Miracle-dz/UniFAR-FTUs huggingface dataset:
Regularization in Higher-order Photometric Stereo Inspection for Non-Lambertian Reflections

In this paper we present and compare two regularized higher-order photometric stereo approaches for the reconstruction of varying albedos and surface normals of non-Lambertian materials. We evaluate the two different higher-order polynomial methods, which we additionally regularize with Tikhonov’s method. The reconstruction of surface properties is essential for a vast amount of industrial applications, such as the identification of surface defects, the analysis of security features or the detection of forged documents. For the reconstruction of Lambertian objects, lower order models can be used to achieve an accurate representation, while higher-order models allow the description of non-Lambertian behaviors accurately. Qualitative and quantitative results on a ground truth dataset as well as on real-world data show that the use of a regularized higher-order polynomial model can significantly improve the surface normal and albedo reconstructions.
AnnoXplorer: A Scalable, Integrated Approach for the Visual Analysis of Text Annotations

: Text annotation data in terms of a series of tagged text segments can pose scalability challenges within the dimensions of quantity (long texts bearing many annotations), conﬁguration (overlapping annotations or annotations with multiple tags), or source (annotations by multiple annotators). Accordingly, exploration tasks such as navigating within a long annotated text, recognizing patterns in the annotation data or assessing differences between annotators can be demanding. Our approach of an annotation browser deals with all of these data and task challenges simultaneously by providing a continuous range of views on large amounts of complex annotation data from multiple sources. We achieve this by using a combined geometric/semantic zooming mechanism that operates on an abstract representation of the sequence of a text’s tokens and the annotations thereupon, which is interlinked with a view on the text itself. The approach was developed in the context of a joint project with researchers from ﬁelds concerned with textual sources. We derive our approach’s requirements from a series of tasks that are typical in natural language processing and digital humanities, show how it supports these tasks, and discuss it in the light of the feedback we got from our domain experts.
MapStack: Exploring Multilayered Geospatial Data in Virtual Reality

Virtual reality (VR) headsets offer a large and immersive workspace for displaying visualizations with stereo-scopic vision, compared to traditional environments with monitors or printouts. The controllers for these devices further allow direct three-dimensional interaction with the virtual environment. In this paper, we make use of these advantages to implement a novel multiple and coordinated view (MCV) in the form of a vertical stack, showing tilted layers of geospatial data to facilitate an understanding of multi-layered maps. A formal study based on a use-case from urbanism that requires cross-referencing four layers of geospatial urban data augments our arguments for it by comparing it to more conventional systems similarly implemented in VR: a simpler grid of layers, and switching (blitting) layers on one map. Performance and oculometric analyses showed an advantage of the two spatial-multiplexing methods (the grid or the stack) over the temporal mul-tiplexing in blitting. Overall, users tended to prefer the stack, be ambivalent to the grid, and show dislike for the blitting map. Perhaps more interestingly, we were also able to associate preferences in systems with user characteristics and behavior.
Domain Adaptation for Person Re-identification on New Unlabeled Data

In the world where big data reigns and there is plenty of hardware prepared to gather a huge amount of non structured data, data acquisition is no longer a problem. Surveillance cameras are ubiquitous and they capture huge numbers of people walking across different scenes. However, extracting value from this data is challenging, specially for tasks that involve human images, such as face recognition and person re-identification. Annotation of this kind of data is a challenging and expensive task. In this work we propose a domain adaptation workflow to allow CNNs that were trained in one domain to be applied to another domain without the need for new annotation of the target data. Our method uses AlignedReID++ as the baseline, trained using a Triplet loss with batch hard. Domain adaptation is done by using pseudo-labels generated using an unsupervised learning strategy. Our results show that domain adaptation techniques really improve the performance of the CNN when applied in the target domain.
Simultaneous Visual Context-aware Path Prediction

: Autonomous cars need to understand the environment around it to avoid accidents. Moving objects like pedestrians and cyclists affect to the decisions of driving direction and behavior. And pedestrian is not always one-person. Therefore, we must know simultaneously how many people is in around environment. Thus, path prediction should be understanding the current state. For solving this problem, we propose path prediction method consider the moving context obtained by dashcams. Conventional methods receive the surrounding environment and positions, and output probability values. On the other hand, our approach predicts probabilistic paths by using visual information. Our method is an encoder-predictor model based on convolutional long short-term memory (ConvLSTM). ConvLSTM extracts visual information from object coordinates and images. We examine two types of images as input and two types of model. These images are related to people context, which is made from trimmed people’s positions and uncaptured background. Two types of model are recursively or not recursively decoder inputs. These models differ in decoder inputs because future images cannot obtain. Our results show visual context includes useful information and provides better prediction re-sults than using only coordinates. Moreover, we show our method can easily extend to predict multi-person simultaneously.
Analysis of Epigenetic Alterations in Homologous Recombination DNA Repair Genes in Male Breast Cancer

Background: Male breast cancer (BC) is a distinct neoplasm with low but rising incidence, frequently diagnosed as advanced stage disease. Considering the relevance of altered homologous recombination repair (HRR) in male BC, we aimed to explore the biomarker potential of aberrant promoter methylation of ATM, BRCA1, PALB2, RAD51B, and XRCC3. Methods: Formalin-fixed paraffin-embedded (FFPE) tissue samples from 128 male BC patients, paired adjacent normal tissue and 19 gynecomastia cases were collected and assessed by quantitative methylation-specific PCR (qMSP). Non-parametric tests were used to compare methylation levels between tumor and non-tumor samples and to seek for associations with clinicopathological variables. Results: Only RAD51B and XRCC3 disclosed significant differences between tumor and gynecomastia (p < 0.0001 and p = 0.020, respectively). Assembled in a panel, RAD51B and XRCC3 promoter methylation discriminated male BC from gynecomastia with 91.5% sensitivity, 89.5% specificity, and 91.2% accuracy. Moreover, promoter methylation levels were lower in paired non-tumor tissues, comparing to tumor samples. No associations were found between epigenetic alterations and clinicopathological features, as well as with RAD51 and XRCC3 immunoexpression and methylation levels. Conclusion: Quantitative promoter methylation of RAD51B and XRCC3 constitutes a promising and accurate biomarker for male BC. Validation in larger series and in liquid biopsies is warranted to confirm its usefulness in detection and monitoring settings.
Radiation therapy during the coronavirus disease 2019 (covid-19) pandemic in Italy: a view of the nation's young oncologists

The SARS-CoV-2 pandemic and covid-19 diffusion are an international public health emergency.1 Cancer patients are particularly exposed to infections and their potential complications.2 In this context, the usual clinical decision-making process in radiation therapy is being consistently revised.3 There is an urgent need to share expertise and offer emergency guidance. It is crucial to minimise contacts and to reduce the complexity of radiation treatments where possible to optimise the workforce, keeping intact the effectiveness of the interventions.4 Radiation and systemic therapy modifications should be implemented depending on local circumstances.5 A general guiding principle should include approaches where clinical equivalence supported by trials testing de-escalation strategies is present even without level 1–2 evidence (box 1, bullet points 1). 3 Patients with cancer have an intrinsic degree of frailty and therefore are prone to covid-19 complications. Age and comorbidities have been reported as independent risk factors for poor outcome during covid-19 infection and, of note, more than half of cancer patients are elderly and have significant comorbidities (box 1, bullet points 2). 6 Hence, an appropriate evaluation of the risk-benefit of radiation therapy treatments is cogent. Urgent cases and non-deferrable treatments (ie, active tumours, spinal cord compression, life threatening bleeding) should be initiated or continued, provided there is full compliance with the safety regulations of local authorities for both patients and staff members. In non-urgent cases, irradiation can be postponed to an extent, depending on the clinical setting and the possibility to offer patients bridging systemic therapies. Whenever radiation therapy is indicated, dose prescription, fractionation and delivery techniques should be adapted, reduced in duration, and optimised (box 1, bullet points 3 and 4). A timely example of precision medicine application is non-metastatic breast cancer radiation …
The biogenesis of CLEL peptides involves several processing events in consecutive compartments of the secretory pathway

Post-translationally modified peptides are involved in many aspects of plant growth and development. The maturation of these peptides from their larger precursors is still poorly understood. We show here that the biogenesis of CLEL6 and CLEL9 peptides in Arabidopsis thaliana requires a series of processing events in consecutive compartments of the secretory pathway. Following cleavage of the signal peptide upon entry into the endoplasmic reticulum (ER), the peptide precursors are processed in the cis-Golgi by the subtilase SBT6.1. SBT6.1-mediated cleavage within the variable domain allows for continued passage of the partially processed precursors through the secretory pathway, and for subsequent post-translational modifications including tyrosine sulfation and proline hydroxylation within, and proteolytic maturation after exit from the Golgi. Activation by subtilases including SBT3.8 in post-Golgi compartments depends on the N-terminal aspartate of the mature peptides. Our work highlights the complexity of post-translational precursor maturation allowing for stringent control of peptide biogenesis.
Histological Effects of an Innovative 445 Nm Blue Laser During Oral Soft Tissue Biopsy

Continuously evolving laser devices can be used in various fields; they are an alternative to the traditional cold blade surgery to perform biopsies of oral soft tissues. The aspect focused on in this paper is the possibility to use the 445 nm diode laser (Eltech K-Laser srl, Treviso, Italy) in complete safety, by evaluating its thermal effects during microscopy. A histological evaluation of the alteration of the peri-incisional edges on 10 samples was realized. All excisional biopsies were related to clinically unsuspected lesions and performed by the same expert operator. The surgical procedure was performed with the same laser parameters and the same pathologist evaluated the thermal effect on the samples. An average value of the detected tissue alteration was calculated; the average damage of the epithelium was 650.93 μm, while in the connective tissue it was 468.07 μm. In all the cases a clear diagnosis was possible, and no clinical complications were observed; so, the 445 nm diode laser proved to be a device that can be safely used for biopsies of clinically unsuspicious lesions. Due to the small number of cases, this in vivo preliminary experience needs to be extended.
Risk Factors for Postoperative Events in Patients on Antiplatelet Therapy Undergoing Off-Pump Coronary Artery Bypass Grafting Surgery

This retrospective study assessed the risk factors for adverse events following off-pump coronary artery bypass graft (CABG) surgery with dual antiplatelet therapy (DAPT). Records (between 2013 and 2017) were reviewed for patients who discontinued DAPT (clopidogrel 75 mg and aspirin 100 mg) ≤5 days before off-pump CABG. The primary outcome was the incidence of a Bleeding Academic Research Consortium (BARC) type 4 major event. Factors associated with bleeding events and perioperative myocardial ischemia were evaluated using multivariable logistic regression. The incidence of major bleeding events was 17.6% in 2012 patients. Adjusted multiple logistic regression analysis showed that the risk of postoperative bleeding increased when DAPT was discontinued <3 days before surgery (day 2: adjusted odds ratio [OR]: 1.70, 95% confidence interval [CI]: 1.09-2.64; day 1: adjusted OR: 2.37, 95% CI: 1.49-3.77; day 0: adjusted OR: 2.45, 95% CI: 1.53-3.92). The adjusted risk of mortality (OR: 13.14, 95% CI: 4.55-37.94) was increased with bleeding complications. In subgroup analysis, perioperative myocardial ischemia was related to increased blood loss (adjusted OR: 1.10, 95% CI: 1.02-1.18). Aspirin and clopidogrel should optimally be discontinued >3 days before CABG to reduce the risk of bleeding complications, myocardial ischemia, and death.
Elastic Properties of Plasma- Exposed Tungsten Predicted by Molecular-Dynamics Simulations.

We report results of systematic molecular-dynamics computations of the elastic properties of single-crystalline tungsten containing structural defects, voids and over-pressurized He nanobubbles, related to plasma exposure of tungsten serving as a plasma-facing component (PFC) in nuclear fusion devices. Our computations reveal that the empty voids are centers of dilatation resulting in development of tensile stress in the tungsten matrix, whereas He-filled voids (nanobubbles) introduce compressive stress in the plasma-exposed tungsten. We find that the dependence of the elastic moduli of plasma-exposed tungsten, namely, the bulk, Young, and shear modulus, on its void fraction follows a universal exponential scaling relation. We also find that the elastic moduli of plasma-exposed tungsten soften substantially as a function of He content in the tungsten matrix, following an exponential scaling relation; this He-induced exponential softening is in addition to the softening caused in the matrix with increasing temperature. A systematic characterization of the dependence of the elastic moduli on the He bubble size reveals that He bubble growth affects significantly both the bulk modulus and the Poisson ratio of plasma-exposed tungsten, while its effect on the Young and shear moduli of the plasma-exposed material is weak. Our findings contribute directly to the development of a structure-properties database that is required for the predictive modeling of the dynamical response of PFCs in nuclear fusion devices.
Experiences of Older Spousal Caregivers for Caring a Person with a Memory Disorder

Memory disorders have become a major public, social, and health concern among the aging population, and many of those who are affected are cared for at home by their spouse. The aim of this qualitative study was to describe the individual experiences of 10 older caregivers who were looking after a spouse with a memory disorder in 2016. Data were collected from volunteers who were recruited from a memory clinic at a Finnish health center using the thematic interview method and processed using inductive content analysis. The participants were six female and four male caregivers who had been married for over 10 years. The results indicated that caring for a spouse with a memory disorder involved a number of factors. These included the impact of social networks and changes in their everyday life, collaboration with service providers, and the caregivers’ well-being. However, our study showed that caregivers felt that the formal multiprofessional services they received were fragmented, which means that they were less likely to provide a holistic approach to caregivers’ situations. Better multiprofessional cooperation is needed in the community, including services such as memory clinics, home care and practical services, day centers, and short-term respite in care homes.
Low-dose x-ray CT simulation from an available higher-dose scan

In computed tomography (CT)-imaging an optimal compromise between the radiation burden and the image quality for the imaging task is needed. Lower-dose CT is desirable, however, lowering the dose results in a lower signal-to-noise ratio and therefore in a reduced image quality. In this research, we aim to develop a tool to simulate lower-dose scans from an existing standard-dose scan. The main application of this tool is to determine the lowest possible radiation dose that still produces sufficient clinical information. The x-ray tube current reduction is modeled by estimating the noise equivalent number of photons in the high exposure scan and applying a thinning technique to reduce that number. The proposed method accounts for the bowtie filter, for the electronic system noise, for the noise correlation between neighboring detector elements, for the beam hardening effect, and for the non-linear smoothing filter in very low-dose scans. Several phantom studies with different acquisition protocols were performed to evaluate the accuracy of the proposed framework. The results demonstrate a close agreement between the noise magnitude and texture of the measured and the simulated lower-dose scans. For instance, the standard deviation of noise in the simulation of lower-dose scans with 90% tube current reduction matches the reconstructions from the real scans with less than 1% and 3% error for sequential and helical scans, respectively. The noise texture was also assessed by analyzing the noise power spectrum of the simulated lower-dose images which matches those from the real scans. Furthermore, the relation between the measured and predicted noise in projection domain is very close to the line of identity which confirms the accuracy of the model.
Dissociation of Unit Activity and Gamma Oscillations during Vocalization in Primate Auditory Cortex

Vocal production is a sensory-motor process in which auditory self-monitoring is used to ensure accurate communication. During vocal production, the auditory cortex of both humans and animals is suppressed, a phenomenon that plays an important role in self-monitoring and vocal motor control. However, the underlying neural mechanisms of this vocalization-induced suppression are unknown. γ-band oscillations (>25 Hz) have been implicated a variety of cortical functions and are thought to arise from activity of local inhibitory interneurons, but have not been studied during vocal production. We therefore examined γ-band activity in the auditory cortex of vocalizing marmoset monkeys, of either sex, and found that γ responses increased during vocal production. This increase in γ contrasts with simultaneously recorded suppression of single-unit and multiunit responses. Recorded vocal γ oscillations exhibited two separable components: a vocalization-specific nonsynchronized (“induced”) response correlating with vocal suppression, and a synchronized (“evoked”) response that was also present during passive sound playback. These results provide evidence for the role of cortical γ oscillations during inhibitory processing. Furthermore, the two distinct components of the γ response suggest possible mechanisms for vocalization-induced suppression, and may correspond to the sensory-motor integration of top-down and bottom-up inputs to the auditory cortex during vocal production. SIGNIFICANCE STATEMENT Vocal communication is important to both humans and animals. In order to ensure accurate information transmission, we must monitor our own vocal output. Surprisingly, spiking activity in the auditory cortex is suppressed during vocal production yet maintains sensitivity to the sound of our own voice (“feedback”). The mechanisms of this vocalization-induced suppression are unknown. Here we show that auditory cortical γ oscillations, which reflect interneuron activity, are actually increased during vocal production, the opposite response of that seen in spiking units. We discuss these results with proposed functions of γ activity during inhibitory sensory processing and coordination of different brain regions, suggesting a role in sensory-motor integration.
Family-based habit intervention to promote parent support for child physical activity in Canada: protocol for a randomised trial

Introduction Regular physical activity (PA) participation has many important physical and psychological health benefits, managing and preventing over 25 chronic conditions. Being more physically active as a child is associated with being more active as an adult, but less than 10% of Canadian children are achieving the recommended PA guidelines of 60 minutes per day of moderate to vigorous PA. Parental support is a predictor of child PA, but parent intention to support child PA does not always predict enacted support. Targeting factors that assist in the sustainability of parent support behaviour of child PA may have an impact on child PA. The purpose of this study is to evaluate an intervention designed to promote habit formation of parental support (HABIT, independent variable) on child PA (dependant variable) compared with a planning and education group (PLANNING) and an education only group (EDUCATION). Methods and analysis The three conditions will be compared using a 6-month longitudinal randomised trial. Eligible families have at least one child aged 6–12 years who is not meeting the 2011 Canadian PA Guidelines. Intervention materials are delivered at baseline, with check-in sessions at 6 weeks and 3 months. Child’s moderate-to-vigorous PA, measured by accelerometry, is assessed at baseline, 6 weeks, 3 months and 6 months as the primary outcome. At baseline and 6 months, children perform fitness testing. Parents and children complete questionnaires at all timepoints. So far, 123 families have been recruited from the Greater Victoria and surrounding area. Recruitment will be continuing through 2020 with a target of 240 families. Ethics and dissemination This protocol has been approved by the University of Victoria Human Research Ethics Board (Victoria, Canada). Results will be shared at conferences as presentations and as published manuscripts. Study findings will be made available to interested participants. Trial registration number NCT03145688; Pre-results