Including inherited genetic diseases, like lipoprotein lipase deficiency, and acquired diseases, such as cancer and HIV, gene therapy has the potential to treat or cure afflicted people by driving an affected cell to produce a therapeutic protein. Using primarily viral vectors, gene therapies are involved in a number of ongoing clinical trials and have already been approved by multiple international regulatory drug administrations for several diseases. However, viral vectors suffer from serious disadvantages including poor transduction of many cell types, immunogenicity, direct tissue toxicity and lack of targetability. Non-viral polymeric gene delivery vectors (polyplexes) provide an alternative solution but are limited by poor transfection efficiency and cytotoxicity. Microfluidic (MF) nano-precipitation is an emerging field in which researchers seek to tune the physicochemical properties of nanoparticles by controlling the flow regime during synthesis. Using this approach, several groups have demonstrated the successful production of enhanced polymeric gene delivery vectors. It has been shown that polyplexes created in the diffusive flow environment have a higher transfection efficiency and lower cytotoxicity. Other groups have demonstrated that charge-stabilizing polyplexes by sequentially adding polymers of alternating charges improves transfection efficiency and serum stability, also addressing major challenges to the clinical implementation of non-viral gene delivery vectors. To advance non-viral gene delivery towards clinical relevance, we have developed a microfluidic platform (MS) that produces conventional polyplexes with increased transfection efficiency and decreased toxicity and then extended this platform for the production of ternary polyplexes. This work involves first designing microfluidic devices using computational fluid dynamics (CFD), fabricating the devices, and validating the devices using fluorescence flow characterization and absorbance measurements of the resulting products. With an integrated separation mechanism, excess polyethylenimine (PEI) is removed from the outer regions of the stream leaving purified polyplexes that can go on to be used directly in transfections or be charge stabilized by addition of polyanions such as polyglutamic acid (PGA) for the creation of ternary polyplexes. Following the design portion of the research, the device was used to produce binary particle characterization was carried out and particle sizes, polydispersity and zeta potential of both conventional and MS polyplexes was compared. MS-produced polyplexes exhibited up to a 75% reduction in particle size compared to BM-produced polyplexes, while exhibiting little difference in zeta potential and polydispersity. A variety of standard biological assays were carried out to test the effects of the vectors on a variety of cell lines – and in this case the MS polyplexes proved to be both less toxic and have higher transfection efficiency in most cell lines. HeLa cells demonstrated the highest increase in transgene expression with a 150-fold increase when comparing to conventional bulk mixed polyplexes at the optimum formulation. A similar set of experiments were carried out with ternary polyplexes produced by the separation device. In this case it was shown that there were statistically significant increases in transfection efficiency for the MS-produced ternary polyplexes compared to BM-produced poyplexes, with a 23-fold increase in transfection activity at the optimum PEI/DNA ratio in MDAMB-231 cells. These MS-produced ternary polyplexes exhibited higher cell viability in many instances, a result that may be explained but the reduction in both free polymer and ghost particles.

Lorsque des ondes acoustiques de surface rayonnent dans des fluides, elles provoquent deux effets non linéaires : la pression de radiation et le streaming acoustique. Ces deux effets ont trouvé un grand nombre d’applications pour la microfluidique digitale, la manipulation sans contact et le tri cellulaire. Néanmoins, ces systèmes se heurtent à deux limites. D’une part, chaque application requiert une onde acoustique spécifique : il n’existe pas de dispositif multifonction à ce jour. D’autre part, l’exploration des fonctionnalités offertes par les ondes de surface les plus simples (ondes planes, ondes focalisées) n’a pas permis de réaliser des pinces sélectives permettant de manipuler individuellement des particules ou cellules indépendamment de leurs voisines.Dans une première partie de la thèse, nous développons deux méthodologies pour synthétiser des champs complexes d’ondes de surface. La première méthode utilise un réseau de 32 peignes interdigités contrôlé par la technique du filtre inverse pour générer des champs sur demande. La seconde résout un problème inverse afin de concevoir un transducteur holographique générant spécifiquement le champ demandé. Dans la seconde partie de la thèse, nous utilisons le filtre inverse pour (i) réaliser un laboratoire sur puce multifonction et (ii) étudier le potentiel d’ondes de surface particulières appelées ondes de surface tourbillonnaires. Ces ondes permettent une manipulation sélective et sans contact d’objets microscopiques. Nous terminons la thèse en équipant un microscope d’un transducteur holographique de vortex acoustiques afin de réaliser une manipulation sélective et sans contact de cellules. / When surface acoustic waves radiate in nearby fluids, they trigger two nonlinear effects: acoustic radiation pressure and acoustic streaming. These two effects find numerous applications for digital microfluidics, contactless manipulation and biological cell sorting. Nonetheless, these systems face two limitations. On the one hand, each application requires a specific acoustic wave: there is no multifunction device so far. On the other hand, search for functionalities offered by simple surface acoustic waves (plane and focused waves) has failed to provide a selective tweezers able to manipulate individual particles or cells independently of their neighbors. In the first part of this thesis, we develop two methods to synthesize complex surface acoustic wave fields. The first one employs an array of 32 interdigitated transducers controlled by the inverse filter to generate arbitrary fields on demand. The second method solves an inverse problem to design a holographic transducer to generate a predefined field. In the second part of the thesis, we use the inverse filter to (i) implement a multifunction lab on a chip and (ii) investigate the potentialities of a special type of surface acoustic waves called swirling surface waves. These waves enable a selective and contactless manipulation of microscopic objects. We conclude the thesis by integrating a holographic acoustical vortex transducer on a microscope in order to selectively manipulate biological cells without contact.

Ce travail de thèse a pour but de développer un dispositif basé autour d'un dispositif intégré de photodétection pour des applications biomédicales nécessitant une grande sensibilité de détection et une discrimination spectrale (sélectivité). Ce dispositif peut être appliqué, par exemple, à la mesure simultanée de plusieurs marqueurs fluorescents dans les laboratoires sur puce mettant en œuvre de très faibles volumes de réactifs (inférieurs au microlitre). Le travail de thèse se focalise sur la conception, la réalisation et le test de ce dispositif intégré de photodétection. Ce travail se décline selon deux axes principaux : d'une part, la conception d'un photodétecteur CMOS avec préamplificateurs intégrés, et d'autre part la conception, la réalisation et la caractérisation de filtres optiques intégrés performants pour la détection de fluorescence / This thesis aims to develop a system based around an integrated photosensor device for biomedical applications requiring high detection sensitivity and spectral discrimination (selectivity). For example, this system can be applied to mesure simultaneous emissions of several fluorescent labels in lab-on- a-chip implementing very small volumes of reagents (below the microliter). The thesis focuses on the design, implementation and testing of this integrated photodetector device. The work is divided in two main parts: first, the design of a CMOS photodetector with integrated preamplifiers, and secondly the design, realization and characterization of integrated optical filters for fluorescence detection

Les charges à l'interface liquide/solide sont un élément originel majeur des phénomènes électrocinétiques observés en micro/nanofluidique. Elles sont donc la colonne vertébrale de mon manuscrit de thèse, qui se décompose en trois parties : Dans la première partie, un rappel des concepts de base sur les interfaces liquides/solides est proposé au lecteur. Il est suivi d'une description des différentes méthodes expérimentales permettant de mesurer le potentiel zeta de couples solide/électrolyte, puis d'une présentation des travaux de la littérature exploitant les charges aux interfaces pour la préconcentration de molécules biologiques dans des systèmes Micro-Nano-Micro (MNM) fluidiques. Ensuite, une deuxième partie est consacrée à la mesure du potentiel zeta par la méthode des courants d'écoulement. Nous y présentons l'amélioration du banc expérimental issu des travaux antérieurs à ma thèse, ainsi que le développement de nouveaux protocoles de préparation des surfaces permettant de rationaliser et de stabiliser les mesures. Une application à un détecteur original de molécules biologiques clos cette deuxième partie. Enfin, la troisième et dernière partie s'intéresse à la préconcentration de molécules biologiques. Une méthode originale de fabrication des dispositifs MNM et les résultats de préconcentration obtenus, très encourageants, sont décrits. Des premiers modèles numériques et phénoménologiques sont proposés, qui mettent en avant l'originalité de notre travail / The charges at liquid/solid interfaces are a key element for both understanding and exploiting the electrokinetic phenomena in micro/nanofluidics. The manuscript of my Ph.D thesis is dedicated to these phenomena, which is divided into three main parts: Above all, a simple overview of charges at the liquid/solid interface is proposed. Then, several common methods for measuring the zeta potential at the liquid/solid interface are described. Next, various effective methods to preconcentrate the biological molecules is presented with the help of the surface charges. Secondly, the streaming current, which is a standard method to measure the zeta potential in our laboratory, is detailed. It contains the upgrade of the experimental setup from the previous version and the development of new protocols, which improve dramatically the stabilization and the reproducibility of the measurements. In addition, an original biological sensor is briefly presented based on these advancements. Lastly, in the final part, we describe a method which is primitively utilised in the fabrication of Micro-Nano-Micro fluidic system. Based on this system, some favorable preconcentration results is obtained. Moreover, numerical simulations are presented to prove the originality of our work

LES METHODES CLASSIQUES DISPONIBLES POUR MESURER L'ACTIVITE ENZYMATIQUE DE REPARATION DES LESIONS DE L'ADN PAR DES ADN N-GLYCOSYLASES SONT LONGUES ET LABORIEUSES A METTRE EN ŒUVRE (ANALYSE PAR ELECTROPHORESE SUR GEL COUPLEE AU MARQUAGE PAR UN ISOTOPE RADIOACTIF OU ENCORE PAR CHROMATOGRAPHIE LIQUIDE HAUTE PERFORMANCE). NOUS AVONS DEVELOPPE DANS LE PRESENT TRAVAIL, UNE NOUVELLE METHODE DE QUANTIFICATION PRECISE ET AISEE DES ACTIVITES DE REPARATION BASEE SUR UNE DETECTION UTILISANT LE PRINCIPE PHYSIQUE DU FRET (TRANSFERT PAR RESONANCE D'ENERGIE DE FLUORESCENCE). POUR CE FAIRE, UN SUBSTRAT D'ADN ORIGINAL A ETE CONÇU : UNE STRUCTURE AUTOCOMPLEMENTAIRE CONTENANT DES LESIONS SPECIFIQUES DANS LA SEQUENCE DOUBLE BRIN DE L'EPINGLE A CHEVEUX ET, AYANT LES DEUX EXTREMITES MARQUEES PAR DES CHROMOPHORES. L'EXCISION DE LA LESION PAR DES ADN N-GLYCOSYLASES CONDUIT A LA SEPARATION DES BRINS COMPLEMENTAIRES, INDUISANT UNE DIMINUTION DU PROCESSUS DE « QUENCHING » DE FLUORESCENCE. L'EXCISION EST DONC DETECTEE ET QUANTIFIEE PAR L'AUGMENTATION DE L'INTENSITE DU SIGNAL D'EMISSION DU FLUOROPHORE. APRES AVOIR ETABLI LA LINEARITE DE LA REPONSE DU TEST, NOUS AVONS UTILISE CETTE APPROCHE EXPERIMENTALE POUR ACCEDER AUX PARAMETRES CINETIQUES CARACTERISTIQUES DES ENZYMES DE REPARATION. LA VALIDITE DE CES PARAMETRES A ETE CONTROLEE PAR COMPARAISON AVEC LES DONNEES OBTENUES PAR ANALYSE SUR GEL D'ACRYLAMIDE (EGPA). LES POSSIBLES APPLICATIONS DE NOTRE TEST EN TANT QU'OUTIL DE SCREENING POUR LA DETECTION D'ACTIVITE DE REPARATION OU D'INHIBITION ENZYMATIQUE, SUR ENZYMES PURIFIEES OU A PARTIR D'EXTRAITS CELLULAIRES ONT ETE INVESTIGUEES. ENFIN, UN PROJET DE MINIATURISATION DU FORMAT DE LECTURE DANS UN MICROSYSTEME DE TYPE « LAB-ON-A-CHIP » A ETE MENE. L'ENSEMBLE DES RESULTATS OBTENUS PROUVE LA PERTINENCE DE NOTRE METHODE D'ANALYSE EN PHASE HOMOGENE, EN VUE D'EXTENSIONS A L'ANALYSE PARALLELISEE HAUT DEBIT POUR DES APPLICATIONS EN RECHERCHE FONDAMENTALE, BIOMEDICALE ET PHARMACEUTIQUE.

Nanobelts are a new class of semiconducting metal oxide nanowires with great potential for nanoscale devices. The present research focuses on the manipulation of SnO₂ nanobelts suspended in ethanol using microfluidics and electric fields. Dielectrophoresis (DEP) was demonstrated for the first time on semiconducting metal oxide nanobelts, which also resulted in the fabrication of a multiple nanobelt device. Detailed and direct real-time observations of the wide variety of nanobelt motions induced by DEP forces were conducted using an innovative setup and an inverted optical microscope. High AC electric fields were generated on a gold microelectrode (~ 20 µm gap) array, patterned on glass substrate, and covered by a ~ 10 µm tall PDMS (polydimethylsiloxane) channel, into which the nanobelt suspension was introduced for performing the DEP experiments. Negative DEP (repulsion) of the nanobelts was observed in the low frequency range (< 100 kHz) of the applied voltage, which caused rigid body motion as well as deformation of the nanobelts. In the high frequency range (~ 1 MHz - 10 MHz), positive DEP (attraction) of the nanobelts was observed. Using a parallel plate electrode arrangement, evidence of electrophoresis was also found for DC and low frequency (Hz) voltages. The existence of negative DEP effect is unusual considering the fact that if bulk SnO₂ conductivity and permittivity values are used in combination with ethanol properties to calculate the Clausius Mossotti factor using the simple dipole approximation theory; it predicts positive DEP for most of the frequency range experimentally studied. A fluidic nanobelt alignment technique was studied and used in the fabrication of single nanobelt devices with small electrode gaps. These devices were primarily used for conducting impedance spectroscopy measurements to obtain an estimate of the nanobelt electrical conductivity. Parametric numerical studies were conducted using COMSOL Multiphysics software package to understand the different aspects of the DEP phenomenon in nanobelts. The DEP induced forces and torques were computed using the Maxwell Stress Tensor (MST) approach. The DEP force on the nanobelt was calculated for a range of nanobelt conductivity values. The simulation results indicate that the experimentally observed behavior can be explained if the nanobelt is modeled as having two components: an electrically conductive interior and a nonconductive outer layer surrounding it. This forms the basis for an explanation of the negative DEP observed in SnO₂ nanobelts suspended in ethanol. It is thought that the nonconductive layer is due to depletion of the charge carriers from the nanobelt surface regions. This is consistent with the fact that surface depletion is a commonly observed phenomenon in SnO₂ and other semiconducting metal oxide materials. The major research contribution of this work is that, since nanostructures have large surface areas, surface dominant properties are important. Considering only bulk electrical properties can predict misleading DEP characteristics.

In der vorliegenden Arbeit wird eine integrierbare Pumpentechnologie für polymerbasierte mikrofluidische Systeme entwickelt. Ausgehend von den Anforderungen für die Durchführung molekulardiagnostischer Nachweise kommen dabei Fertigungsverfahren zum Einsatz, die sich auch für Einweg-Anwendungen eignen. Das genutzte Aktorprinzip für die integrierten Mikropumpen basiert auf der Elektrolyse von Wasser. Zur besseren technologischen Integrierbarkeit wird das Wasser in Form eines Hydrogels appliziert. Der Elektrolyt wird dabei mit einer Polymermembran mit geringer Wasserdampfdurchlässigkeit verschlossen. Die Membran wird in ihrem plastischen Verformbereich genutzt. Zur Dimensionierung der Mikropumpen und des mikrofluidischen Systems werden analytische und numerische Modelle entwickelt, die eine gute Übereinstimmung mit den Messwerten zeigen. Die Funktionsfähigkeit wird anhand zweier vollständig integriert ablaufender Immunoassays demonstriert. Dabei kommt ein polymerbasierter, optischer Biosensor zum Einsatz.

Oral cancer is the sixth most common cancer worldwide and has been marked by high morbidity and poor survival rates that have changed little over the past few decades. Beyond prevention, early detection is the most crucial determinant for successful treatment and survival of cancer. Yet current methodologies for cancer diagnosis based upon pathological examination alone are insufficient for detecting early tumor progression and molecular transformation. Development of new diagnostic tools incorporating tumor biomarkers could enhance early detection by providing molecular-level insight into the biochemical and cellular changes associated with oral carcinogenesis. The work presented in this doctoral dissertation aims to address this clinical need through the development of new automated cellular analysis methods, incorporating lab-on-a-chip sensor techniques, for examination of molecular and morphological biomarkers associated with oral carcinogenesis. Using the epidermal growth factor receptor (EGFR) as a proof-of-principle biomarker, the sensor system demonstrated capacity to support rapid biomarker analysis in less than one-tenth the time of traditional methods and effectively characterized EGFR biomarker over-expression in oral tumor-derived cell lines. Successful extension from in vitro tumor cell lines to clinically relevant exfoliative brush cytology was demonstrated, providing a non-invasive method for sampling abnormal oral epithelium. Incorporation of exfoliative cytology further helped to define the important assay and imaging parameters necessary for dual molecular and morphological analysis in adherent epithelium. Next, this new sensor assay and method was applied in a small pilot study in order to secure an initial understanding of the diagnostic utility of such biosensor systems in clinical settings. Four cellular features were identified as useful indicators of cancerous or pre-cancerous conditions including, the nuclear area and diameter, nuclear-to-cytoplasm ratio, and EGFR biomarker expression. Further examination using linear regression and ROC curve analysis identified the morphological features as the best predictors of disease while a combination of all features may be ideal for classification of OSCC and pre-malignancy with high sensitivity and specificity. Further testing in a larger sample size is necessary to validate this regression model and the LOC sensor technique, but shows strong promise as a new diagnostic tool for early detection of oral cancer. / text

Optical biosensors are increasingly being considered for lab-on-a-chip applications due to their benefits such as small size, biocompatibility, passive behaviour and lack of the need for fluorescent labels. The light guiding mechanisms used by many of them result in poor overlap of the optical field with the target molecules, reducing the maximum sensitivity achievable. This thesis presents a new platform for optical biosensors, namely slotted photonic crystals, which engender higher sensitivities due to their ability to confine, spatially and temporally, the peak of optical mode within the analyte itself. Loss measurements showed values comparable to standard photonic crystals, confirming their ability to be used in real devices. A novel resonant coupler was designed, simulated, and experimentally tested, and was found to perform better than other solutions within the literature. Combining with cavities, microfluidics and biological functionalization allowed proof-of-principle demonstrations of protein binding to be carried out. High sensitivities were observed in smaller structures than most competing devices in the literature. Initial tests with cellular material for real applications was also performed, and shown to be of promise. In addition, groundwork to make an integrated device that includes the spectrometer function was also carried out showing that slotted photonic crystals themselves can be used for on-chip wavelength specific filtering and spectroscopy, whilst gas-free microvalves for automation were also developed. This body of work presents slotted photonic crystals as a realistic platform for complete on-chip biosensing; addressing key design, performance and application issues, whilst also opening up exciting new ideas for future study.

Polymer foams belong to the solid foams family which are versatile materials, extensively used for a large number of applications such as automotive, packaging, sport products, thermal and acoustic insulators, tissue engineering or liquid absorbents. Composed of air bubbles entrapped in a continuous solid network, they combine the properties of the polymer with those of the foam to create an intriguing and complex material. Incorporating a foam into a polymer network not only allows one to use the wide range of interesting properties that the polymer offers, but also permits to profit from the advantageous properties of foam including lightness, low density, compressibility and high surface-to-volume ratio. Generally, the properties of polymer foams are strongly related to their density and their structure (bubble size and size distribution, bubble arrangement, open vs closed cells). Having a good control over foam properties is thus achieved by first controlling its density and structure.We developed a technique in which solid foams are generated essentially in a two-step process: a sufficiently stable liquid foam with well-controlled structural properties is generated in a first step, and then solidified in a second one. With such a two-step approach, the generation of solid foams can be divided into a number of well-separated sub-tasks which can be controlled and optimised separately. The transition from liquid to solid state is a sensitive issue of a great importance and therefore needs to be controlled with sufficient accuracy. It is essentially composed of three key steps: foam generation, mixing of reactants and foam solidification and requires the optimisation of foam stability in conjunction with an appropriate choice of both foaming time and solidification time. Furthermore, a good homogeneity of the polymer foam calls for a good mixing of the different reactants involved in the foaming and the polymerisation.A particularly powerful demonstration of the advantages of this approach is given by solidifying monodisperse liquid foams generated using millifluidic technique, in which all bubbles have the same size. In a liquid foam, equal-volume bubbles self-order into periodic, close-packed structures under gravity or confinement. As such, monodisperse foams provide simultaneous control over the size and the organisation of the pores in the final solid with an accuracy which is expected to give rise to a better understanding of the structure-property relationship of porous solids and to the development of new porous materials.We therefore aim to explore the new spectrum of properties, which polymer foams offer when we introduce an ordered structure into them since the most widely used polymer foams nowadays have disordered structures. The goal of our study is to demonstrate the feasibility of this two-step approach for different classes of polymers, including biomolecular hydrogel, superabsorbent polymer and polyurethane.For the generation of the structured polymer foams we use Lab-on-a-Chip technologies which allow the "shrinking" of large-scale set-ups to micro/millimetic scale. It permits also to perform "flow chemistry" in which the various liquid and gaseous ingredients of the foam are injected and mixed in a purpose-designed network of the micro- and millifluidic Lab-on-a-Chip. We adjust this approach according to the requirements of each polymer system, i.e. the foaming and the mixing techniques are chosen to fit the properties of each system, and can be exchanged to fit the properties of the studied systems.