A large proportion of patients with central motoneuron lesions is at risk of spastic paresis and formation of contractures. One of the therapeutic techniques used in patients with spastic paresis is prolonged stretching. The theoretical part summarizes the knowledge regarding spastic paresis, its clinical evaluation, the development of contractures and therapeutic interventions, especially botulinum toxin (BTX) and stretching. The aim of this study was to compare the effectiveness of prolonged stretching on spastic muscle contracture before and after BTX application. In our retrospective comparative study there were included 30 patients divided into two groups. The first group consisted of 15 patients performing prolonged stretching of the m. rectus femoris (m. RF) for three months according to Guided Self-rehabilitation Contract of Professor J. M. Gracies. The second group (15 patients) performing the same procedure, but at the same time BTX was injected into the m. RF. We monitored the change in passive knee joint range of motion into flexion and the change in 10MWT time. Statistical evaluation showed that the difference in knee joint range of motion after three months of performing prolonged stretching was statistically insignificant (p=0.194). The difference in knee joint range of motion after...

Indiana University-Purdue University Indianapolis (IUPUI) / Physical and biological phenomena that involve oscillations on multiple time scales attract attention of mathematicians because resulting equations include a small parameter that allows for decomposing a three- or higher-dimensional dynamical system into fast/slow subsystems of lower dimensionality and analyzing them independently using geometric singular perturbation theory and other techniques. However, in most life sciences applications observed dynamics is extremely complex, no small parameter exists and this approach fails. Nevertheless, it is still desirable to gain insight into behavior of these mathematical models using the only viable alternative – ad hoc computational analysis. Current dissertation is devoted to this latter approach. Neural networks in the region of the brain called basal ganglia (BG) are capable of producing rich activity patterns. For example, burst firing, i.e. a train of action potentials followed by a period of quiescence in neurons of the subthalamic nucleus (STN) in BG was shown to be related to involuntary shaking of limbs in Parkinson’s disease called tremor. The origin of tremor remains unknown; however, a few hypotheses of tremor-generation were proposed recently. The first project of this dissertation examines the BG-thalamo-cortical loop hypothesis for tremor generation by building physiologically-relevant mathematical model of tremor-related circuits with negative delayed feedback. The dynamics of the model is explored under variation of connection strength and delay parameters in the feedback loop using computational methods and data analysis techniques. The model is shown to qualitatively reproduce the transition from irregular physiological activity to pathological synchronous dynamics with varying parameters that are affected in Parkinson’s disease. Thus, the proposed model provides an explanation for the basal ganglia-thalamo-cortical loop mechanism of tremor generation. Besides tremor-related bursting activity BG structures in Parkinson’s disease also show increased synchronized activity in the beta-band (10-30Hz) that ultimately causes other parkinsonian symptoms like slowness of movement, rigidity etc. Suppression of excessively synchronous beta-band oscillatory activity is believed to suppress hypokinetic motor symptoms in Parkinson’s disease. Recently, a lot of interest has been devoted to desynchronizing delayed feedback deep brain stimulation (DBS). This type of synchrony control was shown to destabilize synchronized state in networks of simple model oscillators as well as in networks of coupled model neurons. However, the dynamics of the neural activity in Parkinson’s disease exhibits complex intermittent synchronous patterns, far from the idealized synchronized dynamics used to study the delayed feedback stimulation. The second project of this dissertation explores the action of delayed feedback stimulation on partially synchronous oscillatory dynamics, similar to what one observes experimentally in parkinsonian patients. We employ a computational model of the basal ganglia networks which reproduces the fine temporal structure of the synchronous dynamics observed experimentally. Modeling results suggest that delayed feedback DBS in Parkinson’s disease may boost rather than suppresses synchronization and is therefore unlikely to be clinically successful. Single neuron dynamics may also have important physiological meaning. For instance, bistability – coexistence of two stable solutions observed experimentally in many neurons is thought to be involved in some short-term memory tasks. Bistability that occurs at the depolarization block, i.e. a silent depolarized state a neuron enters with excessive excitatory input was proposed to play a role in improving robustness of oscillations in pacemaker-type neurons. The third project of this dissertation studies what parameters control bistability at the depolarization block in the three-dimensional conductance-based neuronal model by comparing the reduced dopaminergic neuron model to the Hodgkin-Huxley model of the squid giant axon. Bifurcation analysis and parameter variations revealed that bistability is mainly characterized by the inactivation of the Na+ current, while the activation characteristics of the Na+ and the delayed rectifier K+ currents do not account for the difference in bistability in the two models.

Indiana University-Purdue University Indianapolis (IUPUI). / Calcium/calmodulin-dependent protein kinase II (CaMKII) is a critical modulator of synaptic function, plasticity, and learning and memory. In neurons and astrocytes, CaMKII regulates cellular excitability, cytoskeletal structure, and cell metabolism. A rapid increase in CaMKII activity is observed within the first few minutes of ischemic stroke in vivo; this calcium-dependent process is also observed following glutamate stimulation in vitro. Activation of CaMKII during pathological conditions is immediately followed by inactivation and aggregation of the kinase. The extent of CaMKII inactivation is directly correlated with the extent of neuronal damage. The studies presented here show that these fluctuations in CaMKII activity are not correlated with neuronal death; rather, they play a causal role in neuronal death. Pharmacological inhibition of CaMKII in the time immediately surrounding glutamate insult protects cultured cortical neurons from excitotoxicity. Interestingly, pharmacological inhibition of CaMKII during excitotoxic insult also prevents the aggregation and prolonged inactivation of the kinase, suggesting that CaMKII activity during excitotoxic glutamate signaling is detrimental to neuronal viability because it leads to a prolonged loss of CaMKII activity, culminating in neuronal death. In support of this, CaMKII inhibition in the absence of excitotoxic insult induces cortical neuron apoptosis by dysregulating intracellular calcium homeostasis and increasing excitatory glutamate signaling. Blockade of the NMDA-receptors and enzymatic degradation of the extracellular glutamate signal affords neuroprotection from CaMKII inhibition-induced toxicity. Co-cultures of neurons and glutamate-buffering astrocytes also exhibit this slow-induced excitotoxicity, as CaMKII inhibitors reduce glutamate uptake within the astrocytes. CaMKII inhibition also dysregulates calcium homeostasis in astrocytes and leads to increased ATP release, which was neurotoxic when applied to naïve cortical neurons. Together, these findings indicate that during aberrant calcium signaling, the activation of CaMKII is toxic because it supports aggregation and prolonged inactivation of the kinase. Without CaMKII activity, neurons and astrocytes release stores of transmitters that further exacerbate neuronal toxicity.

The necessity for billions of parameters in large language models has lately been questioned as there are still unanswered questions regarding how information is captured in the networks. It could be argued that without this knowledge, there may be a tendency to overparametarize the models. In turn, the investigation of model redundancy and the methods which minimize it is important both to the academic and commercial entities. As such, the two main goals of this project were to, firstly, discover whether one of such methods, namely, distillation, reduces the redundancy of the language models without losing linguistic capabilities and, secondly, to determine whether the model architecture or multilingualism has a bigger effect on said reduction. To do so, ten models, both monolingual, multilingual, and their distilled counterparts, were evaluated layer and neuron-wise. In terms of layers, we have evaluated the layer correlation of all models by visualising heatmaps and calculating the average per layer similarity. For establishing the neuron-level redundancy, a classifier probe was applied on the model neurons, both the whole model and reduced by applying a clustering algorithm, and its performance was assessed for two tasks, Part-of-Speech (POS) and Dependency (DEP) tagging. To determine the distillation effects on the multilingualism of the models, we have investigated cross-lingual transfer for the same tasks and compared the results of the classifier as applied on multilingual models and one distilled variant in ten languages, nine Indo-European and one non-Indo-European. The results show that distillation reduces the number of redundant neurons at the cost of losing some of the linguistic knowledge. In addition, the redundancy in the distilled models is mainly attributed to the architecture on which it is based, with the multilingualism aspect having only a mild impact. Finally, the cross-lingual transfer experiments have shown that after distillation the model loses the ability to capture some languages more than others. In turn, the outcome of the project suggests that distillation could be applied to reduce the size of billion parameter models and is a promising method in terms of reducing the redundancy in current language models.

While signatures of attention can be observed in widespread areas within and outside of cortex, the control of attention is thought to be regulated by higher cognitive brain areas, such as the prefrontal cortex. In their recent study on mice Kim et al. could show that successful allocation of attention is characterized by increased spiking of a specific type of inhibitory interneurons, the parvalbumin neurons, and higher oscillatory activity in the gamma band in the local prefrontal network. It was recently demonstrated that encoding of working memory in prefrontal areas is linked to bursts of gamma oscillations, a discontinuous network process characterized by short periods of intense power in the gamma band. The relationship between attention and working memory is unclear, and it is possible that these two cognitive processes share encoding principles. To address this gap, the electrophysiological data collected in the Carlén Lab have been analyzed with advanced spatio-temporal approaches. In particular, we have analyzed bursting gamma activity in medial prefrontal cortex during attentional processing and investigated the similarities to gamma bursting observed during working memory. Gamma-band bursts during attention were reliably detected with several methods. We have characterized several features of the bursts, including the occurrence, duration and amplitude. The neuronal firing rates during and outside of bursts have also been computed. We investigated the correlation between different criteria characterizing the gamma burst and successful vs failed allocation of attention. Control data were generated to discuss the obtained results. The aim of the study was to explore the hypothesis that the medial prefrontal cortex encodes attention trough gamma bursts, which could reveal some similarities and differences in coding of central cognitive processes. No clear difference was found in the characterization between successful and failed allocation of attention. In addition, results were very similar in control set and original data. No underlying mechanism could be identified from this analysis. Therefore, as the bursts occurring in the gamma band in the prefrontal cortex (PFC) were not discriminative with respect to the different tested conditions, they do not seem to encode information related to attention. / Även fast flera olika hjärnområdens aktivitet kan korreleras med uppmärksamhet, anses kontrollen av uppmärksamhet regleras av högre kognitiva hjärnområden, såsom främre hjärnbarken. I en nyligen publicerad artikel studerade Kim et al. hjärnaktiviteten hos möss och kunde visa att en framgångsrik uppmärksamhet kännetecknas av en ökad aktivitet av en specifik typ av inhiberande nervceller, parvalbumin celler, och högre oscillerande aktivitet i gammafrekvens i främre hjärnbarkens lokala nätverk. Det har nyligen visats att kodning av arbetsminne i främre hjärnbarken är kopplat till utbrott av gamma-oscillationer, en diskontinuerlig nätverksprocess som kännetecknas av korta perioder av intensiva oscillationer av det lokala nätverket i gammafrekvens . Relationen mellan uppmärksamhet och arbetsminne är oklar, och det är möjligt att dessa två kognitiva processer delar kodningsprinciper. För att minska detta gap av kunskap har den elektrofysiologiska datan som samlats in i Carlén Lab analyserats med avancerade spatio-temporala tillvägagångssätt. I synnerhet har vi analyserat utbrott i gammaaktivitet i främre hjärnbarken under uppmärksamhet och undersökt likheterna med gamma- utbrott observerade under arbetsminne. Gamma-bandutbrott under uppmärksamhet påvisades på ett tillförlitligt sätt med flera metoder. Vi har karaktäriserat flera funktioner hos utbrotten, inklusive förekomsten, varaktigheten och amplituden. De enskilda cellernas aktivitet undersöktes även under och utanför utprotten av gamma-oscillationer. Vi undersökte sambandet mellan de olika kriterier som karakteriserar gamma-utbrott under framgångsrik mot misslyckad allokering av uppmärksamhet. Kontrolldata genererades för att diskutera de erhållna resultaten. Syftet med studien var att utforska hypotesen att den främre hjärnbarken kodar uppmärksamhet genom gamma-utbrott, vilket kan avslöja vissa likheter och skillnader i kodning av centrala kognitiva processer. Ingen klar skillnad hittades i karaktäriseringen mellan framgångsrik och misslyckad allokering av uppmärksamhet. Dessutom var resultaten mycket likartade i kontrolluppsättningen och den ursprungliga datan. Ingen underliggande mekanism kunde identifieras ur denna analys. Eftersom de utbrott som uppstod i gamma-bandet i främre hjärnbarken inte var unika med hänsyn till de olika testade förhållandena, tycks de därför inte koda information relaterad till uppmärksamhet.

Numerous studies showed that cochlear implant (CI) users generally prefer individualized stimulation rates in order to maximize their speech understanding. The underlying reasons for the reported variation in speech perception performance as a function of CI stimulation rate is unknown. However, multiple interacting electrophysiological processes influence the auditory nerve (AN) in response to high-rate CI stimulation. Experiments studying electrical pulse train stimulation of cat AN fibers (ANFs) have demonstrated that spike rates slowly decrease over time relative to onset stimulation and is often attributed to spike rate (spike-triggered) adaptation in addition to refractoriness. Interestingly, this decay tends to adapt more rapidly to higher stimulation rates. This suggests that subthreshold adaptation (accommodation) plays a critical role in reducing neural excitability. Using biophysical computational models of cat ANF including ion channel types such as hyperpolarization-activated cyclic nucleotide-gated (HCN) and low threshold potassium (KLT) channels, we measured the strength of adaptation in response to pulse train stimulation for a range of current amplitudes and pulse rates. We also tested these stimuli using a phenomenological computational ANF model capable of applying any combination of refractoriness, facilitation, accommodation, and/or spike rate adaptation. The simulation results show that HCN and KLT channels contribute to reducing model ANF excitability on the order of 1 to 100 ms. These channels contribute to both spike rate adaptation and accommodation. Using our phenomenological model ANF we have also shown that accommodation alone can produce a slow decay in ANF spike rates responding to ongoing stimulation. The CI users that do not benefit from relatively high stimulation rates may be due to ANF accommodation effects. It may be possible to use electrically evoked compound action potentials (ECAP) recordings to identify CI users exhibiting strong effects of accommodation, i.e., the increasing strength of adaptation as a function of increasing stimulation rate. / Dissertation / Doctor of Philosophy (PhD) / Cochlear implants (CI) attempt to restore hearing to individuals with severe to profound hearing deficits by stimulating the auditory nerve with a series of electrical pulses. Recent CI stimulation strategies have attempted to improve speech perception by stimulating at high pulse rates. However, studies have shown that speech perception performance does not necessarily improve with pulse rate increases, leading to speculation of possible causes. Certain ion channels located in auditory nerve fibers may contribute to driving the nerve to reduce its excitability in response to CI stimulation. In some cases, those channels could force nerve fibers to cease responding to stimulation, causing a breakdown in communication from the CI to the auditory nervous system. Our simulation studies of the auditory nerve containing certain types of channels showed that the effective rate of communication to the brain is reduced when stimulated at high rates due to the presence of these channels.

В рамках данной работы было проведено исследование существующих типов вопросно-ответных систем и методов анализа текста. Был проведен анализ существующих вопросно-ответных систем. Приведена обобщённая схема работы вопросно-ответных систем и для каждого типа систем приведена детальная схема работы. Описаны и исследованы методы выбора кандидатов ответа и методы их оценки. Также в работе описаны возможные критерии оценки работы таких систем. В ходе исследования был разработан рабочий прототип вопросно-ответной системы, основанный на системе BERT для русского языка. Используемая модель RuBERT была предобучена и протестирована на стандартных задачах SQuAD. В ходе работы модель была протестирована и оценена в разработанном рабочем прототипе и показала высокие результаты по предложенным критериям оценки. / Within the framework of this work, a study was made of the existing types of question-answer systems and text analysis methods. An analysis of the existing question-answer systems was carried out. A generalized scheme of operation of question-answer systems is given, and a detailed scheme of operation is given for each type of system. Methods for selecting response candidates and methods for their evaluation are described and investigated. The paper also describes possible criteria for evaluating the operation of such systems. In the course of the study, a working prototype of a question-answer system based on the BERT system for the Russian language was developed. The RuBERT model used was pre-trained and tested on standard SQuAD problems. During the work, the model was tested and evaluated in the developed working prototype and showed high results according to the proposed evaluation criteria.

Les neurones nocicepteurs jouent un rôle clé dans la défense de l’organisme. Dans le cas des réactions inflammatoires, ils initient des réflexes protecteurs tels que la toux, les vomissements, où les démangeaisons, et participent à la régulation de plusieurs mécanismes physiologiques, notamment la réponse immunitaire. Ils jouent ainsi un rôle prépondérant dans l’inflammation de type 2, souvent associée aux allergies. Mais les mécanismes qui permettent l’activation de ces neurones dans ce contexte sont encore mal connus. Au cours de ce projet de recherche, nous avons exploré la capacité des neurones nocicepteurs à détecter les signaux immunitaires spécifiquement associés à l’asthme. Nous avons ainsi identifié les caractéristiques des nocicepteurs des voies aériennes. Nous avons également démontré leur sensibilité aux allergènes grâce à l’expression du récepteur aux immunoglobulines de type E, FcεR1, ainsi que leur capacité à modifier leur transcriptome en réponse aux cytokines IL-4 et IL-13. Ces travaux soutiennent l’importance de la communication entre systèmes nerveux et immunitaires, et mettent en évidence de nouvelles cibles pour limiter la contribution neuronale aux réactions allergiques. / Nociceptor neurons play a major role in organism defense. In the context of inflammation, they initiate protective reflexes such as cough, vomiting, or itch, and participate in the regulation of various physiological mechanisms, including the immune response. They notably participate in type 2 inflammation, often associated with allergies. But the mechanisms driving the activation of nociceptor neurons in this context are still elusive. During this research project, we investigated the ability of nociceptor neurons to sense immune signals specifically associated with asthma. We identified the characteristics of airway innervating nociceptors. We also demonstrated their sensitivity to allergens through the expression of the Immunoglobulin E receptor FcεR1, as well as their ability to change their transcriptome in response to IL-4 and IL-13. This work supports the importance of bidirectional communication between the nervous and immune systems and unravels new targets to regulate neuronal contribution to inflammation.

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