VictorJuiz/thesis huggingface dataset:
Meaning in life: tales from aging Japan

Amidst widespread concerns about aging on several levels ranging from the personal to the societal, this dissertation examines the construction of meaning in life and older age in contemporary Japan. Based on an ethnographic account of a community salon in Southern Osaka, it explores the experiences of older people and their ideas of the good and meaningful life, while arguing that than an anthropology of the elderly can reveal a far wider scope of issues than aging alone. Drawing on a socio-narratological approach, I show how stories connect people, form a shared body of knowledge, inform our understanding of the everyday, and provide frameworks for our choices. I argue that the capacity of narratives to create coherence and make sense of seemingly random and unconnected events can help to reveal existential issues, and that narrative analysis may therefore be a powerful tool for creating an existential anthropology capable of elucidating and understanding deeply personal dilemmas in their social and cultural context.
The ethnography and life stories of elderly salon goers, volunteers and others involved in a local Non-Profit Organisation raise important issues of autonomy and dependence, sociality and isolation, care and concern. People express concern for others through practices ranging from gift-giving, visiting, balanced forms of polite yet friendly discourse, the provision of information, and volunteering in the salon and beyond. I argue that older Japanese are as much providers of care as recipients of it, thereby challenging the constructed image of the elderly as frail and dependent, even though maintaining independence relies paradoxically on cultivating multiple dependencies on others. Navigating the tensions between the benefits of rich social ties and a desired level of separation in which the burden imposed is minimised, or between dependence and freedom, emerges as central to the balancing acts required for living well.

Keywords: ageing
meaning in life
Japan
ikigai
narrative
old age
Advisor: Daniels, I
Aristotle's Poetics in Renaissance England

This thesis brings to light evidence for the circulation and first-hand reception of Aristotle's Poetics in sixteenth-century England. Though the Poetics upended literary thinking on the Continent in the period, it has long been considered either unavailable in England, linguistically inaccessible to the Greekless English, or thoroughly mediated for English readers by Italian criticism. This thesis revisits the evidentiary basis for each of these claims in turn. A survey of surviving English booklists and library catalogues, set against the work's comprehensive sixteenth-century print-history, demonstrates that the Poetics was owned by and readily accessible to interested readers; two appendices list verifiable and probable owners of the Poetics respectively. Detailed philological analysis of passages from Sir Philip Sidney’s Defence of Poesie proves that he translated directly from the Greek; his and his contemporaries' reading methods indicate the text circulated bilingually as standard. Nor was Sidney’s polyglot access unusual in literary circles: re-examination of the history of Greek education in sixteenth-century England indicates that Greek literacy was higher and more widespread than traditional histories of scholarship have allowed. On the question of mediation, a critical historiography makes clear that the inherited assumption of English reliance on Italian intermediaries for classical criticism has drifted far from the primary evidence. Under these reconstituted historical conditions, some of the outstanding episodes in the sixteenth-century English reception of the Poetics from John Cheke and Roger Ascham in the 1540s to Sidney and John Harington in the 1580s and 1590s are reconsidered as articulate evidence of reading, thinking about, and responding to Aristotle's defining contribution to Renaissance literary thought.

Keywords: classical education
classical reception
literary theory
Philip Sidney
Advisor: McCabe, R
Evolution of nickel hyperaccumulation in Alyssum L.

Phylogenetic studies are providing powerful new insights into the evolution of complex traits. Metal hyperaccumulation is an unusual and complex physiological trait found in about 500 plant species and is associated with an exceptionally high degree of tolerance of metalliferous soils. Alyssum L. (Brassicaceae) is the largest known hyperaccumulator genus, comprising approximately 188 species distributed throughout the Mediterranean region and south-west Asia. Approximately one-quarter of these are largely restricted to areas of serpentine soils and have the ability to accumulate nickel to high concentrations in shoot tissue. This genus provides a good example in which to study the origins of a complex physiological trait, but its phylogeny is currently poorly understood.
To produce a well-resolved phylogenetic tree to investigate the number and timing of origins of nickel hyperaccumulation within Alyssum, DNA sequences were generated for four chloroplast regions (matK, rps16–trnK, trnD–T and trnL–F) from 170 of 255 species in the tribe Alysseae. Additional sequencing was carried out for the chloroplast genes ndhF and rbcL and the nuclear gene PHYA. A Bayesian analysis employing a relaxed uncorrelated lognormal molecular clock and multiple fossil-age calibration points was carried out to reconstruct a time-calibrated phylogeny of this tribe using appropriate outgroups.
Optimization of the nickel hyperaccumulation trait onto the resulting phylogenetic tree suggests that nickel hyperaccumulation arose twice in the Alysseae in the late Miocene/early Pliocene: 3.3–8.3 Mya in Alyssum and 6.3–8.8 Mya in Bornmuellera. The single origin in Alyssum is strongly associated with a significant acceleration in net species diversification rate, suggesting the ability to hyperaccumulate nickel could have provided a key evolutionary innovation facilitating rapid range expansion and subsequent species diversification. The scattered distribution of nickel hyperaccumulators across small island-like patches of serpentine soil suggests that allopatric speciation may have driven rapid diversification in this clade.

Keywords: phylogenetics
taxonomy
nickel hyperaccumulation
Advisor: Smith, J
Harris, S
Hughes, C
Respiratory disturbances in congenital heart disease

The work described in this thesis has been carried out over the period 1958-1965, having been begun during the tenure of a residency at the University of Colorado, Denver, U.S.A. At this time, surgery for the closure of septal defects was being actively carried out, and interest was aroused, in two clinical features which were apparent from close contact with this programme. The first was the nature of the chest deformities associated with septal defects; the second, the striking alleviation of symptoms which followed successful closure of these defects. The reasons for these phenomena were by no means clear and the subsequent work has been concerned with an attempt to understand them. (Cont.)

Keywords: respiratory system
chest deformities
congenital heart disease
respiratory disturbances
haemodynamism
Bayesian learning methods for modelling functional MRI

Bayesian learning methods are the basis of many powerful analysis techniques in neuroimaging, permitting probabilistic inference on hierarchical, generative models of data. This thesis primarily develops Bayesian analysis techniques for magnetic resonance imaging (MRI), which is a noninvasive neuroimaging tool for probing function, perfusion, and structure in the human brain.
The first part of this work fits nonlinear biophysical models to multimodal functional MRI data within a variational Bayes framework. Simultaneously-acquired multimodal data contains mixtures of different signals and therefore may have common noise sources, and a method for automatically modelling this correlation is developed. A Gaussian process prior is also used to allow spatial regularization while simultaneously applying informative priors on model parameters, restricting biophysically-interpretable parameters to reasonable values.
The second part introduces a novel data fusion framework for multivariate data analysis which finds a joint decomposition of data across several modalities using a shared loading matrix. Each modality has its own generative model, including separate spatial maps, noise models and sparsity priors. This flexible approach can perform supervised learning by using target variables as a modality. By inferring the data decomposition and multivariate decoding simultaneously, the decoding targets indirectly influence the component shapes and help to preserve useful components.
The same framework is used for unsupervised learning by placing independent component analysis (ICA) priors on the spatial maps. Linked ICA is a novel approach developed to jointly decompose multimodal data, and is applied to combined structural and diffusion images across groups of subjects. This allows some of the benefits of tensor ICA and spatially-concatenated ICA to be combined, and allows model comparison between different configurations. This joint decomposition framework is particularly flexible because of its separate generative models for each modality and could potentially improve modelling of functional MRI, magnetoencephalography, and other functional neuroimaging modalities.

Keywords: Independent Component Analysis
Neuroscience
Bayesian inference
FMRI
Advisor: Woolrich, M
Payne, S
The use of two languages in Samuel Beckett's art

This study argues that Samuel Beckett's works in English and French reveal the organising energy of a "bilingual consciousness". Bilingualism is no personal eccentricity but the foundation for Beckett's mature art, without which it could not have developed. He has never been a unilingual writer; at every stage of his career his two languages have enriched, challenged and opposed each other. Bilingual art has allowed Beckett to move between linguistic circles, claiming as his own a transitional space that has protected his need for imaginative solitude. Gradually abandoning the cultural specificity of his early works in favour of archetypal settings that "translate" successfully to other contexts, he has focussed directly on what unites rather than divides human communities. Yet his writing retains an evident alertness to, and love of, the linguistic and cultural resources of English and French. His alternations between languages and his frequent activities as translator and self- translator contribute to a detachment from generic conventions that encourages innovation. Thus the often-criticised marginality of the bilingual has become for Beckett a source of strength.
This analysis draws on a close reading of certain key texts, crossing languages freely to follow Beckett's own development. The prose has central place, because it spans his entire career, and because his most radical innovations have occurred in prose to be, subsequently, transferred in new forms to the drama. Chapter I presents Beckett's dual language-use in a wider context, exploring the early exposure afcd later suppression of "bilingual awareness, the implications of bilingualism for his artistic outlook, and the bilingual aesthetic he has developed. The remaining chapters draw on a new chronology of his writing and translating activities to show the development of his dual language-use and how it has interacted distinctively at each period with his artistic goals and practice.
Patient-specific models of cerebral aneurysm evolution

A cerebral aneurysm (CA) is an abnormal distension of the wall of an artery in the brain, which results from arterial wall weakening. CAs are poorly understood, but are believed to be the result of a combination of biological and life-style factors. The low incidence of rupture coupled with risks of interventional treatments provide motivation for identifying and treating only those aneurysms at risk of rupture. Computational models of aneurysm evolution may provide great insight into CA disease mechanisms, and guide clinical decision-making.
It is well known that vascular cells sense mechanical forces exerted by bloodflow (i.e. haemodynamic forces), which are translated into a myriad of intra- and inter-cellular responses. In this thesis, hypotheses on the role of the patient-specific haemodynamic environment on the evolution of CAs is examined. Arterial geometries are obtained from images of patient-specific vasculature, and the physiological aneurysm is virtually removed and replaced by a novel, fluid-solid-growth (FSG) model. The model incorporates a constitutive model for the artery, growth and remodelling (G&R;) hypotheses for arterial wall constituents, and links between G&R; and the haemodynamic environment, which is simulated utilising computational fluid dynamics.
It is observed that coupling G&R; to the patient-specific haemodynamic environment profoundly impacts the shape and size of the evolving aneurysm geometry; in some cases, the model aneurysm is qualitatively similar to the corresponding physiological aneurysm. This provides tentative support for the hypotheses on haemodynamics-induced G&R; investigated here, and motivates the need for improved understanding of arterial adaptation to physiological conditions. This will facilitate the improvement and validation of the model, and may ultimately lead to predictive models with clinical application on a patient-specific basis.

Keywords: cerebral aneurysm
CFD
patient-specific model
Advisor: Watton, P
Ventikos, Y
Understanding the Ediacaran assemblages of Avalonia: a palaeoenvironmental, taphonomic and ontogenetic study

The Ediacaran Period, stretching from 635–542 million years ago, is one of the most dynamic intervals in the history of life. It witnessed the rapid transition from a microbially-dominated world, which had existed undisturbed for almost three billion years, to a Phanerozoic biosphere that is greatly modified by the interactions between macro-organisms and Earth surface systems. Ediacaran successions worldwide contain enigmatic assemblages of fossilised soft-bodied organisms. Determining the biological affinities of these fossils represents one of the major challenges in modern palaeontology.
This thesis addresses some of the fundamental questions surrounding the Ediacara biota of the Avalon region from taphonomic, ontogenetic and palaeoenvironmental perspectives. Up-to-date stratigraphic ranges are produced for Avalonian macro-organisms, documenting spatial and temporal trends in their occurrence. New fossil assemblages are described, which include populations of juvenile rangeomorphs, and one of the earliest examples of community succession in the fossil record. The previously unexplained fossil Ivesheadia Boynton and Ford 1996 is re-described as a taphomorph, preserving the remains of Ediacaran macro-organisms that had died and undergone microbial decay on the seafloor prior to burial. This hypothesis implies considerable time-averaging of Avalonian palaeocommunities, and consequently suggests that the preserved fossil assemblages do not represent census populations of living organisms at the time of burial. Microbial decay is experimentally demonstrated to replicate aspects of Ivesheadia-type morphology, supporting the arguments presented herein for the preservation of microbially-induced taphomorphs during the Ediacaran.
Finally, the discovery of the oldest evidence for metazoan locomotion, from 565Ma horizons at Mistaken Point in Newfoundland, suggests that motile macro-organisms were present amongst the Ediacara biota, ~20Myrs before the Cambrian boundary. This portrayal of Ediacaran palaeobiology views the deep-marine Avalonian ecosystems as diverse assemblages of both macro- and micro-organisms. Such palaeoenvironments preserve rare evidence of organisms capable of locomotion, and are likely to have included metazoans.

Keywords: Ediacaran
Avalonia
Newfoundland
taphonomy
ichnology
Advisor: McIlroy, D
Brasier, M
Targeting the mevalonate pathway for pharmacological intervention

Farnesyl pyrophosphate synthase (FPPS) is a key branch point enzyme in the mevalonate pathway and the main molecular target of nitrogen-containing bisphosphonates (N-BPs), potent inhibitors of osteoclastic activity and the leading drug of choice for conditions characterized by excessive bone resorption. The main aim of this thesis is to investigate the interaction of N-BPs with FPPS in order to gain further insights into the mechanism of drug inhibition. Kinetic and crystallographic studies following site-directed mutagenesis of FPPS reveal key residues involved in stabilization of carbocation intermediate, substrate binding and formation of a tight enzyme-inhibitor complex. The aromatic ring of Tyr204 is involved in N-BP binding but not in the catalytic mechanism, where the hydroxyl moiety plays an important role. Lys200 is implicated in regulation of substrate binding, product specificity and enzyme isomerization which leads to a tight binding inhibition. Phe239 is considered important for the FPPS C-terminal switch which stabilizes substrate binding and promotes the inhibitor induced isomerized state. The highly conserved Arg112, Asp103 and Asp107 are pivotal for catalysis. Successful purification of the full length of Rab geranylgeranyl transferase (RGGT) complex downstream of the FPPS in the mevalonate pathway was achieved and may lead to co-crystallization with BP analogues and identification of the putative site of drug binding. Investigation of the in vitro effect of N-BPs on osteoclastogenesis suggest a correlation with FPPS inhibition kinetics for the most potent N-BPs but indicate an alternative mechanism of the disruption of bone resorption by alendronate. Together these results highlight the importance of the multiple interactions of N-BPs with side-chain residues of FPPS which dictate their strength of binding and advance the understanding of their pharmacophore effect.

Keywords: nitrogen containing bisphosphonates
osteoporosis
inhibition
farnesyl pyrophosphate synthase
drug binding
Rab geranyl geranyl transferase
Advisor: Russell, R
Oppermann, U
Dunford, J
Causes and associations - a developmental investigation

This thesis explores preschoolers' use of causal-associations (associations between specific instrument and effects) and causal relations incorporating knowledge of transformation from initial to final states.
Gelman, Bullock and Meek (1980) claimed that preschoolers use causal relations. However, in their study it was possible to make correct choices using causal-associations. Therefore, in Experiments 1 and 2 tasks were designed to distinguish between use of the two relations. Preschoolers made inferences about instruments which could produce the transformations depicted within event sequences (based on those used by Gelman et al.). Performance on tasks requiring selection of causal relations was significantly worse than performance on tasks where causal-associations could be used. Two methods of reasoning, Relational (causal) and Associative- Causal Matching, were identified.
Modified versions of the tasks in Experiment 1 were used in Experiments 3, 4 and 5. Four-year-olds were more proficient at using Relational Methods than 3-year-olds although both ages demonstrated the ability to use this method.
In Experiment 6 children had to construct sequences. Three-year-olds preferred associative constructions to causal ones. This preference may have influenced their performance in the previous experiments. Experiments 1, 2, 3 and 5 incorporated sequences with compound end-states (e.g. wet and broken cup). Three-year-olds clearly preferred to focus on just one of these attributes, chosen on the basis of salience. This preference evidently contributed to their lower scores throughout these experiments. However, even when relative salience was controlled (Experiment 7) or when single attributes were used (Experiment 4) 3-year-olds' performance was worse than 4-year-olds' in terms of choices based on causal relations.
These experiments indicate that preschoolers use both Associative-Causal and Relational Methods. There is evidence for a shift from a preference for judgements based on associative relations to a preference for causal relations between 3 and 5 years. The ability to deal with compound features also appears to develop over the preschool years.

Advisor: Bryant, P
Jaspars, J
Strontium isotopes in Jurassic and Early Cretaceous seawater

The collection and analysis of a large number of belemnites and oysters with excellent biostratigraphic and diagenetic control has resulted in a highly detailed determination of the seawater Sr-isotope curve through the Jurassic and Early Cretaceous. The new data confirm the broad trends established by previous work, but the much sharper resolution of the new data allows the application of Sr-isotope stratigraphy with an optimal stratigraphic resolution of ± 1 to 4 ammonite subzones (± 0.5 to 2 Ma). The data show a general decline from the Hettangian (Early Jurassic) to a minimum in the Callovian and Oxfordian (Middle/Late Jurassic). This is followed by an increase through the Kimmeridgian (Late Jurassic) to a plateau reached in the Barremian (Early Cretaceous). In addition, there are major negative excursions in the Pliensbachian/Toarcian (Early Jurassic) and Aptian/Albian (Early Cretaceous).
Stable isotope data collected from belemnites and oysters have resulted in the most extensive Jurassic δ13C and δ18O database to date. While both the carbon and oxygen data appear to give reasonable marine signals, the scatter in the data suggests that future research must document possible biological fractionation effects and develop better indicators for the diagenetic alteration of 613C and 6i 8O.
The final chapter documents an unexpected correlation between sudden shifts in the Sr-isotope curve, the occurrence of positive 513C excursions, and the eruption of flood basalts. In the Jurassic and Cretaceous there is a correlation in time between sudden downward shifts in the Sr-isotope curve (Pliensbachian, Aptian, Cenomanian/Turonian), the occurance of positive 613C excursions, and the eruption of flood basalts. Each of these major downward shifts in the Sr-isotope curve is followed by a sudden upward shift, which although associated with a positive 613C excursion is not associated with an episode of flood basalt volcanism. In the Cenozoic the Sr-isotope curve no longer displays downward shifts, but the correlation continues between the occurrence of flood basalts and positive 513C excursions. Several lines of evidence suggest that the eruption of flood basalts is associated with pulses of hydrothermal activity, and that this hydrothermal activity brings about the conditions necessary for the genesis of carbon-burial events.

Advisor: Jenkyns, H
Hesselbo, S
Coe, A