VictorJuiz/thesis huggingface dataset:
Mitochondrial and transcription rate heterogeneity of mouse embryonic stem cells
Keywords: heterogeneity
stem cells

Cell-to-cell variation in expression of pluripotency- and lineage-determining factors has been proposed to be integral to the process of cell fate commitment in pluripotent cells both in vitro and in vivo. Understanding the sources of this heterogeneity in pluripotent stem cells promises greater insight into the mechanisms underlying cell fate choice. I identify mitochondrial membrane potential as an axis of heterogeneity in mouse embryonic stem cell populations, and show that high mitochondrial membrane potential marks cells that are in a stable self-renewing state. Partial overlap with previously described metastable subpopulations is demonstrated through gene expression analysis. I present evidence that similarly to previous findings in HeLa, heterogeneity in mitochondrial membrane potential is associated with variation in global transcription rate in mESCs. The direct impact of global transcription rate on differentiation propensity is demonstrated through manipulation of RNA Pol II transcription elongation rate. Mitochondrial variability is therefore likely a functionally relevant source of extrinsic gene expression variability in mouse embryonic stem cells.
Twistor theory of higher-dimensional black holes
Keywords: ernst potential
reduced twistor space
black holes
conical singularity
higher dimensions
penrose ward transform
twistor theory
black ring
myers perry black hole

The correspondence of stationary, axisymmetric, asymptotically flat space-times and bundles over a reduced twistor space has been established in four dimensions. The main impediment for an application of this correspondence to examples in higher dimensions is the lack of a higher-dimensional equivalent of the Ernst poten- tial. This thesis will propose such a generalized Ernst potential, point out where the rod structure of the space-time can be found in the twistor picture and thereby provide a procedure for generating solutions to the Einstein field equations in higher dimensions from the rod structure, other asymptotic data, and the requirement of a regular axis. Examples in five dimensions are studied and necessary tools are developed, in particular rules for the transition between different adaptations of the patching matrix and rules for the elimination of conical singularities.
A search for supersymmetry with the ATLAS detector using kinematic shape constraints in events containing one electron or muon
Keywords: ATLAS
experimental particle physics
supersymmetry
particle physics
physics

The ATLAS experiment is used to observe the √s=7 TeV proton-proton collisions produced by the LHC at CERN. This gives an unprecedented opportunity to search for physics beyond the Standard Model at hitherto unexplored kinematic regimes. Supersymmetry (SUSY) provides interesting solutions to a variety of theoretical problems that may be encountered in the Standard Model at high energy scales, while providing signatures that may be observed at the LHC. However, in order to produce a search that is sensitive to SUSY it is vital to understand how the physics that has been discovered to date may produce signatures that mimic those expected from SUSY.
Statistical models are constructed using both Monte Carlo and data-driven predictions of various background processes. The expectations are compared to the observed data for selections containing one electron or muon, each in association with jets and missing transverse momentum. Kinematic variable shapes, in the form of histograms, are used to enhance the sensitivity of the search. Squark and gluino masses in a MSUGRA SUSY model are excluded up to 1200 GeV, while gluino masses up to 900 GeV are excluded in a simplified SUSY model. Model-independent limits are also set, excluding theoretical models with efficiency times cross section above 1 fb.
Informal carers' attitudes to pensions and retirement savings
Keywords: decision-making
social care
carers
retirement
care
social security
pensions

Concerns about population ageing have been central to reforms of pensions policy and social care policy in the UK over recent decades. However, policy responses to these social problems are in tension, as individuals have been expected to take greater responsibility for both pension saving and provision of care, even when care involves a reduction in earnings and savings. While the pension system protects carers’ state pensions, little attention has been paid to their non-state pensions.
This thesis therefore explores the attitudes and beliefs carers hold regarding pensions, and the effect of caring on pensions planning, particularly planning a non-state pension. It focuses on the assumptions made about agency and decision-making contained within social policy. Semi-structured interviews were held with those aged 35-64 who were providing 20 hours of care or more a week in the Thames Valley and Greater London.
Almost all of the carers reported disruption to their private pension savings as their employment was impacted by caring. Few felt able to make a choice regarding either caring or employment. Caring also affected the importance many attached to saving, although there was no uniform effect on decision-making. Some carers became more reflexive, attempting to take more control in response to the uncertainty in their lives; others felt powerless due to this uncertainty and limited financial resources.
The study provided support for the theory of an ethic of care, which suggests individuals make decisions based on relationships rather than calculations of expected outcomes. The findings challenge the assumptions made in pensions policy. Carers were classed in four categories of approach to pensions savings: reflexive planners, non-reflexive planners, reflexive non-planners and non-reflexive non-planners. A range of financial and social resources corresponding to Bourdieu’s habitus and economic and cultural capital was required for carers to act as reflexive planners.
Determinants of neuronal firing patterns in the hippocampus
Keywords: local field potential
GABAergic interneuron
cell identification
juxtacellular recording
oscillations
network
hippocampus

The activity of networks subserving memory and learning in the hippocampus is under the control of GABAergic interneurons. In order to test the contribution of distinct cell types, I have recorded extracellularly, labelled, and identified different types of interneuron in area CA3 of the hippocampus, a region implicated in the generation of gamma and theta oscillations, and the initiation of sharp-waves.
I present here a detailed analysis of the spike timing of parvalbumin-positive (PV) basket and physiologically identified pyramidal cells in area CA3, relative to various network states recorded in area CA3 and CA1 simultaneously. Additionally, I have shown by detailed analysis that five classes of previously recorded and identified CA1 interneuron fired with cell type specific firing patterns relative to local gamma oscillations.
In CA3, PV basket cells fired phase locked to theta and gamma oscillations recorded in CA1 as well as in CA3, and increased their firing rates during CA1 sharp-waves. Pyramidal cells in CA3 were also phase-locked, but fired at phases different from basket cells. During theta oscillations, CA3 pyramidal and PV basket cells were phase locked to both CA1 and CA3 theta equally, suggesting a wide coherence of these oscillations; in contrast, cells fired more strongly phase-locked to gamma oscillations in CA3 than in CA1, suggesting a specific role for CA3 in the generation of this rhythm. In contrast to theta and gamma oscillations, CA3 basket cells were phase-locked to ripples in area CA3 but not in CA1.
Overall, my results show that the spike timing of several types of interneuron in CA1, and PV basket cells in CA3, is correlated in a cell- and area-specific manner with the generation of particular states of synchronous activity.
Topics on backward stochastic differential equations. Theoretical and practical aspects
Keywords: backward stochastic differential equations
stochastic processes
Feynman-Kac formula
stochastic analysis
martingales
numerical methods

This doctoral thesis is concerned with some theoretical and practical questions related to backward stochastic differential equations (BSDEs) and more specifically their connection with some parabolic partial differential equations (PDEs). The thesis is made of three parts.
In the first part, we study the probabilistic representation for a class of multidimensional PDEs with quadratic nonlinearities of a special form. We obtain a representation formula for the PDE solution in terms of the solutions to a Lipschitz BSDE. We then use this representation to obtain an estimate on the gradient of the PDE solutions by probabilistic means. In the course of our analysis, we are led to prove some results for the associated multidimensional quadratic BSDEs, namely an existence result and a partial uniqueness result.
In the second part, we study the well-posedness of a very general quadratic reflected BSDE driven by a continuous martingale. We obtain the comparison theorem, the special comparison theorem for reflected BSDEs (which allows to compare the increasing processes of two solutions), the uniqueness and existence of solutions, as well as a stability result. The comparison theorem (from which uniqueness follows) and the special comparison theorem are obtained through natural techniques and minimal assumptions. The existence is based on a perturbative procedure, and holds for a driver whis is Lipschitz, or slightly-superlinear, or monotone with arbitrary growth in y. Finally, we obtain a stability result, which gives in particular a local Lipschitz estimate in BMO for the martingale part of the solution.
In the third and last part, we study the time-discretization of BSDEs having nonlinearities that are monotone but with polynomial growth in the primary variable. We show that in that case, the explicit Euler scheme is likely to diverge, while the implicit scheme converges. In fact, by studying the family of θ-schemes, which are mixed explicit-implicit, θ characterizing the degree of implicitness, we find that the scheme converges when the implicit component is dominant (θ ≥ 1/2 ). We then propose a tamed explicit scheme, which converges. We show that the implicit-dominant schemes with θ > 1/2 and our tamed explicit scheme converge with order 1/2 , while the trapezoidal scheme (θ = 1/2) converges with order 7/4.
Investigation of in-hospital norovirus transmission using whole genome sequencing
Keywords: whole genome sequencing
Norovirus
calicivirus

Norovirus is the commonest cause of viral gastroenteritis, affecting all age groups worldwide. Outbreaks frequently occur in semi-closed communities such as schools, cruise ships, prisons and hospitals. Within the healthcare environment, the economic and logistical burdens and the inconvenience caused by norovirus is significant, since ward closure remains central to infection control. The aim of this study was to investigate norovirus transmission dynamics during hospital outbreaks. The ultimate goal was to provide information that could, in future, lead to the development of novel, less disruptive approaches to curtailing the spread of infection.
The study explored the application of 'next generation' high throughput DNA sequencing technologies to the determination of large numbers of norovirus genomes. Whole genome sequences provide the highest possible level of discrimination among viruses, information which is essential to the identification of linked and independent cases of infection. The approach exploits the high norovirus mutation rate, which is typical of RNA viruses. Consequently, viruses within a single ward which differ by more than a few SNVs can be considered to represent independent introductions, rather than a single outbreak.
Whole genome sequence data (determined for noroviruses collected between 2009 and 2013) were combined with epidemiological data, providing further insights into transmission dynamics. These data identified multiple independent virus introductions during single ward outbreaks. The possible origin of such outbreaks in Oxfordshire hospitals were investigated using viruses originating in the local community, and in other healthcare environments distributed throughout the UK. Whole genome sequences of noroviruses from consecutive years were genetically divergent, confirming the rapid evolution of the virus over time and excluding the possibility of prolonged environmental contamination as a reservoir of infection. Such detailed information on norovirus transmission within the healthcare environment could inform alternative future approaches to optimising infection control within the healthcare setting.
Studies in the history and function of the British theatre playbill and programme 1564-1914
Keywords: theatre programmes
playbills
theatre

This thesis offers a comprehensive account of the history, forms and content of playbills and theatre programmes; of the different contexts of their physical production, dispersal and varied uses; and, beyond their immediate utility as a record of author, work, cast, place and time of performance, considers the evidence they yield of the social contexts of theatregoing. Chapter one demonstrates the ways in which diverse approaches to the classification of playbills and programmes facilitate an understanding of their most basic ingredients. Chapter two offers an account of the production and distribution of playbills and programmes from the mid-sixteenth through the early-twentieth centuries. Chapter three explores the relationship between bills of the play and other theatrical documentation. The historical considerations undertaken in the second section, chapters four through six, represent a chronological overview of the numerous developments to the form and content of the British theatre bill occurring between 1564 and 1914. The functional considerations undertaken in the final section offer an analysis of the duties fulfilled by the British theatre bill, before, during and after a production. Chapter seven is concerned with the role of the playbill in anticipation of the future, as a source of both allure and information. Chapter eight examines the role of the programme in conjunction with the present, as a guide to both the play and the theatre. Chapter nine concludes the study, discussing the role of the bill of the play in reflection on the past, as a chronicler of both theatre history and social history.
Mathematical modelling of compaction and diagenesis in sedimentary basins
Keywords: compaction
asymptotic analysis
diagenesis
mathematical model
PDE
numerical methods
sedimentary basin

Sedimentary basins form when water-borne sediments in shallow seas are deposited over periods of millions of years. Sediments compact under their own weight, causing the expulsion of pore water. If this expulsion is sufficiently slow, overpressuring can result, a phenomenon which is of concern in oil drilling operations. The competition between pore water expulsion and burial is complicated by a variety of factors, which include diagenesis (clay dewatering), and different modes (elastic or viscous) of rheological deformation via compaction and pressure solution, which may also include hysteresis in the constitutive behaviours. This thesis is concerned with models which can describe the evolution of porosity and pore pressure in sedimentary basins.
We begin by analysing the simplest case of poroelastic compaction which in a 1-D case results in a nonlinear diffusion equation, controlled principally by a dimensionless parameter lambda, which is the ratio of the hydraulic conductivity to the sedimentation rate. We provide analytic and numerical results for both large and small lambda in Chapter 3 and Chapter 4. We then put a more realistic rheological relation with hysteresis into the model and investigate its effects during loading and unloading in Chapter 5. A discontinuous porosity profile may occur if the unloaded system is reloaded. We pursue the model further by considering diagenesis as a dehydration model in Chapter 6, then we extend it to a more realistic dissolution-precipitation reaction-transport model in Chapter 7 by including most of the known physics and chemistry derived from experimental studies.
We eventually derive a viscous compaction model for pressure solution in sedimentary basins in Chapter 8, and show how the model suggests radically different behaviours in the distinct limits of slow and fast compaction. When lambda << 1, compaction is limited to a basal boundary layer. When lambda >> 1, compaction occurs throughout the basin, and the basic equilibrium solution near the surface is a near parabolic profile of porosity. But it is only valid to a finite depth where the permeability has decreased sufficiently, and a transition occurs, marking a switch from a normally pressured environment to one with high pore pressures.
In pursuit of salvation: Woodrow Wilson and American liberal internationalism as secularized eschatology
Keywords: ideology
religion
secularization
liberalism
Wilson
utopia

This work reinterprets the idea of progress at the heart of Woodrow Wilson’s liberal internationalism through the lens of secularization theory, which holds that modern philosophies of progress stand on religious foundations and represent secularized vestiges of biblical eschatology. Previous applications of this insight reveal a selective pattern: Whereas totalitarian and illiberal narratives of progress such as Nazism and Marxism-Leninism have received lavish attention and spawned extensive political religions literature, liberal progressivism has been ignored. This dissertation rectifies this neglect. Initial chapters present the biblical conception of history as the myth of salvation, introduce secularization through the writings of Karl Löwith and Hans Blumenberg, respectively its principal proponent and main critic, and test the limits of the concept to confirm its applicability to liberal progressivism. The main part aims secularization theory at Wilson’s idea of progress in the broader context of American liberal thought. From the 17th-century Puritan vision of a “city upon a hill” to the 19th-century doctrine of “manifest destiny”, biblical eschatology defined the way Americans envisioned history and their role in it, giving rise to a sort of liberal-republican millennialism. Wilson was no exception: Considering faith essential to authentic knowledge, he regarded history as a providential process, the United States as a divinely appointed redeemer nation, and himself as a Christian statesman performing God’s work in a fallen world. His foreign policy was fundamentally a religious mission to transform international relations according to the Bible, thereby fulfilling the prophecy of salvation. The dissertation demonstrates the eschatological foundations of his statecraft through specific examples and draws attention to their illiberal and totalizing implications. Final passages note the enduring relevance of Wilson’s principles and, based on their reinterpretation in this work, reflect critically on their suitability as a guide for future American foreign policy.
Rhodium catalysed hydroacylation reactions in the synthesis of heterocycles
Keywords: pyrroles
propargylamines
enones
rhodium
propargyl
hydroacylation

Rhodium-catalysed hydroacylation provides a highly atom economic synthesis of ketone products from the combination of aldehydes and multiple bond systems by C-H bond activation. This work evaluates the combination of intermolecular hydroacylation for the synthesis of classical heterocycle precursors and their dehydrative cyclisation to give rise to a range of substituted heterocyclic compounds.
Chapter 1 outlines recent developments in the chemistry of hydroacylation. Particular attention is paid to the various chelation strategies employed in intermolecular hydroacylation. Chapter 2 discusses some relevant and recent developments in the field of pyridine and pyrrole synthesis.
Having established that β-sulphur chelation controlled hydroacylation can be used to synthesise pyridines in Chapter 3; attention was turned to hydroacylation of propargyl amines in Chapter 4. The methodology was expanded to provide a synthesis of γ-amino enones. The hydroacylation reaction and cyclisation is combined in a procedure that utilises thermal Boc-deprotection and cyclisation to give a range of highly-substituted pyrroles.
The regioselectivity of the hydroacylation of propargyl amines is investigated in Chapter 5 by application of statistical Design of Experiments methodology. Optimised conditions were identified with minor improvements in the selectivity of the reaction.
Competition law and the common law of unfair competition
Keywords: unfair competition
economic torts
competition law

Competition between trade rivals in a marketplace operating within a common law-based legal system is regulated primarily by two fairly distinct branches of the law: the prohibitions against anti-competitive conduct imposed by the competition law framework, and the common law restraints against acts of “unfair competition” that attract liability under the economic torts. This dissertation aims to critically examine both these legal frameworks and provide an integrated account of how these branches of the law distinguish between lawful and unlawful modes of competitive conduct. By scrutinising the doctrinal and policy foundations that underlie each of these legal frameworks, common thematic strands that may not be immediately apparent to lawyers working exclusively in either field will be exposed, while fundamental differences between their respective inner workings will also be uncovered in the process. Engaging in such a comparative exercise will facilitate a deeper understanding of the contrasting objectives and jurisprudential approaches associated with each legal framework which, in turn, sheds some light on the nature of their relationship with each other and the extent to which legal developments in one field ought to influence, or be influenced by, the other.
Besides evaluating how and why the common law economic torts operate differently from the competition law prohibitions in circumscribing the liberty of individual competitors to inflict economic harm upon their trade rivals, this dissertation will also analyse selected types of commercial conduct which are regarded as lawful under one framework but unlawful by the other, and contrast them with scenarios which could attract overlapping legal liability under both legal frameworks. In addition, this dissertation will explore a selection of legal issues arising from the doctrinal interaction between these areas of the law that may confront the courts as these two legal frameworks continue to develop in tandem with each other.