performances of temporal ERPs and spatial topographies, the REST reference had overall superiority. These findings provide a recommended choice of REST for ICA analysis at the trial level and contribute to empirical investigations regarding the use of reference methods in ERP domains with ICA analysis.
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Affiliation(s)
- Li Dong
- MOE Key Laboratory for Neuroinformation, The Clinical Hospital of Chengdu Brain Science Institute, University of Electronic Science and Technology of China, Chengdu, China.,School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Xiaobo Liu
- School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Lingling Zhao
- School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Yongxiu Lai
- MOE Key Laboratory for Neuroinformation, The Clinical Hospital of Chengdu Brain Science Institute, University of Electronic Science and Technology of China, Chengdu, China.,School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Diankun Gong
- MOE Key Laboratory for Neuroinformation, The Clinical Hospital of Chengdu Brain Science Institute, University of Electronic Science and Technology of China, Chengdu, China.,School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Tiejun Liu
- MOE Key Laboratory for Neuroinformation, The Clinical Hospital of Chengdu Brain Science Institute, University of Electronic Science and Technology of China, Chengdu, China.,School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
| | - Dezhong Yao
- MOE Key Laboratory for Neuroinformation, The Clinical Hospital of Chengdu Brain Science Institute, University of Electronic Science and Technology of China, Chengdu, China.,School of Life Science and Technology, Center for Information in Medicine, University of Electronic Science and Technology of China, Chengdu, China
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Smith EE, Tenke CE, Deldin PJ, Trivedi MH, Weissman MM, Auerbach RP, Bruder GE, Pizzagalli DA, Kayser J. Frontal theta and posterior alpha in resting EEG: A critical examination of convergent and discriminant validity. Psychophysiology 2019; 57:e13483. [PMID: 31578740 DOI: 10.1111/psyp.13483] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2019] [Revised: 08/28/2019] [Accepted: 08/29/2019] [Indexed: 12/22/2022]
Abstract
Prior research has identified two resting EEG biomarkers with potential for predicting functional outcomes in depression: theta current density in frontal brain regions (especially rostral anterior cingulate cortex) and alpha power over posterior scalp regions. As little is known about the discriminant and convergent validity of these putative biomarkers, a thorough evaluation of these psychometric properties was conducted toward the goal of improving clinical utility of these markers. Resting 71-channel EEG recorded from 35 healthy adults at two sessions (1-week retest) were used to systematically compare different quantification techniques for theta and alpha sources at scalp (surface Laplacian or current source density [CSD]) and brain (distributed inverse; exact low resolution electromagnetic tomography [eLORETA]) level. Signal quality was evaluated with signal-to-noise ratio, participant-level spectra, and frequency PCA covariance decomposition. Convergent and discriminant validity were assessed within a multitrait-multimethod framework. Posterior alpha was reliably identified as two spectral components, each with unique spatial patterns and condition effects (eyes open/closed), high signal quality, and good convergent and discriminant validity. In contrast, frontal theta was characterized by one low-variance component, low signal quality, lack of a distinct spectral peak, and mixed validity. Correlations between candidate biomarkers suggest that posterior alpha components constitute reliable, convergent, and discriminant biometrics in healthy adults. Component-based identification of spectral activity (CSD/eLORETA-fPCA) was superior to fixed, a priori frequency bands. Improved quantification and conceptualization of frontal theta is necessary to determine clinical utility.
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Affiliation(s)
- Ezra E Smith
- Division of Translational Epidemiology, New York State Psychiatric Institute, New York, New York, USA
| | - Craig E Tenke
- Division of Translational Epidemiology, New York State Psychiatric Institute, New York, New York, USA.,Department of Psychiatry, Vagelos College of Physicians & Surgeons, Columbia University, New York, New York, USA.,Division of Cognitive Neuroscience, New York State Psychiatric Institute, New York, New York, USA
| | - Patricia J Deldin
- Department of Psychiatry, University of Michigan, Ann Arbor, Michigan, USA
| | - Madhukar H Trivedi
- Department of Psychiatry, University of Texas, Southwestern Medical Center, Dallas, Texas, USA
| | - Myrna M Weissman
- Division of Translational Epidemiology, New York State Psychiatric Institute, New York, New York, USA.,Department of Psychiatry, Vagelos College of Physicians & Surgeons, Columbia University, New York, New York, USA
| | - Randy P Auerbach
- Department of Psychiatry, Vagelos College of Physicians & Surgeons, Columbia University, New York, New York, USA
| | - Gerard E Bruder
- Department of Psychiatry, Vagelos College of Physicians & Surgeons, Columbia University, New York, New York, USA
| | - Diego A Pizzagalli
- Department of Psychiatry, Harvard Medical School, Boston, Massachusetts, USA.,Center for Depression, Anxiety & Stress Research, McLean Hospital, Belmont, Massachusetts, USA
| | - Jürgen Kayser
- Division of Translational Epidemiology, New York State Psychiatric Institute, New York, New York, USA.,Department of Psychiatry, Vagelos College of Physicians & Surgeons, Columbia University, New York, New York, USA.,Division of Cognitive Neuroscience, New York State Psychiatric Institute, New York, New York, USA
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EEG spatiospectral patterns and their link to fMRI BOLD signal via variable hemodynamic response functions. J Neurosci Methods 2019; 318:34-46. [PMID: 30802472 DOI: 10.1016/j.jneumeth.2019.02.012] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2018] [Revised: 11/29/2018] [Accepted: 02/17/2019] [Indexed: 11/24/2022]
Abstract
BACKGROUND Spatial and temporal resolution of brain network activity can be improved by combining different modalities. Functional Magnetic Resonance Imaging (fMRI) provides full brain coverage with limited temporal resolution, while electroencephalography (EEG), estimates cortical activity with high temporal resolution. Combining them may provide improved network characterization. NEW METHOD We examined relationships between EEG spatiospectral pattern timecourses and concurrent fMRI BOLD signals using canonical hemodynamic response function (HRF) with its 1st and 2nd temporal derivatives in voxel-wise general linear models (GLM). HRF shapes were derived from EEG-fMRI time courses during "resting-state", visual oddball and semantic decision paradigms. RESULTS The resulting GLM F-maps self-organized into several different large-scale brain networks (LSBNs) often with different timing between EEG and fMRI revealed through differences in GLM-derived HRF shapes (e.g., with a lower time to peak than the canonical HRF). We demonstrate that some EEG spatiospectral patterns (related to concurrent fMRI) are weakly task-modulated. COMPARISON WITH EXISTING METHOD(S) Previously, we demonstrated 14 independent EEG spatiospectral patterns within this EEG dataset, stable across the resting-state, visual oddball and semantic decision paradigms. Here, we demonstrate that their time courses are significantly correlated with fMRI dynamics organized into LSBN structures. EEG-fMRI derived HRF peak appears earlier than the canonical HRF peak, which suggests limitations when assuming a canonical HRF shape in EEG-fMRI. CONCLUSIONS This is the first study examining EEG-fMRI relationships among independent EEG spatiospectral patterns over different paradigms. The findings highlight the importance of considering different HRF shapes when spatiotemporally characterizing brain networks using EEG and fMRI.
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Bridwell DA, Cavanagh JF, Collins AGE, Nunez MD, Srinivasan R, Stober S, Calhoun VD. Moving Beyond ERP Components: A Selective Review of Approaches to Integrate EEG and Behavior. Front Hum Neurosci 2018; 12:106. [PMID: 29632480 PMCID: PMC5879117 DOI: 10.3389/fnhum.2018.00106] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2018] [Accepted: 03/06/2018] [Indexed: 11/17/2022] Open
Abstract
Relationships between neuroimaging measures and behavior provide important clues about brain function and cognition in healthy and clinical populations. While electroencephalography (EEG) provides a portable, low cost measure of brain dynamics, it has been somewhat underrepresented in the emerging field of model-based inference. We seek to address this gap in this article by highlighting the utility of linking EEG and behavior, with an emphasis on approaches for EEG analysis that move beyond focusing on peaks or “components” derived from averaging EEG responses across trials and subjects (generating the event-related potential, ERP). First, we review methods for deriving features from EEG in order to enhance the signal within single-trials. These methods include filtering based on user-defined features (i.e., frequency decomposition, time-frequency decomposition), filtering based on data-driven properties (i.e., blind source separation, BSS), and generating more abstract representations of data (e.g., using deep learning). We then review cognitive models which extract latent variables from experimental tasks, including the drift diffusion model (DDM) and reinforcement learning (RL) approaches. Next, we discuss ways to access associations among these measures, including statistical models, data-driven joint models and cognitive joint modeling using hierarchical Bayesian models (HBMs). We think that these methodological tools are likely to contribute to theoretical advancements, and will help inform our understandings of brain dynamics that contribute to moment-to-moment cognitive function.
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Affiliation(s)
| | - James F Cavanagh
- Department of Psychology, University of New Mexico, Albuquerque, NM, United States
| | - Anne G E Collins
- Department of Psychology, University of California, Berkeley, Berkeley, CA, United States.,Helen Wills Neuroscience Institute, University of California, Berkeley, Berkeley, CA, United States
| | - Michael D Nunez
- Department of Cognitive Sciences, University of California, Irvine, Irvine, CA, United States.,Department of Biomedical Engineering, University of California, Irvine, Irvine, CA, United States
| | - Ramesh Srinivasan
- Department of Cognitive Sciences, University of California, Irvine, Irvine, CA, United States.,Department of Biomedical Engineering, University of California, Irvine, Irvine, CA, United States
| | - Sebastian Stober
- Research Focus Cognitive Sciences, University of Potsdam, Potsdam, Germany
| | - Vince D Calhoun
- The Mind Research Network, Albuquerque, NM, United States.,Department of ECE, University of New Mexico, Albuquerque, NM, United States
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Lamoš M, Mareček R, Slavíček T, Mikl M, Rektor I, Jan J. Spatial-temporal-spectral EEG patterns of BOLD functional network connectivity dynamics. J Neural Eng 2018. [PMID: 29536946 DOI: 10.1088/1741-2552/aab66b] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
OBJECTIVE Growing interest in the examination of large-scale brain network functional connectivity dynamics is accompanied by an effort to find the electrophysiological correlates. The commonly used constraints applied to spatial and spectral domains during electroencephalogram (EEG) data analysis may leave part of the neural activity unrecognized. We propose an approach that blindly reveals multimodal EEG spectral patterns that are related to the dynamics of the BOLD functional network connectivity. APPROACH The blind decomposition of EEG spectrogram by parallel factor analysis has been shown to be a useful technique for uncovering patterns of neural activity. The simultaneously acquired BOLD fMRI data were decomposed by independent component analysis. Dynamic functional connectivity was computed on the component's time series using a sliding window correlation, and between-network connectivity states were then defined based on the values of the correlation coefficients. ANOVA tests were performed to assess the relationships between the dynamics of between-network connectivity states and the fluctuations of EEG spectral patterns. MAIN RESULTS We found three patterns related to the dynamics of between-network connectivity states. The first pattern has dominant peaks in the alpha, beta, and gamma bands and is related to the dynamics between the auditory, sensorimotor, and attentional networks. The second pattern, with dominant peaks in the theta and low alpha bands, is related to the visual and default mode network. The third pattern, also with peaks in the theta and low alpha bands, is related to the auditory and frontal network. SIGNIFICANCE Our previous findings revealed a relationship between EEG spectral pattern fluctuations and the hemodynamics of large-scale brain networks. In this study, we suggest that the relationship also exists at the level of functional connectivity dynamics among large-scale brain networks when no standard spatial and spectral constraints are applied on the EEG data.
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Affiliation(s)
- Martin Lamoš
- CEITEC-Central European Institute of Technology, Masaryk University, Kamenice 5, 62500, Brno. Department of Biomedical Engineering, Brno University of Technology, Technická 12, 61600, Brno
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