Stochastic simulation to improve land-cover estimates derived from coarse spatial resolution satellite imagery = La simulation stochastique pour améliorer les estimations de la couverture des sols à partir d'images satellitales à résolution spatiale grossière

Thèse diffusée initialement dans le cadre d'un projet pilote des Presses de l'Université de Montréal/Centre d'édition numérique UdeM (1997-2008) avec l'autorisation de l'auteur.

Study of baleen whales’ ecology and interaction with maritime traffic activities to support management of a complex socio-ecological system

Thesis written in co-mentorship with Robert Michaud.

A robust algorithm for segmenting fluorescence images and its application to single-molecule counting

La microscopie par fluorescence de cellules vivantes produit de grandes quantités de données. Ces données sont composées d’une grande diversité au niveau de la forme des objets d’intérêts et possèdent un ratio signaux/bruit très bas. Pour concevoir un pipeline d’algorithmes efficaces en traitement d’image de microscopie par fluorescence, il est important d’avoir une segmentation robuste et fiable étant donné que celle-ci constitue l’étape initiale du traitement d’image. Dans ce mémoire, je présente MinSeg, un algorithme de segmentation d’image de microscopie par fluorescence qui fait peu d’assomptions sur l’image et utilise des propriétés statistiques pour distinguer le signal par rapport au bruit. MinSeg ne fait pas d’assomption sur la taille ou la forme des objets contenus dans l’image. Par ce fait, il est donc applicable sur une grande variété d’images. Je présente aussi une suite d’algorithmes pour la quantification de petits complexes dans des expériences de microscopie par fluorescence de molécules simples utilisant l’algorithme de segmentation MinSeg. Cette suite d’algorithmes a été utilisée pour la quantification d’une protéine nommée CENP-A qui est une variante de l’histone H3. Par cette technique, nous avons trouvé que CENP-A est principalement présente sous forme de dimère.

Inference for nonparametric high-frequency estimators with an application to time variation in betas

We consider the problem of conducting inference on nonparametric high-frequency estimators without knowing their asymptotic variances. We prove that a multivariate subsampling method achieves this goal under general conditions that were not previously available in the literature. We suggest a procedure for a data-driven choice of the bandwidth parameters. Our simulation study indicates that the subsampling method is much more robust than the plug-in method based on the asymptotic expression for the variance. Importantly, the subsampling method reliably estimates the variability of the Two Scale estimator even when its parameters are chosen to minimize the finite sample Mean Squared Error; in contrast, the plugin estimator substantially underestimates the sampling uncertainty. By construction, the subsampling method delivers estimates of the variance-covariance matrices that are always positive semi-definite. We use the subsampling method to study the dynamics of financial betas of six stocks on the NYSE. We document significant variation in betas within year 2006, and find that tick data captures more variation in betas than the data sampled at moderate frequencies such as every five or twenty minutes. To capture this variation we estimate a simple dynamic model for betas. The variance estimation is also important for the correction of the errors-in-variables bias in such models. We find that the bias corrections are substantial, and that betas are more persistent than the naive estimators would lead one to believe.

Establishing a Robust In Vitro Embryonic Stem Cell Differentiation Assay to Monitor the Hematopoietic Potential of DELES Clones

Afin d’effectuer des études fonctionnelles sur le génome de la souris, notre laboratoire a généré une bibliothèque de clones de cellules souches embryonnaires (ESC) présentant des suppressions chromosomiques chevauchantes aléatoires – la bibliothèque DELES. Cette bibliothèque contient des délétions couvrant environ 25% du génome murin. Dans le laboratoire, nous comptons identifier de nouveaux déterminants du destin des cellules hématopoïétiques en utilisant cet outil. Un crible primaire utilisant la benzidine pour démontrer la présence d'hémoglobine dans des corps embryoïdes (EBS) a permis d’identifier plusieurs clones délétés présentant un phénotype hématopoïétique anormal. Comme cet essai ne vérifie que la présence d'hémoglobine, le but de mon projet est d'établir un essai in vitro de différenciation des ESC permettant de mesurer le potentiel hématopoïétique de clones DELES. Mon hypothèse est que l’essai de différenciation hématopoïétique publié par le Dr Keller peut être importé dans notre laboratoire et utilisé pour étudier l'engagement hématopoïétique des clones DELES. À l’aide d’essais de RT-QPCR et de FACS, j’ai pu contrôler la cinétique de différenciation hématopoïétique en suivant l’expression des gènes hématopoïétiques et des marqueurs de surface comme CD41, c-kit, RUNX1, GATA2, CD45, β-globine 1 et TER-119. Cet essai sera utilisé pour valider le potentiel hématopoïétique des clones DELES candidats identifiés dans le crible principal. Mon projet secondaire vise à utiliser la même stratégie rétro-virale a base de Cre-loxP utilisée pour générer la bibliothèque DELES pour générer une bibliothèque de cellules KBM-7 contenant des suppressions chromosomiques chevauchantes. Mon but ici est de tester si la lignée cellulaire leuémique humaine presque haploïde KBM-7 peut être exploitée en utilisant l'approche DELES pour créer cette bibliothèque. La bibliothèque de clones KBM-7 servira à définir les activités moléculaires de drogues anti-leucémiques potentielless que nous avons identifiées dans le laboratoire parce qu’elles inhibent la croissance cellulaire dans plusieurs échantillons de leucémie myéloïde aiguë dérivés de patients. Elle me permettra également d'identifier les voies de signalisation moléculaires qui, lorsque génétiquement perturbées, peuvent conférer une résistance à ces drogues.

Ship-in-a-bottle synthesis of 2,4,6-triphenylthiapyrylium cations encapsulated in zeolites Y and beta: a novel robust photocatalyst

The 2,4,6-triphenylthiapyrylium ion has been obtained imprisoned inside the supercages of the tridirectional, large pore zeolites Y and beta via ship-in-a-bottle synthesis from chalcone and acetophenone in the presence of hydrogen sulfide. The resulting solids are efficient and robust photocatalysts that are able to degrade phenol and aniline in water with a higher efficiency than the P-25 TiO2 standard. Preliminary tests have shown that these encapsulated dye materials are also efficient photocatalysts for the oxidative degradation of malodorous sulfurcontaining molecules.

Error estimates for approximate approximations on compact intervals

The aim of this paper is the investigation of the error which results from the method of approximate approximations applied to functions defined on compact in- tervals, only. This method, which is based on an approximate partition of unity, was introduced by V. Mazya in 1991 and has mainly been used for functions defied on the whole space up to now. For the treatment of differential equations and boundary integral equations, however, an efficient approximation procedure on compact intervals is needed. In the present paper we apply the method of approximate approximations to functions which are defined on compact intervals. In contrast to the whole space case here a truncation error has to be controlled in addition. For the resulting total error pointwise estimates and L1-estimates are given, where all the constants are determined explicitly.

Approximate solutions and error estimates for a Stokes boundary value problem

The aim of this paper is the numerical treatment of a boundary value problem for the system of Stokes' equations. For this we extend the method of approximate approximations to boundary value problems. This method was introduced by V. Maz'ya in 1991 and has been used until now for the approximation of smooth functions defined on the whole space and for the approximation of volume potentials. In the present paper we develop an approximation procedure for the solution of the interior Dirichlet problem for the system of Stokes' equations in two dimensions. The procedure is based on potential theoretical considerations in connection with a boundary integral equations method and consists of three approximation steps as follows. In a first step the unknown source density in the potential representation of the solution is replaced by approximate approximations. In a second step the decay behavior of the generating functions is used to gain a suitable approximation for the potential kernel, and in a third step Nyström's method leads to a linear algebraic system for the approximate source density. For every step a convergence analysis is established and corresponding error estimates are given.

On Oseen Resolvent Estimates: A Negative Result

We consider the resolvent problem for the scalar Oseen equation in the whole space R^3. We show that for small values of the resolvent parameter it is impossible to obtain an L^2-estimate analogous to the one which is valid for the Stokes resolvent, even if the resolvent parameter has positive real part.

Designing a Robust Pitch Angle Controller for a 2‐Motor‐Pitch‐System in a Large Wind Turbine

Für große Windenergieanlagen werden neue Pitchregler wie Einzelblattregler oder Turmdämpfungsregler entwickelt. Während diese neuen Pitchregler die Elemente der Windenergieanlagen entlasten, wird das Pitchantriebssystem stärker belastet. Die Pitchantriebe müssen weitaus häufiger bei höherer Amplitude arbeiten. Um die neuen Pitchregler nutzen zu können, muss zunächst das Problem der Materialermüdung der Pitchantriebssysteme gelöst werden. Das Getriebespiel in Getrieben und zwischen Ritzeln und dem Zahnkranz erhöht die Materialermüdung in den Pitchantriebssystemen. In dieser Studie werden als Lösung zwei Pitchantriebe pro Blatt vorgeschlagen. Die beiden Pitchantriebe erzeugen eine Spannung auf dem Pitchantriebssystem und kompensieren das Getriebespiel. Drehmomentspitzen, die eine Materialermüdung verursachen, treten bei diesem System mit zwei Pitchmotoren nicht mehr auf. Ein Reglerausgang wird via Drehmomentverteiler auf die beiden Pitchantriebe übertragen. Es werden mehrere Methoden verglichen und der leistungsfähigste Drehmomentverteiler ausgewählt. Während die Pitchantriebe in Bewegung sind, ändert sich die Spannung auf den Getrieben. Die neuen Pitchregler verstellen den Pitchwinkel in einer sinusförmigen Welle. Der Profilgenerator, der derzeit als Pitchwinkelregler verwendet wird, kann eine Phasenverzögerung im sinusförmigen Pitchwinkel verursachen. Zusätzlich erzeugen große Windenergieanlagen eine hohe Last, die sich störend auf die Pitchbewegung auswirkt. Änderungen der viskosen Reibung und Nichtlinearität der Gleitreibung bzw. Coulombsche Reibung des Pitchregelsystems erschweren zudem die Entwicklung eines Pitchwinkelreglers. Es werden zwei robuste Regler (H∞ und μ–synthesis ) vorgestellt und mit zwei herkömmlichen Reglern (PD und Kaskadenregler) verglichen. Zur Erprobung des Pitchantriebssystems und des Pitchwinkelreglers wird eine Prüfanordnung verwendet. Da der Kranz nicht mit einem Positionssensor ausgestattet ist, wird ein Überwachungselement entwickelt, das die Kranzposition meldet. Neben den beiden Pitchantrieben sind zwei Lastmotoren mit dem Kranz verbunden. Über die beiden Lastmotoren wird das Drehmoment um die Pitchachse einer Windenergieanlage simuliert. Das Drehmoment um die Pitchachse setzt sich zusammen aus Schwerkraft, aerodynamischer Kraft, zentrifugaler Belastung, Reibung aufgrund des Kippmoments und der Beschleunigung bzw. Verzögerung des Rotorblatts. Das Blatt wird als Zweimassenschwinger modelliert. Große Windenergieanlagen und neue Pitchregler für die Anlagen erfordern ein neues Pitchantriebssystem. Als Hardware-Lösung bieten sich zwei Pitchantriebe an mit einem robusten Regler als Software.

Optimizing Robust Quantum Gates in Open Quantum Systems

We are currently at the cusp of a revolution in quantum technology that relies not just on the passive use of quantum effects, but on their active control. At the forefront of this revolution is the implementation of a quantum computer. Encoding information in quantum states as “qubits” allows to use entanglement and quantum superposition to perform calculations that are infeasible on classical computers. The fundamental challenge in the realization of quantum computers is to avoid decoherence – the loss of quantum properties – due to unwanted interaction with the environment. This thesis addresses the problem of implementing entangling two-qubit quantum gates that are robust with respect to both decoherence and classical noise. It covers three aspects: the use of efficient numerical tools for the simulation and optimal control of open and closed quantum systems, the role of advanced optimization functionals in facilitating robustness, and the application of these techniques to two of the leading implementations of quantum computation, trapped atoms and superconducting circuits. After a review of the theoretical and numerical foundations, the central part of the thesis starts with the idea of using ensemble optimization to achieve robustness with respect to both classical fluctuations in the system parameters, and decoherence. For the example of a controlled phasegate implemented with trapped Rydberg atoms, this approach is demonstrated to yield a gate that is at least one order of magnitude more robust than the best known analytic scheme. Moreover this robustness is maintained even for gate durations significantly shorter than those obtained in the analytic scheme. Superconducting circuits are a particularly promising architecture for the implementation of a quantum computer. Their flexibility is demonstrated by performing optimizations for both diagonal and non-diagonal quantum gates. In order to achieve robustness with respect to decoherence, it is essential to implement quantum gates in the shortest possible amount of time. This may be facilitated by using an optimization functional that targets an arbitrary perfect entangler, based on a geometric theory of two-qubit gates. For the example of superconducting qubits, it is shown that this approach leads to significantly shorter gate durations, higher fidelities, and faster convergence than the optimization towards specific two-qubit gates. Performing optimization in Liouville space in order to properly take into account decoherence poses significant numerical challenges, as the dimension scales quadratically compared to Hilbert space. However, it can be shown that for a unitary target, the optimization only requires propagation of at most three states, instead of a full basis of Liouville space. Both for the example of trapped Rydberg atoms, and for superconducting qubits, the successful optimization of quantum gates is demonstrated, at a significantly reduced numerical cost than was previously thought possible. Together, the results of this thesis point towards a comprehensive framework for the optimization of robust quantum gates, paving the way for the future realization of quantum computers.

Analysis and Implementation of Robust Grasping Behaviors

This thesis addresses the problem of developing automatic grasping capabilities for robotic hands. Using a 2-jointed and a 4-jointed nmodel of the hand, we establish the geometric conditions necessary for achieving form closure grasps of cylindrical objects. We then define and show how to construct the grasping pre-image for quasi-static (friction dominated) and zero-G (inertia dominated) motions for sensorless and sensor-driven grasps with and without arm motions. While the approach does not rely on detailed modeling, it is computationally inexpensive, reliable, and easy to implement. Example behaviors were successfully implemented on the Salisbury hand and on a planar 2-fingered, 4 degree-of-freedom hand.