Miracle-dz/UniFAR-FTUs huggingface dataset:
Simultaneous Analysis and Quality Assurance for Diffusion Tensor Imaging

Diffusion tensor imaging (DTI) enables non-invasive, cyto-architectural mapping of in vivo tissue microarchitecture through voxel-wise mathematical modeling of multiple magnetic resonance imaging (MRI) acquisitions, each differently sensitized to water diffusion. DTI computations are fundamentally estimation processes and are sensitive to noise and artifacts. Despite widespread adoption in the neuroimaging community, maintaining consistent DTI data quality remains challenging given the propensity for patient motion, artifacts associated with fast imaging techniques, and the possibility of hardware changes/failures. Furthermore, the quantity of data acquired per voxel, the non-linear estimation process, and numerous potential use cases complicate traditional visual data inspection approaches. Currently, quality inspection of DTI data has relied on visual inspection and individual processing in DTI analysis software programs (e.g. DTIPrep, DTI-studio). However, recent advances in applied statistical methods have yielded several different metrics to assess noise level, artifact propensity, quality of tensor fit, variance of estimated measures, and bias in estimated measures. To date, these metrics have been largely studied in isolation. Herein, we select complementary metrics for integration into an automatic DTI analysis and quality assurance pipeline. The pipeline completes in 24 hours, stores statistical outputs, and produces a graphical summary quality analysis (QA) report. We assess the utility of this streamlined approach for empirical quality assessment on 608 DTI datasets from pediatric neuroimaging studies. The efficiency and accuracy of quality analysis using the proposed pipeline is compared with quality analysis based on visual inspection. The unified pipeline is found to save a statistically significant amount of time (over 70%) while improving the consistency of QA between a DTI expert and a pool of research associates. Projection of QA metrics to a low dimensional manifold reveal qualitative, but clear, QA-study associations and suggest that automated outlier/anomaly detection would be feasible.
Impact of the Presence and Extent of Incomplete Angiographic Revascularization After Percutaneous Coronary Intervention in Acute Coronary Syndromes: The Acute Catheterization and Urgent Intervention Triage Strategy (ACUITY) Trial

Background— The clinical significance of incomplete coronary revascularization (ICR) after percutaneous coronary intervention in patients with acute coronary syndromes is unknown. Methods and Results— We performed quantitative angiography of the entire coronary tree in 2954 patients with acute coronary syndromes in the Acute Catheterization and Urgent Intervention Triage Strategy (ACUITY) trial. ICR was variably defined if any lesion with diameter stenosis (DS) cutoffs ranging from ≥30% to ≥70% with reference vessel diameter ≥2.0 mm remained after percutaneous coronary intervention. The primary outcome was 1-year composite rate of major adverse cardiac events (death, myocardial infarction, or ischemia-driven unplanned revascularization). With the use of DS cutoffs ≥30%, ≥40%, ≥50%, ≥60%, and ≥70%, the prevalence of ICR after percutaneous coronary intervention was 75%, 55%, 37%, 25%, and 17%, respectively. The 1-year major adverse cardiac event rate was increased among patients with ICR using all of the DS cutoffs. ICR (≥50% DS) was associated with higher 1-year rates of myocardial infarction (12.0% versus 8.2%; hazard ratio, 1.50; 95% confidence interval, 1.18–1.89; P=0.0007) and ischemia-driven unplanned revascularization (15.7% versus 10.2%; hazard ratio, 1.58; 95% confidence interval, 1.28–1.96; P<0.0001), with a trend toward increased mortality (3.1% versus 2.2%; hazard ratio, 1.43; 95% confidence interval, 0.90–2.27; P=0.13). By multivariable analysis, ICR (≥50% DS) was an independent predictor of 1-year major adverse cardiac events (hazard ratio, 1.36; 95% confidence interval, 1.12–1.64; P=0.002). The impact of ICR on major adverse cardiac events was similar regardless of chronic total occlusion presence, but it was more pronounced with a greater number of nonrevascularized lesions. Conclusions— Depending on the threshold of percent DS, ICR was present in 17% to 75% of patients with acute coronary syndromes after percutaneous coronary intervention. Regardless of the threshold, ICR was strongly associated with 1-year myocardial infarction, ischemia-driven unplanned revascularization, and major adverse cardiac events. Clinical Trial Registration— URL: http://www.clinicaltrials. gov. Unique identifier: NCT00093158.
Mammographic screening for breast cancer: A review

In 2011, BreastScreen Australia celebrated 20 years of mammographic screening for breast cancer in Australia. There has been a reduction in mortality from breast cancer over the last two decades, coincident with mammographic screening. However, there are concerns that mammographic screening may result in overdiagnosis of breast cancer and that the reduction in mortality from breast cancer is the result of better treatment rather than screening. This article reviews the evidence on which mammographic screening for breast cancer is based, considers the issue of overdiagnosis of breast cancer by screening mammography, and assesses the role of screening mammography in the reduction in breast cancer mortality seen over the last two decades.
Pancreatic Islet Vasculature Adapts to Insulin Resistance Through Dilation and Not Angiogenesis

Pancreatic islets adapt to insulin resistance through a complex set of changes, including β-cell hyperplasia and hypertrophy. To determine if islet vascularization changes in response to insulin resistance, we investigated three independent models of insulin resistance: ob/ob, GLUT4+/−, and mice with high-fat diet–induced obesity. Intravital blood vessel labeling and immunocytochemistry revealed a vascular plasticity in which islet vessel area was significantly increased, but intraislet vessel density was decreased as the result of insulin resistance. These vascular changes were independent of islet size and were only observed within the β-cell core but not in the islet periphery. Intraislet endothelial cell fenestration, proliferation, and islet angiogenic factor/receptor expression were unchanged in insulin-resistant compared with control mice, indicating that islet capillary expansion is mediated by dilation of preexisting vessels and not by angiogenesis. We propose that the islet capillary dilation is modulated by endothelial nitric oxide synthase via complementary signals derived from β-cells, parasympathetic nerves, and increased islet blood flow. These compensatory changes in islet vascularization may influence whether β-cells can adequately respond to insulin resistance and prevent the development of diabetes.
Design and characterization of a CMOS 3-D image sensor based on single photon avalanche diodes

The design and characterization of an imaging system is presented for depth information capture of arbitrary three-dimensional (3-D) objects. The core of the system is an array of 32 /spl times/ 32 rangefinding pixels that independently measure the time-of-flight of a ray of light as it is reflected back from the objects in a scene. A single cone of pulsed laser light illuminates the scene, thus no complex mechanical scanning or expensive optical equipment are needed. Millimetric depth accuracies can be reached thanks to the rangefinder's optical detectors that enable picosecond time discrimination. The detectors, based on a single photon avalanche diode operating in Geiger mode, utilize avalanche multiplication to enhance light detection. On-pixel high-speed electrical amplification can therefore be eliminated, thus greatly simplifying the array and potentially reducing its power dissipation. Optical power requirements on the light source can also be significantly relaxed, due to the array's sensitivity to single photon events. A number of standard performance measurements, conducted on the imager, are discussed in the paper. The 3-D imaging system was also tested on real 3-D subjects, including human facial models, demonstrating the suitability of the approach.
A first-order system Petrov–Galerkin discretization for a reaction–diffusion problem on a fitted mesh

We consider the numerical solution, by a Petrov-Galerkin finite-element method, of a singularly perturbed reaction-diffusion differential equation posed on the unit square. In Lin & Stynes (2012), it is argued that the natural energy norm, associated with a standard Galerkin approach, is not an appropriate setting for analysing such problems, and there they propose a method for which the natural norm is “balanced”. In the style of a first-order system least squares (FOSLS) method, we extend the approach of Lin & Stynes (2012) by introducing a constraint which simplifies the associated finiteelement space and the method’s analysis. We prove robust convergence in a balanced norm on a piecewise uniform (Shishkin) mesh, and present supporting numerical results. Finally, we demonstrate how the resulting linear systems are solved optimally using multigrid methods.
Reducing Ambiguity of Local Descriptors for Visual Recognition

One of the most commonly used methods for representing visual information is to study properties of image regions at local neighborhood of pixels. Visual appearance, by its nature, is subject to extensive change under different conditions. Rotation, scaling, illumination, and viewpoint are examples of parameters which change appearance of objects in an image. Despite these changes, we as humans, are still amazingly good at detecting objects and perceiving their identity in an image. For computers, however, it is not easily achievable to tolerate such a great degree of invariance. The reason is that a human being sees visual elements in relation to each other and accordingly makes conclusions in a higher level than just local appearance of single image regions. For example, the fact that sky appears at the top of ground, vehicles move on roads, windows appear on vertical planes, cats are not likely to be seen in sea, etc. Most of previous works has devoted their focus on detecting regions of image which are highly distinctive and has tried to transform visual descriptions in a standard form in order to cope with these visual variations. Nevertheless, there is much more to be studied regarding how to put these local features together in order to model their higher level dependencies more appropriately. Improved discriminability and expressive power of local features affects at early stages of visual recognition systems and propagates through the whole pipeline of the process. In this thesis we try different approaches towards decreasing ambiguity of local feature representations by organizing local features based on some higher level information. We show that our way of decoupling/grouping local features results in consistent and significant improvements of performance of local features in several Computer Vision tasks.
DRAGNN: A Transition-based Framework for Dynamically Connected Neural Networks

In this work, we present a compact, modular framework for constructing new recurrent neural architectures. Our basic module is a new generic unit, the Transition Based Recurrent Unit (TBRU). In addition to hidden layer activations, TBRUs have discrete state dynamics that allow network connections to be built dynamically as a function of intermediate activations. By connecting multiple TBRUs, we can extend and combine commonly used architectures such as sequence-to-sequence, attention mechanisms, and recursive tree-structured models. A TBRU can also serve as both an {\em encoder} for downstream tasks and as a {\em decoder} for its own task simultaneously, resulting in more accurate multi-task learning. We call our approach Dynamic Recurrent Acyclic Graphical Neural Networks, or DRAGNN. We show that DRAGNN is significantly more accurate and efficient than seq2seq with attention for syntactic dependency parsing and yields more accurate multi-task learning for extractive summarization tasks.
The lives and deaths of positrons in the interstellar medium

We reexamine in detail the various processes undergone by positrons in the interstellar medium (ISM) from their birth to their annihilation using the most recent results of positron interaction cross sections with atomic and molecular hydrogen, as well as helium. The positrons' lives are divided into two phases: the "in-flight" phase (between ≈1 MeV and tens of eV) and the thermal phase. The first phase is treated with a Monte Carlo simulation that allows us to determine the fraction of positrons that form positronium and annihilate as well as the characteristics of the annihilation emission as a function of the medium conditions. The second phase is treated with a binary reaction rate approach, with cross sections adopted from experimental measurement or theoretical calculations. An extensive search and update of the knowledge of positron processes was thus undertaken. New reaction rates and line widths have been obtained. We investigate the treatment of the complicated interactions between positrons and interstellar dust grains. Fully relevant data were not always available, but we were nonetheless able to reach satisfactory understanding of positron annihilation on grains, both qualitatively and quantitatively. All factors of the problem have been considered, including the grain size distribution and composition, the electric charge of the grains, the backscattering, positronium formation and ejection from the grain, the pick-off annihilation inside them and the partial destruction of dust in the hot regions of the ISM. New reaction rates and widths of the line resulting from the annihilation inside and outside of the grain have been obtained. The final results of our calculations (reaction rates and spectra) showed that dust is only important in the hot phase of the ISM, where it dominates all other processes. Combining the new calculations, we have constructed annihilation spectra for each phase of the ISM, considering various grain contents, as well as an overall combined spectrum for the ISM as a whole.
The Quarterly Review of Economics and Finance Donors and Domestic Politics: Political Influences on Foreign Aid Effort

JEL classification: F35 F36 F59 Keywords: Foreign aid Aid effort Ideology International political economy a b s t r a c t The vast majority of scholarship on foreign aid looks at either the effectiveness of foreign aid or why particular countries receive aid from particular donors. This paper takes a different approach: what are the domestic sources of support for foreign aid? Specifically, how does the donor's domestic political and economic environment influence 'aid effort'? This paper uses a time-series cross-sectional data set to analyze the influence of changes in political and economic variables. As governments become more conservative, their aid effort is likely to fall. Domestic political variables appear to influence aid effort, but only for aid to low income countries and multilaterals while aid effort to middle income countries in unaffected. This suggests that models solely emphasizing donor economic and international strategic interests as determinants of donor aid policy may be mis-specified. These results also suggest sources of aid volatility that might influence recipient growth prospects.
Evolutionary building of stock trading experts in a real-time system

This paper addresses the problem of constructing real-time stock trading expertise for financial time series. The expertise is arrived at via an evolutionary algorithm on the basis of a set of specified trading rules. As in most real-time expert systems, one of the main bottlenecks is the time constraint. In this paper, two approaches were compared using our system, Bourse-Expert, the first based on 350 trading rules, and the second based on 150 particular linear combinations of these 350 rules. Experiments carried out on real data from the Paris Stock Exchange showed that focusing on only 150 rules highly reduced the computation time without significantly reducing the quality of the expertise.
Prevalence, diagnostics and management of musculoskeletal disorders in primary health care in Sweden – an investigation of 2000 randomly selected patient records

Abstract Rationale, aims and objectives The aims of this study is to investigate the prevalence of patients seeking care due to different musculoskeletal disorders (MSDs) at primary health care centres (PHCs), to chart different factors such as symptoms, diagnosis and actions prescribed for patients that visited the PHCs due to MSD and to make comparisons regarding differences due to gender, age and rural or urban PHC. Methods Patient records (2000) for patients in working age were randomly selected equally distributed on one rural and one urban PHC. A 3‐year period was reviewed retrospectively. For all patient records' background data, cause to the visit and diagnosis were registered. For visits due to MSD, type and location of symptoms and actions to resolve the patients problems were registered. Data was analysed using cross tabulation, multidimensional chi‐squared. Results The prevalence of MSD was high; almost 60% of all patients were seeking care due to MSD. Upper and lower limb problems were most common. Symptoms were most prevalent in the young and middle age groups. The patients got a variety of different diagnoses, and between 13 and 35% of the patients did not receive a MSD diagnose despite having MSD symptoms. There was a great variation in how the cases were handled. Conclusions The present study points out some weaknesses regarding diagnostics and management of MSD in primary care.
Effects of a Prescribed Fire on Oak Woodland Stand Structure 1

Fire damage and tree characteristics of mixed deciduous oak woodlands were recorded after a prescription burn in the summer of 1999 on Mt. Hamilton Range, Santa Clara County, California. Trees were tagged and monitored to determine the effects of fire intensity on damage, recovery and survivorship. Fire-caused mortality was low; 2-year post-burn survey indicates that only three oaks have died from the low intensity ground fire. Using ANOVA, there was an overall significant difference for percent tree crown scorched and bole char height between plots, but not between tree-size classes. Using logistic regression, tree diameter and aspect predicted crown resprouting. Crown damage was also a significant predictor of resprouting with the likelihood increasing with percent scorched. Both valley and blue oaks produced crown resprouts on trees with 100 percent of their crown scorched. Although overall tree damage was low, crown resprouts developed on 80 percent of the trees and were found as shortly as two weeks after the fire. Stand structural characteristics have not been altered substantially by the event. Long term monitoring of fire effects will provide information on what changes fire causes to stand structure, its possible usefulness as a management tool, and how it should be applied to the landscape to achieve management objectives.
Dragon's blood and its extracts attenuate radiation-induced oxidative stress in mice

Dragon's blood (DB) possesses great medicinal values due to the presence of several phenolic compounds. This study was designed to investigate the effects of DB and its extracts (DBEs) on oxidative stress in mice exposed to whole body 60Co-γ irradiation (4 Gy). DB and DBEs were intragastrically administered to mice for 5 d prior to radiation. The antioxidant activities, including malondialdehyde (MDA), superoxide dismutase (SOD), catalase (CAT) and glutathione (GSH) levels in liver and spleen were measured using kits. Furthermore, DB and DBE effects were determined by organ indices and histology of liver and spleen. Our results indicated that the DB and DBE-treated groups showed a significant decrease (P < 0.05) in levels of MDA in liver and spleen compared with the irradiation-only group. Moreover, the activity of SOD, CAT and the level of GSH in liver and spleen tissue were enhanced significantly (P < 0.05) in the DB and DBE groups. DB and DBE also had a significant effect on the recovery of thymus indices. The histological observations of groups having treatment with DB and DBE indicated significant reduction in the radiation-induced damage to the liver and spleen, together with improvement in the morphology of the liver and spleen. These results suggest that DB and DBE treatment prevents radiation-induced oxidative stress injury and restores antioxidant status and histopathological changes in the liver and spleen, but there is need for further study to explore the precise molecular mechanism and strategy for optimal practical application of DB and DBE.
Suppression of Ethanol-Reinforced Behavior by Naltrexone Is Associated with Attenuation of the Ethanol-Induced Increase in Dialysate Dopamine Levels in the Nucleus Accumbens

The opiate antagonist naltrexone suppresses ethanol-reinforced behavior in animals and decreases ethanol intake in humans. However, the mechanisms underlying these actions are not well understood. Experiments were designed to test the hypothesis that naltrexone attenuates the rewarding properties of ethanol by interfering with ethanol-induced stimulation of dopamine activity in the nucleus accumbens (NAcc). Simultaneous measures of the effects of naltrexone on dialysate dopamine levels in the NAcc and on operant responding for oral ethanol were used. Male Wistar rats were trained to self-administer ethanol (10–15%, w/v) in 0.2% (w/v) saccharin during daily 30 min sessions and were surgically prepared for intracranial microdialysis. Experiments began after reliable self-administration was established. Rats were injected with naltrexone (0.25 mg/kg, s.c.) or saline and 10 min later were placed inside the operant chamber for a 20 min waiting period with no ethanol available, followed by 30 min of access to ethanol. A transient rise in dialysate dopamine levels was observed during the waiting period, and this effect was not altered by naltrexone. Ethanol self-administration reliably increased dopamine levels in controls. Naltrexone significantly suppressed ethanol self-administration and prevented ethanol-induced increases in dialysate dopamine levels. Subsequent dose–effect analyses established that the latter effect was not merely a function of reduced ethanol intake but that naltrexone attenuated the efficacy of ethanol to elevate dialysate dopamine levels. These results suggest that suppression of ethanol self-administration by opiate antagonists is the result of interference with dopamine-dependent aspects of ethanol reinforcement, although possible additional effects via nondopaminergic mechanisms cannot be eliminated as a factor in opiate antagonist-induced reduction of ethanol intake.
The Open University ’ s repository of research publications and other research outputs Learning musical contour on a tabletop Conference Item

Many successful tabletop applications for music making have been developed, and the technology has been investigated from different perspectives. Yet, to date, despite optimistic claims regarding their potential as learning tools, their role in helping people to explore, acquire, and reason about musical concepts has been sparsely researched. We have developed an exploratory study around a simple tabletop application that allows people to make music using a visual representation of melodic contour. Our aim is to understand whether and how such system might help people to reason about music in terms of contour while at the same time affording an enjoyable music making experience to musically untrained people. Our findings suggest that the system has potential as a learning tool, especially for beginners, but tutoring is still necessary to acquire, use, and express concepts precisely.