VictorJuiz/thesis huggingface dataset:
By what right do we own things? A justification of property ownership from an Augustinian tradition

The justification of property ownership based on individual subjective rights is tightly bound to humanist moral perspectives. God is left out as irrelevant to the just grounds of ownership, which is established primarily on the basis of human self-referential, moral capacity. This thesis aims at developing an alternative justification, both for property as an institution and as a private holding, with a view to bringing God back into the centre stage and thereby placing property ownership on the objective concept of right. A tradition hitherto generally left unnoticed, yet uncovered here as the source of inspiration, vests the whole project with a moral-teleological tone. The tradition, enunciated by St. Augustine and developed by St. Bonaventure and John Wyclif, invites us to see property from the perspective of a moral end: it ought to be used for the love of God and neighbours, and as such it can be owned only by the just. In spite of important insights into the moral nature of property, the Augustinian thesis not only fails to spell out what ‘use for love’ means but also suffers from elitism. Nor does it offer an adequate justification of private property. Such weaknesses call for revision. When we reinterpret the Augustinian thesis through the concept of the divine imperative of service coupled with a proper understanding of human work, property acquires a distinctive justification. Property, as an institution, is justified as a requisite for carrying out God’s redemptive work towards the world. From this general justification ensues the particular justification. We hold property as specifically ‘mine,’ since each person’s ordained mission to participate in God’s work requires a uniquely personal material means, although the recognition and fulfilment of individual mission still demands communal efforts. The duty to carry out the God-commanded mission at first allows us to possess private property only in a non-proprietorial and non-exclusive manner. Yet in the prevailing condition of economic scarcity and human greed, civil jurisdiction must provide a structure of rights to enforce property institution. As God’s invitation for the transformation of the world is a universal command, everybody should have a minimum of property, and yet in differentiation of the scope and kinds commensurate with the particularities of individual mission.

Keywords: St. Augustine
mission
justification of private property
property ownership
rights
calling
justice
John Wycliffe
individual subjective rights
medieval Franciscans
theory of property
St. Thomas Aquinas
St. Bonaventure
private property
natural rights to property
objective moral order
evangelical poverty
ius
dominium
property rights
property
Advisor: O'Donovan, O
Writing and publishing music theory in early seventeenth-century Italy: Adriano Banchieri and his contemporaries

Why write music theory and publish it? In the thesis I investigate the reasons for a seeming over-abundance of practically oriented music treatises in early seventeenth-century Italy. Throughout I challenge our conventional assessment of the study of music theory: I suggest that we can define a music-theoretical text in terms of its material form in addition to its content. Adriano Banchieri (1568-1634) was the most prolific theorist in early seventeenth-century Italy. His music-theory books exemplify contemporary printing patterns, an overt practical focus, and a synthesis of contemporary theoretical innovations.
In Chapter 1, after considering the meaning of 'music theory' and how it is typically classified, I discuss the process of and purposes for writing and publishing music theory. In Chapter 2 I explore Banchieri's practical and philosophical motives for writing music theory, and thus introduce the reader to his music-theoretical corpus. The focus of the thesis then broadens: in Chapter 3 I survey the typical authors, publishing houses, content, material form, function and readers of the various kinds of theoretical texts printed in Italy between 1600 and 1630. In Chapter 4 I examine the widespread practice of publishing second and revised editions of music-theory books in order to establish the extent to which a new edition corresponds to a seeming demand for a particular text. The case study of the paratext of Banchieri's Conclusiones de musica (Bologna, 1627) in Chapter 5 demonstrates the great extent to which the preliminary matter of an early Seicento music-theory book is embedded in its socio-cultural context and how a paratext projects ideas contained in the text proper. Lastly, in Chapter 6 I explore to whom and in which particular forums theoretical writings circulated. Here I focus principally on Banchieri's printed letters, which provide evidence of how an author circulated his music books.

Keywords: Cataloguing
Patronage
Music theory
Seventeenth century
Publishing
Catalogue
Printing
Adriano Banchieri
Advisor: Rees, O
Blackburn, B
Dynamics of neural networks and disordered spin systems

I obtain a number of results for the dynamics of several disordered spin systems, of successively greater complexity. I commence with the generalised Hopfield model trained with an intensive number of patterns, where in the thermodynamic limit macroscopic, deterministic equations of motion can be derived exactly for both the synchronous discrete time and asynchronous continuous time dynamics. I show that for symmetric embedding matrices Lyapunov functions exist at the macroscopic level of description in terms of pattern overlaps. I then show that for asymmetric embedding matrices several types of bifurcation phenomena to complex non-transient dynamics occur, even in this simplest model. Extending a recent result of Coolen and Sherrington, I show how the dynamics of the generalised Hopfield model trained with extensively many patterns and non-trivial embedding matrix can be described by the evolution of a small number of overlaps and the disordered contribution to the 'energy', upon calculation of a noise distribution by the replica method. The evaluation of the noise distribution requires two key assumptions: that the flow equations are self averaging, and that equipartitioning of probability occurs within the macroscopic sub-shells of the ensemble. This method is inexact on intermediate time scales, due to the microscopic information integrated out in order to derive a closed set of equations. I then show how this theory can be improved in a systematic manner by introducing an order parameter function - the joint distribution of spins and local alignment fields, which evolves in time deterministically, according to a driven diffusion type equation. I show how the coefficients in this equation can be evaluated for the generalised Sherrington-Kirkpatrick model, both within the replica symmetric ansatz, and using Parisi's ultrametric ansatz for the replica matrices, upon making once again the two key assumptions (self averaging and equipartitioning). Since the order parameter is now a continuous function, however, the assumption of equipartitioning within the macroscopic sub-shells is much less restricting.

Advisor: Coolen, A
Sherrington, D
Coolen, T
The creation of the Roman state, AD 200-340

The subject of the thesis is that of the transformation of the Roman empire in the third and fourth centuries. The starting date in the title reflects a belief that the impetus for this change was generated by the decree of the emperor M. Aurelius Antoninus (Caracalla), whereby all free subjects were made citizens in AD 212. This laid the foundations for the transformation of the Roman empire, centred on the city of Rome, into a Roman nation-state, with a government dissociated from that of the City. The study is divided into three parts. Part One is an examination of the impact of the Constitutio Antoniniana. It is argued that both the extent and nature of this impact can be measured by an examination of the changes that Roman naming practices underwent in the subsequent period, and that the new naming practices of the later third century onwards reflect the creation of a new basis for the social hierarchy. Part two analyses the development of the praetorian prefecture, an office which is recognised to be one of the key institutions of the late Roman state. It traces the change in the nature of the office from one of personal service to the emperor to its later fourth-century incarnation as virtual viceroy for civil affairs over discreet portions of the empire. This is followed by a prosopographical catalogue of the prefects from 284-344, and appendices laying out the documentary evidence for the analysis. In Part Three an analysis of the holders of the ordinary consulship from 260 to 360 is undertaken. This begins with a prosopographical catalogue, in which the consuls are classified as to social origin and occupation. These results are analysed statistically in order to elucidate the relationship between the magistrates of the city of Rome and the imperial administration, concluding that there was a symbolic divorce between the two during the reign of Constantine. Appendix 3 provides revised fasti for the consulship 260-360. The Conclusion draws together the findings of these three studies to show their implications for our interpretation of the nature of the late Roman state.
Challenges in the relationship between the protection of internally displaced persons and international refugee law

Internally Displaced Persons ('IDPs') outnumber refugees by two to one and often have the same fears, needs and wants as refugees recognised as such under international law. However, refugee status entails international protection, while IDPs are left to the protection of their own state, which may, but by no means necessarily, be the very entity that has forced them to flee in the first place.
In recent years, there have been significant developments in the realm of IDP protection. This includes the conclusion of two regional treaties on the protection of IDPs, the development of relevant soft law instruments, and the reformed 'Cluster Approach' of humanitarian response. Although the increased focus on IDP protection is a welcome development, the UNHCR has expressed the fear that 'activities for the internally displaced may be (mis)interpreted as obviating the need for international protection and asylum.'
This thesis represents the first legal analysis of the relationship between the protection of IDPs and International Refugee Law. It will discuss five key challenges in this respect. First, the challenge of drawing the attention of the international community to the plight of IDPs; second, the challenge of developing an appropriate framework for the protection of IDPs; third, the challenge of ensuring that internal protection is not interpreted as a substitute for asylum; fourth; the challenge of determining the relationship between complementary protection and internal displacement; and fifth, the challenge of ensuring that IDP protection in an inter-agency context does not trigger the application of Article 1D of the Refugee Convention, rendering the Convention inapplicable to the recipients of that protection.
This thesis will conclude by setting out the future challenges in the relationship between IDP protection and International Refugee Law, by identifying questions left open for further research, and by illustrating the overall impact and importance of this thesis' findings.

Keywords: refugee law
refugees
internally displaced persons
Advisor: Goodwin-Gill, G
Construction and performance of the ATLAS SCT barrels and cosmic tests

ATLAS is a multi-purpose detector for the LHC and will detect proton-proton collisions with center of mass energy of 14 TeV. Part of the central inner detector, the Semi-Conductor Tracker (SCT) barrels, were assembled and tested at Oxford University and later integrated at CERN with the TRT (Transition Radiation Tracker) barrel. The barrel SCT is composed of 4 layers of silicon strip modules with two sensor layers with 80 micro m channel width. The design of the modules and the barrels has been optimized for low radiation length while maintaining mechanical stability, bringing services to the detector, and ensuring a cold and dry environment. The high granularity, high detector efficiency and low noise occupancy (< 5*10^-4) of the SCT will enable ATLAS to have an efficient pattern recognition capability. Due to the binary nature of the SCT read-out, a stable read-out system and the calibration system is of critical importance. SctRodDaq is the online software framework for the calibration and also the physics running of the SCT and has been developed and tested during construction and commissioning of the detector with cosmics. It reliably measures the SCT performance parameters for each of the 6.3*10^6 channels in the SCT, identifies defects and problematic modules and writes them to an offline database for access from Athena, the ATLAS offline software framework. This dataflow chain has been exercised during the cosmics run at CERN, where a 5*10^5 cosmics sample for the combined SCT and TRT detectors was collected with a scintillator based trigger. It is now being commissioned in the ATLAS pit.

Keywords: ATLAS
silicon detectors
cosmic rays
Advisor: Weidberg, A
Aquaporins in magnaporthe oryzae

The Ascomycete fungus Magnaporthe oryzae is the causative agent of Rice Blast, and has become the predominant model organism for study of fungal phytopathogens and other appressorium-forming fungi. I identified and attempted to elucidate the function of the six aquaporin genes in the M. oryzae genome. These small membrane channels have been implicated in the transport of water, glycerol, and a variety of other small molecules. We speculated that these functions might be important in the formation of the appressorium – a specialised infection structure that relies on the generation of turgor. The role of these proteins in general fungal biology is poorly understood, and this project endeavoured to correct this gap.
A phylogenetic analysis of aquaporins in extant fungi revealed the significant expansion of this gene family in Pezizomycete and Basidiomycete fungi, with up to 17 genes in some species. I characterised the expression pattern of the six identified aquaporins in the M. oryzae genome during pathogenic development and found there to be substantial up-regulation co-incident with appressorial turgor generation. Single knock-outs of each aquaporin gene were fully pathogenic, with normal infection-related development and axenic growth. I speculated that the absence of a strong phenotype may have been caused by functional redundancy, and used qRT-PCR investigate the incidence of transcriptional up-regulation of remaining family members in the knock-out backgrounds. This uncovered a putative reciprocal relationship between two genes MoAQP1 and MoAQP2, suggesting that deletion of one results in up-regulation of the other. I subsequently tested the substrate permeability of this gene pair and found them to be permeable to hydrogen peroxide. However, deletion of one of these genes did not appear to affect the rate of flux of hydrogen peroxide across the plasma membrane. My attempt to characterise the cellular localisation of these proteins using GFP fusions was largely unsuccessful with the exception of a single gene, MoAGP2, which appears to be located on the endoplasmic reticulum.

Keywords: aquaporins
magnaporthe
plant disease
Advisor: Gurr, S
Fricker, M
High-fidelity microwave-driven quantum logic in intermediate-field 43Ca+

This thesis is concerned with the development of an intermediate magnetic field "clock-qubit" in 43Ca+ at 146G and techniques to manipulate this qubit using microwaves and lasers. While 43Ca+ has previously been used as a qubit, its relatively complicated level structure - with a nuclear spin of 7/2 and low-lying D-states -- makes cooling it in the intermediate field an intimidating prospect. As a result, previous experiments have used small magnetic fields of a few gauss where coherence times are limited and off-resonant excitation is a significant source of experimental error.
We demonstrate a simple scheme that allows 43Ca+ to be cooled in the intermediate field without any additional experimental complexity compared with low fields. Using the clock-qubit, we achieve a coherence time of T*2 = 50 (10)s - the longest demonstrated in any single qubit. We also demonstrate a combined state preparation and measurement error of 6.8(6)x 10-4 - the lowest achieved for a hyperfine trapped ion qubit [NVG+13] - and single-qubit logic gates with average errors of 1.0(3) x 10-6 - more than an order of magnitude better than the previous record [BWC+11]. These results represent the state-of-the-art in the field of single-qubit control. Moreover, we achieve them all in a single scalable room-temperature ion trap using experimentally robust techniques and without relying on the use of narrow-linewidth lasers, magnetic field screening or dynamical decoupling techniques.
We also present work on a recent scheme [OWC+11] to drive two-qubit gates using microwaves. We have constructed an ion trap with integrated microwave circuitry to perform these gates. Using this trap, we have driven motional sideband transitions, demonstrating the spin-motion coupling that underlies the two-qubit gate. We present an analysis of likely sources of experimental error during a future two-qubit gate and the design and preliminary characterisation of apparatus to minimise the main error contributions. Using this apparatus, we hope to perform a two-qubit gate in the near future.

Keywords: Ion trapping
fidelity
microwaves
quantum computing
Advisor: Lucas, D
The archaeology of Greek warriors and warfare from the eleventh to the early seventh century BCE

This thesis studies the evidence related to warfare and warriors in the Early Iron Age of Greece, from the eleventh to the early seventh century B.C.E. It argues that "warrior" identity, as expressed through burial with weapons or depictions of armed men and combat in pictorial painting and literature, is connected to violent action in order to create, maintain, and reinforce the relationship between authority and violent action. The forms that this violent action took were variable, from interregional conflict to overseas raids. This is outlined in Chapter 1, which is followed by two chapters summarizing the palatial (Chapter 2) and postpalatial (Chapter 3) background to the Early Iron Age.
Chapters 4 to 7 present the evidence. In order to provide a more thorough analysis the focus is limited to the regions of Attica, central Euboea, the Argolid, and Knossos. The study of warfare in this period has been dominated by the study of weapons; in this thesis the approach focuses on the contexts in which these weapons are found, burials (Chapter 4), sanctuaries (Chapter 5), and occasionally settlements (Chapter 6). In these chapters the particular treatment and emphasis on weapons and armour is considered based on an understanding of these contexts in the period. In Chapter 7, representations and the treatment of warriors and warfare in Early Iron Age pictorial pottery is considered, as is briefly the literary evidence from the end of this period, which form the means by which contemporary people came to understand warfare. Chapter 8 discusses the evidence, while Chapter 9 summarizes the conclusions.
This thesis shows that while warrior identity and the practice of war are closely related, in these areas of Early Iron Age Greece there are variations in the identification of men as warriors and in the intensity with which war is fought. Throughout the period, these regions express warrior identity in broadly similar ways, but with variations in duration, accessibility, and meaning. The eighth century is particularly a period of change with the intensification of warfare manifest in the destruction of settlements, but these changes are not restricted to this century, and are in many ways similar to the preceding centuries on a larger scale.

Keywords: warriors
Greece
Early Iron Age
warfare
war
Advisor: Lemos, I
Mathematical modelling of metabolism and acidity in cancer

Human cancers exhibit the common phenotype of elevated glycolytic metabolism, which causes acidification of the tissue microenvironment and may facilitate tumour invasion. In this thesis, we use mathematical models to address a series of open problems underlying the glycolytic tumour phenotype and its attendant acidity.
We first explore tissue-scale consequences of metabolically-derived acid. Incorporating more biological detail into a canonical model of acidity at the tumour-host interface, we extend the range of tumour behaviours captured by the modelling framework. We then carry out an asymptotic travelling wave analysis to express invasive tumour properties in terms of fundamental parameters, and find that interstitial gaps between an advancing tumour and retreating healthy tissue, characteristic of aggressive invasion and comprising a controversial feature of the original model, are less significant under our generalised formulation.
Subsequently, we evaluate a potential role of lactate---historically assumed to be a passive byproduct of glycolytic metabolism---in a perfusion-dependent metabolic symbiosis that was recently proposed as a beneficial tumour behaviour. Upon developing a minimal model of dual glucose-lactate consumption in vivo and employing a multidimensional sensitivity analysis, we find that symbiosis may not be straightforwardly beneficial for our model tumour. Moreover, new in vitro experiments, carried out by an experimental collaborator, place U87 glioblastoma tumours in a weakly symbiotic parameter regime despite their clinical malignancy. These results suggest that intratumoural metabolic cooperation is unlikely to be an important role for lactate.
Finally, we examine the complex pH regulation system that governs expulsion of metabolically derived acid loads across tumour cell membranes. This system differs from the healthy system by expression of only a few key proteins, yet its dynamics are non-intuitive in the crowded and poorly perfused in vivo environment. We systematically develop a model of tumour pH regulation, beginning with a single-cell scenario and progressing to a spheroid, within a Bayesian framework that incorporates information from in vitro data contributed by a second experimental collaborator. We predict that a net effect of pH regulation is a straightforward transmembrane pH gradient, but also that existing treatments are unable to disrupt the system strongly enough to cause tumour cell death.
Taken together, our models help to elucidate previously unresolved features of glycolytic tumour metabolism, and illustrate the utility of a combined mathematical, statistical, and experimental approach for testing biological hypotheses. Opportunities for further investigation are discussed.

Keywords: systems biology
partial differential equations
Bayesian methods
acid-mediated tumour invasion
cellular metabolism
asymptotic analysis
cancer
global sensitivity analysis
Advisor: Maini, P
Gaffney, E
Martin, N