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Weber I, Oehrn CR. NoLiTiA: An Open-Source Toolbox for Non-linear Time Series Analysis. Front Neuroinform 2022; 16:876012. [PMID: 35811996 PMCID: PMC9263366 DOI: 10.3389/fninf.2022.876012] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Accepted: 05/23/2022] [Indexed: 11/13/2022] Open
Abstract
In many scientific fields including neuroscience, climatology or physics, complex relationships can be described most parsimoniously by non-linear mechanics. Despite their relevance, many neuroscientists still apply linear estimates in order to evaluate complex interactions. This is partially due to the lack of a comprehensive compilation of non-linear methods. Available packages mostly specialize in only one aspect of non-linear time-series analysis and most often require some coding proficiency to use. Here, we introduce NoLiTiA, a free open-source MATLAB toolbox for non-linear time series analysis. In comparison to other currently available non-linear packages, NoLiTiA offers (1) an implementation of a broad range of classic and recently developed methods, (2) an implementation of newly proposed spatially and time-resolved recurrence amplitude analysis and (3) an intuitive environment accessible even to users with little coding experience due to a graphical user interface and batch-editor. The core methodology derives from three distinct fields of complex systems theory, including dynamical systems theory, recurrence quantification analysis and information theory. Besides established methodology including estimation of dynamic invariants like Lyapunov exponents and entropy-based measures, such as active information storage, we include recent developments of quantifying time-resolved aperiodic oscillations. In general, the toolbox will make non-linear methods accessible to the broad neuroscientific community engaged in time series processing.
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Affiliation(s)
- Immo Weber
- Department of Neurology, Philipps University of Marburg, Marburg, Germany
| | - Carina R. Oehrn
- Department of Neurology, Philipps University of Marburg, Marburg, Germany
- Center for Mind, Brain and Behavior, Philipps University of Marburg, Marburg, Germany
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Wang Y, Zibrandtsen IC, Lazeron RHC, van Dijk JP, Long X, Aarts RM, Wang L, Arends JBAM. Pitfalls in EEG Analysis in Patients With Nonconvulsive Status Epilepticus: A Preliminary Study. Clin EEG Neurosci 2021; 54:255-264. [PMID: 34723711 PMCID: PMC10084519 DOI: 10.1177/15500594211050492] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Objective: Electroencephalography (EEG) interpretations through visual (by human raters) and automated (by computer technology) analysis were still not reliable for the diagnosis of nonconvulsive status epilepticus (NCSE). This study aimed to identify typical pitfalls in the EEG analysis and make suggestions as to how those pitfalls might be avoided. Methods: We analyzed the EEG recordings of individuals who had clinically confirmed or suspected NCSE. Epileptiform EEG activity during seizures (ictal discharges) was visually analyzed by 2 independent raters. We investigated whether unreliable EEG visual interpretations quantified by low interrater agreement can be predicted by the characteristics of ictal discharges and individuals' clinical data. In addition, the EEG recordings were automatically analyzed by in-house algorithms. To further explore the causes of unreliable EEG interpretations, 2 epileptologists analyzed EEG patterns most likely misinterpreted as ictal discharges based on the differences between the EEG interpretations through the visual and automated analysis. Results: Short ictal discharges with a gradual onset (developing over 3 s in length) were liable to be misinterpreted. An extra 2 min of ictal discharges contributed to an increase in the kappa statistics of >0.1. Other problems were the misinterpretation of abnormal background activity (slow-wave activities, other abnormal brain activity, and the ictal-like movement artifacts), continuous interictal discharges, and continuous short ictal discharges. Conclusion: A longer duration criterion for NCSE-EEGs than 10 s that is commonly used in NCSE working criteria is recommended. Using knowledge of historical EEGs, individualized algorithms, and context-dependent alarm thresholds may also avoid the pitfalls.
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Affiliation(s)
- Ying Wang
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands.,98810Radboud University, Nijmegen, the Netherlands.,3804Academic Center for Epileptology Kempenhaeghe, Heeze, the Netherlands
| | | | - Richard H C Lazeron
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands.,3804Academic Center for Epileptology Kempenhaeghe, Heeze, the Netherlands
| | - Johannes P van Dijk
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands.,3804Academic Center for Epileptology Kempenhaeghe, Heeze, the Netherlands
| | - Xi Long
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands.,35491Philips Research, Eindhoven, the Netherlands
| | - Ronald M Aarts
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands
| | - Lei Wang
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands
| | - Johan B A M Arends
- 534522Eindhoven University of Technology, Eindhoven, the Netherlands.,3804Academic Center for Epileptology Kempenhaeghe, Heeze, the Netherlands
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Olamat A, Ozel P, Akan A. Synchronization Analysis In Epileptic EEG Signals Via State Transfer Networks Based On Visibility Graph Technique. Int J Neural Syst 2021; 32:2150041. [PMID: 34583629 DOI: 10.1142/s0129065721500416] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Epilepsy is a persistent and recurring neurological condition in a community of brain neurons that results from sudden and abnormal electrical discharges. This paper introduces a new form of assessment and interpretation of the changes in electroencephalography (EEG) recordings from different brain regions in epilepsy disorders based on graph analysis and statistical rescale range analysis. In this study, two different states of epilepsy EEG data (preictal and ictal phases), obtained from 17 subjects (18 channels each), were analyzed by a new method called state transfer network (STN). The analysis performed by STN yields a network metric called motifs, which are averaged over all channels and subjects in terms of their persistence level in the network. The results showed an increase of overall motif persistence during the ictal over the preictal phase, reflecting the synchronization increase during the seizure phase (ictal). An evaluation of intermotif cross-correlation indicated a definite manifestation of such synchronization. Moreover, these findings are compared with several other well-known methods such as synchronization likelihood (SL), visibility graph similarity (VGS), and global field synchronization (GFS). It is hinted that the STN method is in good agreement with approaches in the literature and more efficient. The most significant contribution of this research is introducing a novel nonlinear analysis technique of generalized synchronization. The STN method can be used for classifying epileptic seizures based on the synchronization changes between multichannel data.
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Affiliation(s)
- Ali Olamat
- Biomedical Engineering Department, Istanbul University, Istanbul, Turkey
| | - Pinar Ozel
- Biomedical Engineering Department, Nevsehir, Hacı Bektas Veli University, Nevsehir, Turkey
| | - Aydin Akan
- Electrical and Electronics Engineering, Department, Izmir University of Economics, Izmir, Turkey
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Wang L, Noordanus E, van Opstal AJ. Estimating multiple latencies in the auditory system from auditory steady-state responses on a single EEG channel. Sci Rep 2021; 11:2150. [PMID: 33495484 PMCID: PMC7835249 DOI: 10.1038/s41598-021-81232-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Accepted: 01/05/2021] [Indexed: 01/30/2023] Open
Abstract
The latency of the auditory steady-state response (ASSR) may provide valuable information regarding the integrity of the auditory system, as it could potentially reveal the presence of multiple intracerebral sources. To estimate multiple latencies from high-order ASSRs, we propose a novel two-stage procedure that consists of a nonparametric estimation method, called apparent latency from phase coherence (ALPC), followed by a heuristic sequential forward selection algorithm (SFS). Compared with existing methods, ALPC-SFS requires few prior assumptions, and is straightforward to implement for higher-order nonlinear responses to multi-cosine sound complexes with their initial phases set to zero. It systematically evaluates the nonlinear components of the ASSRs by estimating multiple latencies, automatically identifies involved ASSR components, and reports a latency consistency index. To verify the proposed method, we performed simulations for several scenarios: two nonlinear subsystems with different or overlapping outputs. We compared the results from our method with predictions from existing, parametric methods. We also recorded the EEG from ten normal-hearing adults by bilaterally presenting superimposed tones with four frequencies that evoke a unique set of ASSRs. From these ASSRs, two major latencies were found to be stable across subjects on repeated measurement days. The two latencies are dominated by low-frequency (LF) (near 40 Hz, at around 41-52 ms) and high-frequency (HF) (> 80 Hz, at around 21-27 ms) ASSR components. The frontal-central brain region showed longer latencies on LF components, but shorter latencies on HF components, when compared with temporal-lobe regions. In conclusion, the proposed nonparametric ALPC-SFS method, applied to zero-phase, multi-cosine sound complexes is more suitable for evaluating embedded nonlinear systems underlying ASSRs than existing methods. It may therefore be a promising objective measure for hearing performance and auditory cortex (dys)function.
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Affiliation(s)
- Lei Wang
- Department of Biophysics, Radboud University, Nijmegen, 6525 AJ, The Netherlands.
- Donders Centre for Neuroscience, Radboud University, Nijmegen, 6525 AJ, The Netherlands.
| | - Elisabeth Noordanus
- Department of Biophysics, Radboud University, Nijmegen, 6525 AJ, The Netherlands
- Donders Centre for Neuroscience, Radboud University, Nijmegen, 6525 AJ, The Netherlands
| | - A John van Opstal
- Department of Biophysics, Radboud University, Nijmegen, 6525 AJ, The Netherlands
- Donders Centre for Neuroscience, Radboud University, Nijmegen, 6525 AJ, The Netherlands
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Wang Y, Long X, van Dijk JP, Aarts RM, Wang L, Arends JBAM. False alarms reduction in non-convulsive status epilepticus detection via continuous EEG analysis. Physiol Meas 2020; 41:055009. [PMID: 32325447 DOI: 10.1088/1361-6579/ab8cb3] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
OBJECTIVE Frequent false alarms from computer-assisted monitoring systems may harm the safety of patients with non-convulsive status epilepticus (NCSE). In this study, we aimed at reducing false alarms in the NCSE detection based on preventing from three common errors: over-interpretation of abnormal background activity, dense short ictal discharges and continuous interictal discharges as ictal discharges. APPROACH We analyzed 10 participants' hospital-archived 127-hour electroencephalography (EEG) recordings with 310 ictal discharges. To reduce the false alarms caused by abnormal background activity, we used morphological features extracted by visibility graph methods in addition to time-frequency features. To reduce the false alarms caused by over-interpreting short ictal discharges and interictal discharges, we created two synthetic classes-'Suspected Non-ictal' and 'Suspected Ictal'-based on the misclassified categories and constructed a synthetic 4-class dataset combining the standard two classes-'Non-ictal' and 'Ictal'-to train a 4-class classifier. Precision-recall curves were used to compare our proposed 4-class classification model and the standard 2-class classification model with or without the morphological features in the leave-one-out cross validation stage. The sensitivity and precision were primarily used as performance metrics for the detection of a seizure event. MAIN RESULTS The 4-class classification model improved the performance of the standard 2-class model, in particular increasing the precision by 15% at an 80% sensitivity level when only time-frequency features were used. Using the morphological features, the 4-class classification model achieved the best performances: a sensitivity of 93% ± 12% and a precision of 55% ± 30% in the group level. 100% accuracy was reached in a participant's 4.3-hour recording with 5 ictal discharges. SIGNIFICANCE False alarms in the NCSE detection were remarkably reduced using the morphological features and the proposed 4-class classification model.
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Affiliation(s)
- Ying Wang
- Department of Electrical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands. Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, The Netherlands. Academic Centre for Epilepsy Kempenhaeghe, Heeze, The Netherlands
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A broadband method of quantifying phase synchronization for discriminating seizure EEG signals. Biomed Signal Process Control 2019. [DOI: 10.1016/j.bspc.2018.10.019] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Classification of epileptic EEG recordings using signal transforms and convolutional neural networks. Comput Biol Med 2019; 109:148-158. [DOI: 10.1016/j.compbiomed.2019.04.031] [Citation(s) in RCA: 76] [Impact Index Per Article: 15.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2019] [Revised: 04/22/2019] [Accepted: 04/23/2019] [Indexed: 02/05/2023]
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Wang L, Long X, Aarts RM, van Dijk JP, Arends JB. EEG-based seizure detection in patients with intellectual disability: Which EEG and clinical factors are important? Biomed Signal Process Control 2019. [DOI: 10.1016/j.bspc.2018.12.003] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Wang L, Long X, Arends JBAM, Aarts RM. EEG analysis of seizure patterns using visibility graphs for detection of generalized seizures. J Neurosci Methods 2017; 290:85-94. [PMID: 28734799 DOI: 10.1016/j.jneumeth.2017.07.013] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2017] [Revised: 06/05/2017] [Accepted: 07/13/2017] [Indexed: 01/29/2023]
Abstract
BACKGROUND The traditional EEG features in the time and frequency domain show limited seizure detection performance in the epileptic population with intellectual disability (ID). In addition, the influence of EEG seizure patterns on detection performance was less studied. NEW METHOD A single-channel EEG signal can be mapped into visibility graphs (VGS), including basic visibility graph (VG), horizontal VG (HVG), and difference VG (DVG). These graphs were used to characterize different EEG seizure patterns. To demonstrate its effectiveness in identifying EEG seizure patterns and detecting generalized seizures, EEG recordings of 615h on one EEG channel from 29 epileptic patients with ID were analyzed. RESULTS A novel feature set with discriminative power for seizure detection was obtained by using the VGS method. The degree distributions (DDs) of DVG can clearly distinguish EEG of each seizure pattern. The degree entropy and power-law degree power in DVG were proposed here for the first time, and they show significant difference between seizure and non-seizure EEG. The connecting structure measured by HVG can better distinguish seizure EEG from background than those by VG and DVG. COMPARISON WITH EXISTING METHOD A traditional EEG feature set based on frequency analysis was used here as a benchmark feature set. With a support vector machine (SVM) classifier, the seizure detection performance of the benchmark feature set (sensitivity of 24%, FDt/h of 1.8s) can be improved by combining our proposed VGS features extracted from one EEG channel (sensitivity of 38%, FDt/h of 1.4s). CONCLUSIONS The proposed VGS-based features can help improve seizure detection for ID patients.
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Affiliation(s)
- Lei Wang
- Department of Electrical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands; Epilepsy Center Kempenhaeghe, Heeze, The Netherlands.
| | - Xi Long
- Department of Electrical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands; Philips Research, Eindhoven, The Netherlands.
| | - Johan B A M Arends
- Department of Electrical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands; Epilepsy Center Kempenhaeghe, Heeze, The Netherlands
| | - Ronald M Aarts
- Department of Electrical Engineering, Eindhoven University of Technology, Eindhoven, The Netherlands; Philips Research, Eindhoven, The Netherlands
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