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Unsupervised Deep Learning Approach for Seizure Onset Zone localization in Epilepsy
Přidalová, Tereza ; Cimbálník, Jan (referee) ; Mehnen, Lars (advisor)
Epilepsy affects about 50 million people worldwide, with one-third of patients being drugresistant and therefore candidates for an invasive brain resection surgery. Brain resection surgery candidates undergo invasive intracranial encephalography (iEEG) monitoring to determine the seizure onset zone (SOZ). Recorded data can span over weeks and need to be manually reviewed by a physician to assess SOZ. This process can be time-consuming and burdensome due to the vast amount of collected data. This work investigates utilisation of an deep autoencoder for unsupervised data exploration and specifically its ability to discriminate between SOZ and non-SOZ (NSOZ) iEEG channels. The data used in this thesis consists of iEEG collected from 33 patients in two institutes (Mayo Clinic, Rochester, Minnesota, USA and St. Anne´s University Hospital, Brno, Czech Republic - FNUSA) who underwent invasive presurgical monitoring. The autoencoder’s capability to discriminate between SOZ and NSOZ was evaluated using a self-learned embedded feature space representation of the autoencoder network. Autoencoder features were compared to previously established biomarkers for SOZ determination. Discrimination capability was evaluated for both autoencoder features and biomarkers using a Naive Bayes classifier and leave-one-out cross-validation. The achieved area under receiver operating characteristic curve (AUROC) was 0.68 for the FNUSA and 0.56 for the Mayo dataset. Performance in discriminating between SOZ and NSOZ electrodes was not significantly different between the investigated autoencoder features and previously established biomarkers. Selecting the better performing classifier for each patient increased the AUROC to 0.75 and 0.64 for the FNUSA and Mayo dataset, respectively. The results suggest that future approaches combining biomarkers and self-learning methods have a potential to improve the SOZ vs NSOZ discrimination capability of unsupervised iEEG exploration systems, and thus to enhance the surgical management of epilepsy.
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Real-Time Processing of Intracranial EEG Signals
Begáň, Patrik ; Malik, Aamir Saeed (referee) ; Černocký, Jan (advisor)
V této práci jsme navrhli a implementovali nástroj, který je schopen zpracovávat intrakraniální EEG signály v reálném čase. To se provádí aplikací funkcí pro výpočet různých iEEG biomarkerů implementovaných v python knihovně Epycom na příchozí datový tok a uložením výsledků do databáze. Porovnali jsme výsledky vypočítané naším nástrojem s offline výpočty a vyhodnotili, zda je zpracování signálu v reálném čase vhodné pro klinickou praxi.
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Classification of high frequency oscillations in intracranial EEG
Kozlovská, Magda ; Vítek, Martin (referee) ; Ronzhina, Marina (advisor)
This Master’s thesis deals with investigation of high-frequency oscillations in intracranial electroencephalography in patients with pharmacoresistant epilepsy. It describes individual types of oscillations with respect to their frequency definition, examines their physiological differences and occurrence. In addition to conventional high-frequency oscillations (up to about 600 Hz), it also focuses on oscillations with a frequency component above 1kHz. According to recent studies, these oscillations could have higherspecificity for the determination of pathological tissue in the epileptic brain. The data for this work was obtained by manual labeling and categorization of approximately 1500 sections of the stereoencephalographic record signals of patients undergoing surgical removal of the epileptic foci and subsequently monitored for success in the operation. Differences between individual groups of oscillations and resected or unresected tissues are investigated in this work by methods using calculations of entropy signals or cross frequency coupling. The most significant results were achieved for the classification group (FR + vFR) vs. uFR, methods frequency-amplitude coupling and sample entropy 1. When categorizing according to information about channel resection, the Shannon entropy is the most successful classification parameter.
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Brain connectivity estimation
Sladký, Vladimír ; Jurčo, Juraj (referee) ; Cimbálník, Jan (advisor)
Epileptic disease is connected with change in activity of neuronal clusters. Brain connectivity analysis deals with statistic interdependencies between different neuronal centres. Earlier studies show that changes in connectivity can be seen near primary epileptic site. What is changing connectivity and its characteristic in interictal recordings are yet to be fully known. In this thesis are analyzed data from intracranial EEG electrodes, positioned in and neighboring areas of epileptic site. Changes in connectivity of epileptic site and its surroundings are observed by nonlinear correlation method. Decrease in connectivity of epileptic site during slow wave sleep was detected on frequencies above 80 Hz. Reduced connectivity was measured on the border of epileptic zone and normal tissue. Observed features are accentuated during sleep. It was also found out that connectivity at the border of epileptic zone apears to have nonlinear property. The results show that physiological processes during sleep are influencing connectivity near epileptic site and decrease in connectivity may be related to nonlinear dependence of neuronal activity at the border of epileptic zone. This study confirms hypothesis of the earlier studies and reveals new facts about connectivity of epileptic site from the perspective of nonlinear processes. Consequent study based on this findings might lead to more precise delineation of epileptic site and to better understanding of processes, which are causing epileptic fits.
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Societal and governmental perspective of patients with Dravet syndrome and Lennox-Gastaut syndrome
Krejčová, Martina ; Klimeš, Jiří (advisor) ; Grega, Dominik (referee)
Societal and governmental perspective of patients with Dravet syndrome and Lennox-Gastaut syndrome Author: Martina Krejčová Supervisor: PharmDr. Jiří Klimeš, Ph.D. Consultant: PharmDr. David Suchánek Department of Social and Clinical Pharmacy, Faculty of Pharmacy in Hradec Králové, Charles University Introduction and aims: Dravet syndrome (DS) and Lennox-Gastaut syndrome (LGS) are rare diseases. The orphan drug Epidyolex is indicated to reduce the frequency of seizures in these diseases. The aim of this work is to provide a comprehensive overview of orphan drug legislation and the potential of its reimbursement from health insurance and determine the costs of DS and LGS from a societal and governmental perspective. Methods: The data for the analysis is obtained from the questionnaire focused on the social benefit drawdown, increase in household costs, and loss of productivity of patients and their caregivers. Respondents are recruited in a cooperation with patient organisations and specialised centres. The costs from both perspectives are determined by adding the expenses of the health insurance company and the costs of lost productivity (societal perspective), or the costs to the social security system (governmental perspective). The human capital approach method (HCA) is used for the societal...
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The influence of Mozart's effect on basketball shooting accuracy in professional basketball players.
Kranjčevič, Stefan ; Pánek, David (advisor) ; Pavlů, Dagmar (referee)
Title: Mozart effect on shooting accuracy of professional basketball players Aims: The aim of this thesis is to demonstrate whether the Mozart effect impacts the success rate of free throws in young premier league basketball players compared to shooting without music. Methods: As this is a pilot study, the data acquisition on this topic first started by examining the previously written text on the Mozart. The project is an experimental pilot study involving 21 probands who were randomized into three groups. The experiment is divided into 2 parts. In the first part participants are asked to shoot one hundred free throws in five blocks of twenty. In the second part, the participants are exposed to different types of acoustic stimulus during which they throw another hundred free throws. All measurements were taken after conditioning or shooting practice for the most authentic replication of the game situation. The process of the practical part was carried out in accordance with the CRISP-DM methodology, which is one of the most widely used methodologies for knowledge capture from databases (KCD). Results: The results show a borderline low correlation between shooting with and without music, according to Pearson's correlation coefficient, with a value of 0.33. The aim of using this statistical function...
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Societal and governmental perspective of patients with Dravet syndrome and Lennox-Gastaut syndrome
Krejčová, Martina ; Klimeš, Jiří (advisor) ; Grega, Dominik (referee)
Societal and governmental perspective of patients with Dravet syndrome and Lennox-Gastaut syndrome Author: Martina Krejčová Supervisor: PharmDr. Jiří Klimeš, Ph.D. Consultant: PharmDr. David Suchánek Department of Social and Clinical Pharmacy, Faculty of Pharmacy in Hradec Králové, Charles University Introduction and aims: Dravet syndrome (DS) and Lennox-Gastaut syndrome (LGS) are rare diseases. The orphan drug Epidyolex is indicated to reduce the frequency of seizures in these diseases. The aim of this work is to provide a comprehensive overview of orphan drug legislation and the potential of its reimbursement from health insurance and determine the costs of DS and LGS from a societal and governmental perspective. Methods: The data for the analysis is obtained from the questionnaire focused on the social benefit drawdown, increase in household costs, and loss of productivity of patients and their caregivers. Respondents are recruited in a cooperation with patient organisations and specialised centres. The costs from both perspectives are determined by adding the expenses of the health insurance company and the costs of lost productivity (societal perspective), or the costs to the social security system (governmental perspective). The human capital approach method (HCA) is used for the societal...
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Detection of interictal activity in long-term stereo-EEG recordings
Šikyňová, Soňa ; Králík, Martin (referee) ; Smital, Lukáš (advisor)
In patients with pharmacoresistant focal epilepsy, complete prevention of the clinical manifestation of epilepsy is achievable through surgical removal of the epileptic zone. Accurate localization of the epileptic zone relies on the detection of interictal epileptic discharges, which serve as an essential tool. However, the effectiveness of automated interictal epileptic discharge detectors may be influenced by the patient's state of vigilance. This study demonstrates a statistically significant difference in performance between different detectors during different sleep phases. The precise temporal and spatial distribution of interictal activity holds paramount importance for identifying the epileptic zone. Inaccurate determination of the epileptic zone and unsuccessful resection can occur if the sensitivity and accuracy of detectors vary across sleep stages. Consequently, it is crucial to consider the patient's consciousness status when pinpointing the epileptic zone. One approach to address these variations in detector performance at different states of vigilance is to optimize the parameters of detection algorithms. This study includes an investigation into the optimized parameters for two interictal epileptic discharge detectors.
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Translation potential of current preclinical techniques for gene therapy of neurological diseases in clinic. A critical review.
Žideková, Paulína ; Novák, Ondřej (advisor) ; Jendelová, Pavla (referee)
Research in the field of gene therapy has potential to become a revolutionary way to the existing treatment for a wide spectrum of neurological diseases. To treat these disorders causally, by specific substituting, deleting, silencing or editing faulty genes could be a privilege of gene therapy. The concept of translational medicine is to facilitate the transfer of working principles in preclinical research into treatment in humans. Its key issue is to overcome limitations associated with the gap between the tremendous variety molecular biology tools of preclinical research and the lack of simple corresponding options in humans. Clinical implementation of most of the preclinical approaches is still considered to be limited. The main focus of this thesis is to summarize latest advancements of molecular and genetic engineering tools that themselves or in combination have the potential to promote most preclinical gene therapy of neurological diseases to clinical use. Based on that, this study aims to suggest perspective methods of treatment for selected neurological diseases.
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The role of parvalbumin interneurons in seizure initiation, propagation and termination in a mouse model of focal cortical dysplasia of type II
Populová, Jana ; Řehořová, Monika (advisor) ; Kirdajová, Denisa (referee)
Focal cortical dysplasia is a structural and functional malformation of cortical development caused by mutations in mTOR signalling cascade that can result in pharmacoresistant epilepsy. Parvalbumin interneurons are probably the most important inhibition force in the brain that can help to stop epileptic seizures and it is possible that there are changes in function of these interneurons that are dependent on focal cortical dysplasia. This thesis had the aim to create a murine model of focal cortical dysplasia type II with labeled parvalbumin interneurons. This model was created by injecting plasmid with mutated mTOR gene during in utero electroporation. Cranial window implantation was then performed over created lesion together with calcium indicator injection for measuring neuronal activity under two-photon microscope. Our results confirm the same morphological characteristics as other studies has shown and also occurence of spontaneous seizures. We have shown statistically significant differences in size of pyramidal neurons depending on lesional or non-lesional position. For parvalbumin interneurons there was no such difference. Counting these two types of neurons in lesion and outside of lesion shown a trend towards reduced numbers in lesion, however it was not significant. Data from...
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