La barrière hémato-encéphalique (BHE), localisée au niveau des capillaires cérébraux, contrôle les échanges entre le sang et le compartiment cérébral et assure ainsi le maintien de l'homéostasie du système nerveux central (SNC). La présence de la BHE est un atout lors du développement de médicament à visée périphérique. En effet, en limitant le passage de nombreuses molécules, la BHE protège le SNC des effets potentiellement neurotoxiques de ces molécules. Toutefois, l‟exposition des cellules endothéliales des capillaires cérébraux à des agents chimiques est susceptible d‟engendrer une augmentation transitoire de la perméabilité de la BHE. Cette augmentation peut perturber l‟homéostasie cérébrale et permettre l‟entrée massive de molécules potentiellement neurotoxiques dans le SNC. La prise en compte de la BHE en amont de l‟étude de la neurotoxicité d‟un médicament est donc un élément important. De plus, la majorité des médicaments sont utilisés de façon chronique et les effets secondaires indésirables résultant d‟une administration chronique sont fréquemment liés à une atteinte cérébrale. Afin de répondre à cette problématique, notre modèle in vitro de BHE, qui consiste en une co-culture de cellules endothéliales de capillaires cérébraux et de cellules gliales, a été adapté à l‟étude de la toxicité de molécules lors d‟un traitement prolongé. Les propriétés protectrices de la BHE deviennent une contrainte importante lors du développement de médicament à visée cérébrale. En effet, la présence de la BHE explique en partie les taux de succès très faibles des molécules lors du développement de médicaments à visée cérébrale. Afin de limiter les taux d‟échec, il est nécessaire de prédire efficacement la distribution cérébrale des composés en prenant en compte la BHE. Or, il est admis que l‟effet pharmacologique est lié à la concentration libre du médicament au niveau de sa cible. Ainsi, les nouvelles approches visent à prédire la concentration libre que la molécule atteindra dans le cerveau. Toutefois, les méthodes existantes pour prédire ce paramètre reposent sur une méthodologie in vivo et ne présentent pas un débit suffisant pour être utilisées lors des phases précoces du développement de médicaments. Une méthodologie in vitro pour obtenir le ratio de concentrations libres d‟une molécule entre le cerveau et le sang a été développée pour répondre à ce besoin. Le travail réalisé a permis de développer deux méthodologies in vitro. La première permet de prédire la toxicité chronique des molécules. En prédisant le ratio des concentrations libres entre le compartiment cérébral et sanguin des composés, la seconde facilite la sélection des médicaments candidats lors du développement de médicaments à visée cérébrale. Ces méthodologies pourront donc contribuer à diminuer les taux d‟échecs lors des phases précliniques et cliniques du développement de médicaments. / The blood-brain barrier (BBB), located at the level of brain capillaries, is responsible for brain homeostasis maintenance by tightly controlling blood-borne substances access to the brain. The presence of the BBB is an asset during peripheral drug development. Indeed, the BBB protects the central nervous system (CNS) against potential neurotoxic effects of compounds by strongly limiting their passage. However, exposure of brain capillaries endothelial cells to chemical agents is likely to cause a transient increase in BBB permeability. This increase can disrupt brain homeostasis and allow the massive entry of potentially neurotoxic molecules in the CNS. Hence, taking into account BBB toxicity in alternative neurotoxicity studies is important. In addition, the CNS side effects of several drugs used chronically could be at least partly attributed to their toxicity at the level of the BBB causing unwanted, indirect effect on brain cells. To address this issue, our in vitro BBB model, which consist of a co-culture of brain capillary endothelial cells and glial cells, has been adapted to the evaluation of repeated-dose toxicity at the BBB. The protective properties of the BBB become a major hurdle during CNS drug development. One way to reduce theimportant attrition rate, consists in predicting the CNS distribution of drug candidates early in CNS drug discovery programs. The use of unbound brain concentrations has been shown to provide the best correlations with pharmacological data. Hence, new approaches aim to predict the free brain concentration of compounds. However, the determination of free brain / free plasma ratios requires both in vitro and in vivo experiments that are both animal and time consuming. Consequently, we have explored the possibility to directly generate free brain / free plasma ratios under steady-state and non-steady state conditions in our in vitro BBB model, thereby greatly simplifying existing experimental procedures.. The work presented herein aimed to develop two in vitro methodologies. The first one allows the study of repeated-dose BBB toxicity. The second one allows free brain / free plasma ratios assessment using an in vitro model of the blood brain barrier, which can drive the selection of CNS drug candidates with the most favourable target engagement. The use of these two methodologies may help to reduce attrition rates in drug discovery and development by appreciating the eventual central toxicity of systemic drug associated with BBB dysfunction and by identifying centrally acting-compounds with a desirable in vivo response in the CNS early on in the drug discovery process.

L’évaluation de la bioéquivalence (BE) de formulations génériques (Test) et de marques commerciales (Référence) du dabigatran représente un défi de taille pour les sociétés pharmaceutiques en raison de la grande variabilité intra-individuelle et de la puissante relation concentration-effet du médicament. Soutenu par l'approche de modélisation pharmacocinétique de population (pop-PK), ce projet examine le potentiel d'évaluer la BE, avec des résultats comparables au paradigme actuel de BE, en utilisant un nombre réduit d'échantillons requis. Une étude de BE portant sur deux formulations de dabigatran (Test et Référence), comprenant 16 sujets et incluant 640 concentrations plasmatiques a été utilisée rétrospectivement pour l'analyse pop-PK. Un modèle pop-PK a été développé pour chaque formulation en suivant les techniques de modélisation standards. Des scénarios d'échantillonnage comportant un ensemble décroissant de prélèvements ont été sélectionnés selon une stratégie progressive et prudente basée sur les propriétés pharmacocinétiques (PK) connues du dabigatran ainsi que de connaissances cliniques acquises. Les modèles pop-PK Test et Référence ont été ajustés à chacun des scénarios d'échantillonnage réduits et leurs profils PK ont été simulés. Ensuite, des tests de BE ont été effectués pour identifier le scénario préservant les conclusions BE obtenues à partir du jeu de données d'origine tout en incluant le nombre minimal de prélèvements. Un modèle à deux compartiments avec élimination de premier ordre et absorption retardée décrivait le mieux les données de concentration plasmatique du dabigatran. Le sexe a été identifié en tant que covariable significative pour la biodisponibilité. Pour les scénarios d'échantillonnage réduit, tous les profils de PK simulés étaient similaires et robustes en termes de valeurs de paramètres PK et de courbes de concentrations, à l'exception des valeurs de Cmax. Les résultats ont également prouvé que le verdict de BE pouvait être maintenu jusqu'à un scénario d'échantillonnage réduit de cinq prélèvements en utilisant les normes et critères de BE réglementaires en vigueur. L’approche de modélisation pop-PK pourrait réduire le nombre d’échantillons utilisés pour l’évaluation de la BE du dabigatran, diminuant donc les coûts des futurs essais de BE cliniques en plus de représenter un bénéfice pour les participants de l’étude. / The bioequivalence (BE) assessment of generic (Test) and brand name (Reference) formulations of dabigatran, a drug with a steep exposure-response relationship exhibiting very high pharmacokinetic (PK) variability, represents an expensive challenge for pharmaceutical companies. Supported by the modeling approach of population pharmacokinetics (pop-PK), the present study investigates the potential of assessing with results comparable to the current BE paradigm BE using a reduced required number of samples. A BE study of two formulations of dabigatran (Test and Reference), comprising 16 subjects and including 640 plasma concentrations, was used retrospectively for the pop-PK analysis. Using standard modeling techniques, a pop-PK model was accordingly developed for each formulation. Sampling scenarios with reduced sampling time points were selected in a progressive and cautious strategy based on dabigatran’s known PK properties and clinical knowledge. The developed pop-PK model of the Reference and Test formulations were refitted on each reduced sampling dataset. All these models were simulated to generate virtual PK profiles for BE purpose. Then, following the standard BE test procedure, the task concluded by identifying the scenario preserving BE conclusions obtained from the original dataset, while including the minimum number of samples. A two-compartment model with first order elimination and a lagged absorption best described the plasma concentration data for dabigatran, and sex was identified as a significant covariate for bioavailability. For the reduced sampling scenarios, all simulated PK profiles were similar to the PK profile generated from the complete sampling in terms of PK parameters values and robustness, except for the Cmax values. The results also proved that the BE verdict could be maintained with a reduced sampling scenario of only five blood samples using the current regulatory BE standards and criteria. The pop-PK modeling approach can be an efficient tool that requires only a reduced number of samplings for the BE assessment of dabigatran, thus can potentially lower the costs in future BE trials and benefit the participants of the study.

This thesis deals with perfusion analysis using DCE-MRI (Dynamic contrast-enhanced magnetic resonance imaging). DCE-MRI is commonly used for microcirculation evaluation mainly in oncology and in recent years also in cardiology. The theoretical overview focuses on the issue of pharmacokinetic modeling and the estimation of perfusion parameters using selected models. The experimental part describes research software PerfLab and then it is aimed at the proposed program for synthetic data generation. Simulated data obtained under ideal conditions and in the presence of noise were used to compare models for the accuracy and reliability of DCE-MRI analysis.

This thesis focuses on the measurement of diffusion coefficient of dialysis membrane. The first part describes possibilities of membrane modelling. Basic models, which allow us to determine the basic characteristics of dialysis membranes like permeability and diffusion coefficient, are described. Next chapter deals with basic types and properties of membranes. The main part focuses on making the experimental installation, which is used to simulate permeance of contrast agent, used in DCE-MRI, through dialysis membrane. The last theoretical chapter describes calculations used to estimate diffusion coefficient. Practical part of this thesis uses a designed experimental installation for estimation of diffusion coefficient for two contrast agents Gadovist® and Multihance®.

Charles University Faculty of Pharmacy in Hradec Kr'alov'e Department of Biophysics and Physical Chemistry Candidate: Yestay Rakhimov Supervisor: doc. Erik Jurjen Duintjer Tebbens, Ph.D. Title of diploma thesis: Mathematics and implementations of physiologically based phar- macokinetic modeling The thesis addresses some basic aspects of pharmacokinetic modeling, which is used to describe pharmacokinetic processes. Understanding these processes is important for example to determine optimal concentrations of drugs dosing. The thesis focuses on mathematical proofs of a number of pharmacokinetic equa- tions, which are often not given in standard books. The derived equations are illustrated with numerical experiments for a particular drug in the software PharmCalcCl and MAT- LAB. 4

Van Kempen et al. described high natalizumab concentrations in their natalizumab-treated multiple sclerosis (MS) patients at time of re-dosing. Based on the literature research the authors consider a natalizumab concentration above 2 μg/mL to be sufficient for an adequate alpha-4 integrin receptor saturation of above 70%. Recently, we have demonstrated similar results using our new cell-based immunoassay to evaluate free natalizumab concentration, cell-bound natalizumab, and alpha-4 integrin receptor saturation as the key pharmacokinetic/pharmacodynamic parameters of natalizumab treatment in different in vivo settings. We investigated the effects of treatment interval extension or treatment cessation.

Summary: Many primary human tumors and tumor cell lines highly express human L-type amino acid transporter 1 (hLAT1); cancerous cells in vivo are strongly linked to LAT1 expression. Synthetic chemistry and in vitro screening efforts have afforded a variety of novel and highly hLAT1 selective compounds, such as JPH203 1. In a recent report, we demonstrated that 1 has potent in vitro and in vivo activity. JPH203 was intravenously administered to produce significant growth inhibition against HT-29 tumors transplanted in nude mice. The current work develops a robust LC/MS-MS method to monitor 1 and its major Phase II metabolite N-acetyl-JPH203 2 from biological samples. We have conducted in vitro and in vivo experiments and the major scientific findings are: i) the major route of biotransformation of 1 is Phase II metabolism to produce 2; ii) metabolite 2 is formed in various organs/tissues (i.e. blood, liver, kidney); and iii) as dogs, which are deficient in NAT genes, do not produce 2, the dog will not be an appropriate toxicological model to evaluate 1.

Backgroun and aims: Pharmacokinetic variability is of paramount importance for sucessfull pharmacotherapy. The main purpose of this work was to study variability of pharmacokinetics in clinical and non-clinical setting with the aim to predict variability in target population. Specifically, three drugs were chosen, sufentanil, with relativelly narrow therapeutic index, and nabumeton and abirateron, both with known high variability. Methods: The study of pharmacokinetic variability of sufentanil was based on clinical samples taken from patients undergoing surgical cardiac procedure, where the sufentanil was used as a part of the drug coctail used during the procedure. New analytical method was necessary to prepare and validate to measure sufentanil concentrations and obtain pharmacokinetic parameters. These were compared between determined genotype groups of MDR1 and OPRM1. Similarly, clinical study was executed with nabumetone, in which nabumetone was administered in a group of 24 subjects on two separate occassions. Plazma samples were obtained and concentrations of nabumetone and its active metabolite, 6-methoxynaphtylacetic acid (6-MNA), were determined. Obtained pharmacokinetic profiles were compared between female and male volunteers, and genotypes for MDR1 and CYP2D6. Finaly for abiraterone,...

<p>Autoinjectors are pen-like devices that typically deliver drug products of 2 mL or less. They shield the needle before and after use, reducing patient anxiety from needle phobia and mitigating the risk of needlestick injuries and accidental contamination. Additionally, automatic delivery ensures more consistent needle penetration depth and injection force than manual injection methods. </p> <p><br></p> <p>To optimize autoinjector design, this thesis presents experimentally validated computational models that describe the processes of needle insertion, drug delivery, and transport of subcutaneously administered therapeutic proteins in the body. A multi-objective optimization framework is also proposed to guide the design of autoinjectors.</p> <p><br></p> <p>This thesis focuses on spring-driven autoinjectors, the most common type of autoinjector. It begins with an overview of the interactions between the spring-driven autoinjector, tissue, and therapeutic proteins. Moving on to Chapter 2, a computational model is presented to accurately predict the kinematics of the syringe barrel and plunger during the needle insertion process.</p> <p><br></p> <p>In Chapter 3, we present a quasi-steady model for the drug delivery process, which considers the rheology of therapeutic proteins. The Carreau model is adopted to describe protein viscosity, and explicit relationships between flow rate and pressure drop in the needle are derived. Furthermore, the applicable regime for the power-law model for protein viscosity is identified.</p> <p><br></p> <p>Chapter 4 quantifies the impact of sloshing and cavitation on therapeutic proteins in the syringe. Additionally, a workflow is presented to integrate available simulation tools to predict the performance of spring-driven autoinjectors. The influence of each design parameter of spring-driven autoinjectors on their performance is also discussed. </p> <p><br></p> <p>The spring-driven autoinjector delivers therapeutic proteins through subcutaneous administration. To gain insights into the transport process of therapeutic proteins, Chapter 5 presents a physiologically-based pharmacokinetic model that has been validated against experimental data for humans and rats. The lymph flow rate significantly affects the bioavailability of therapeutic proteins. This finding highlights the importance of studying the transport of therapeutic proteins in the lymphatic system in future research.</p> <p><br></p> <p>Chapter 6 provides a multi-objective design optimization framework for the spring-driven autoinjector. The computational model is replaced with an accurate deep neural network surrogate to improve the computational efficiency.  Using this surrogate model, we conduct a sensitivity analysis to identify essential design parameters. After that, we perform multi-objective optimization to find promising design candidates.</p> <p><br></p> <p>Chapter 7 presents a model for bubble dynamics in a protein solution. An explicit expression for the bubble dissolution rate is derived, enabling extraction of the interfacial properties of the protein-coated interface from the measured bubble radii. Moreover, analytical solutions for the response of a protein-coated bubble to an imposed acoustic pressure are derived. This work provides insight into protein-coated bubbles, which are used as vehicles to deliver drugs, as active miniature tracers to probe the rheology of soft and biological materials, or as contrast agents to enhance the ultrasound backscatter in ultrasonic imaging.</p> <p><br></p> <p>At last, in Chapter 8, we introduce a model for laser-induced cavitation that considers several key factors, such as liquid compressibility, heat transfer, and non-equilibrium evaporation and condensation. Our model's predictions for the time-course of bubble radii have been validated with experimental data. Moreover, our model reveals that the reduction of the bubble's oscillation amplitude is primarily due to a decrease in the number of vapor molecules inside the bubble, highlighting the crucial role of phase change in laser-induced cavitation bubbles.</p> <p><br></p> <p>The developed computational models and framework provide crucial insights into the development of spring-driven autoinjectors and cavitation bubbles. These studies can also enhance the efficacy and safety of the delivery of therapeutic proteins, ultimately improving patient outcomes.</p>

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