Miracle-dz/UniFAR-FTUs huggingface dataset:
Next-generation mask metrology tool

For next generation photo mask lithography the tolerance range for pattern placement and critical dimensions (CD) is further shrinking. Improved optical resolution and precision of a metrology system are required to qualify the lithography tool and monitor the photo mask process. Edge detection methods in transmitted light mode for pattern placement and CD measurements are advantageous if the tightened resolution and precision requirements can be met. The new LMS IPRO2 using an illumination wavelength range of 360 to 410 nm has a significantly enhanced resolution for registration and CD measurements in both, transmitted and reflected light. A new laser interferometer with an enhanced resolution of 0.3 nm contributes to the overall improved system performance. The stage is designed to measure on quartz substrates and next generation lithography (NGL) reticles up to 230 mm square in transmitted light as well as in reflected light on 200 mm and 300 mm wafers for stepper qualification.
Extent of the frontal sinuses in the aspect of neurosurgical craniotomy approaches.

Frontal sinuses within the frontal bone can be a potential obstacle in neurosurgical approach in this region. Their unintended opening during craniotomy is not beneficial due to the risk of brain infections by bacteria inhabiting the sinus mucosa. Therefore, such opening should be avoided whenever the surgical procedure does not involve the sinus itself. The aim of the study was the morphometric analysis of the frontal sinuses based on computed tomography imaging. The width, height, projection surface area and location of the highest and most lateral points of the sinuses were determined. The vertical diameter of the sinuses was found to be greater in men compared with women. The most lateral point of the sinuses was located higher in men, and in men was located higher on the left side. The results obtained may indicate that the frontal sinuses tend to be larger in men and that air cells in men extend further in the upper - lateral direction on the left side of the frontal bone. This may cause an increased risk of unintentional opening of the left frontal sinus during frontal craniotomy or pterional craniotomy with frontal extension.
The COVID‐19 pandemic: Analysing nursing risk, care and careerscapes

Abstract This qualitative study explores how junior nurses, and some who were still in training, navigated the complexities and uncertainties engendered by the COVID‐19 pandemic. Data are drawn from in‐depth interviews with 18 students/nurses in Christchurch, New Zealand. Managing intertwining risk, care and careerscapes takes an intensified form as existing infection control rules, established norms of care, boundaries between home and work and expected career trajectories roil. ‘Safe’ and ‘risky’ spaces are porous but maintained using contextual, critical, clinical judgement. Carescapes are stretched, both within and beyond the walls of healthcare settings. Within the COVID‐19 riskscape, careerscapes are open to both threat and opportunity. Countries demand much of their healthcare staff in times of heath crises, but have a limited appreciation of what it takes to translate seemingly tightly bounded protocols into effective practice. The labour required in this work of translation is navigated moment by moment. To surface some of this invisible work, those implementing pandemic plans may need to more carefully consider how to incorporate attention to the work/home/public boundary as well as overtly acknowledging the invisible emotional, physical and intellectual labour carried out in crisis risk, care and careerscapes.
Electro-optic silicon modulator with horizontal photonic crystal slot slab

The properties of truly confined modes of a 2D hex horizontal photonic crystal slot slab waveguide are analyzed. Then the dispersion of liner defect waveguide is calculated. In addition, what influence the slots with different height have over the band structure and the group velocity dispersion of the defect mode waveguide are analyzed. Based on these studies, an ultra-compact silicon-based Mach-Zehnder amplitude modulator is proposed. For a design with almost negligible first order chromatic dispersion in an optical bandwidth of 1THz, we predict a modulation bandwidth of 40GHz and a length of about 80µm. This is achieved by infiltrating an electro-optic polymer into a slotted photonic crystal waveguide, the strong field confinement in slotted waveguides and the slow light interaction enhancements provided by the photonic crystal waveguide, where group velocity and dispersion may be controlled.
Targeted transcriptomics reveals signatures of large-scale independent origins and concerted regulation of effector genes in Radopholus similis

The burrowing nematode, Radopholus similis, is an economically important plant-parasitic nematode that inflicts damage and yield loss to a wide range of crops. This migratory endoparasite is widely distributed in warmer regions and causes extensive destruction to the root systems of important food crops (e.g., citrus, banana). Despite the economic importance of this nematode, little is known about the repertoire of effectors owned by this species. Here we combined spatially and temporally resolved next-generation sequencing datasets of R. similis to select a list of candidates for the identification of effector genes for this species. We confirmed spatial expression of transcripts of 30 new candidate effectors within the esophageal glands of R. similis by in situ hybridization, revealing a large number of pioneer genes specific to this nematode. We identify a gland promoter motif specifically associated with the subventral glands (named Rs-SUG box), a putative hallmark of spatial and concerted regulation of these effectors. Nematode transcriptome analyses confirmed the expression of these effectors during the interaction with the host, with a large number of pioneer genes being especially abundant. Our data revealed that R. similis holds a diverse and emergent repertoire of effectors, which has been shaped by various evolutionary events, including neofunctionalization, horizontal gene transfer, and possibly by de novo gene birth. In addition, we also report the first GH62 gene so far discovered for any metazoan and putatively acquired by lateral gene transfer from a bacterial donor. Considering the economic damage caused by R. similis, this information provides valuable data to elucidate the mode of parasitism of this nematode.
Double-Negative α-Fetoprotein and Carbohydrate Antigen 19-9 Predict a Good Prognosis in Intrahepatic Cholangiocarcinoma: A Propensity Score Matching Analysis

INTRODUCTION: Carbohydrate antigen 19-9 (CA19-9) and α-fetoprotein (AFP) are routinely tested in patients with liver malignancies before surgery. However, few reports have explored the relevance of the expression pattern of these 2 tumor markers regarding the prognosis of intrahepatic cholangiocarcinoma (ICC). We herein combined these 2 tumor markers to investigate the influence on ICC malignancy and patient prognosis. METHODS: From March 2009 to December 2019, 519 consecutive patients with newly diagnosed ICC who underwent R0 resection were enrolled and followed. The relationships between clinicopathological parameters and these 2 tumor markers were analyzed. Propensity score matching was used to eliminate the baseline differences. RESULTS: A lower proportion of patients with double-negative AFP and CA19-9 had advanced tumor-node-metastasis stage, larger tumor diameter, multiple tumors, lymph node metastasis, microvascular invasion, and perineural invasion. With propensity score matching, patients were divided into double-negative and non-double-negative groups, with 128 patients in each group, and the 5-year recurrence-free survival and overall survival rates were 33.8 vs 15.2 (P < 0.001) and 45.3 vs 19.0, respectively (P < 0.001). In the multivariate Cox analyses, double negativity for the 2 tumor markers was an independent factor for recurrence-free survival (hazard ratios, 0.578; 95% CI, 0.442–0.755, P < 0.001) and overall survival (hazard ratios, 0.567; 95% CI, 0.434–0.741, P < 0.001). DISCUSSION: Double negativity for CA19-9 and AFP indicated less invasive tumor characteristics in patients with ICC. Patients with double-negative tumor markers achieved better outcomes than those with non-double-negative markers, which is meaningful for prognostic counseling and therapeutic triage.
Assessing Rapid Relaxed-Clock Methods for Phylogenomic Dating

Abstract Rapid relaxed-clock dating methods are frequently applied to analyze phylogenomic data sets containing hundreds to thousands of sequences because of their accuracy and computational efficiency. However, the relative performance of different rapid dating methods is yet to be compared on the same data sets, and, thus, the power and pitfalls of selecting among these approaches remain unclear. We compared the accuracy, bias, and coverage probabilities of RelTime, treePL, and least-squares dating time estimates by applying them to analyze computer-simulated data sets in which evolutionary rates varied extensively among branches in the phylogeny. RelTime estimates were consistently more accurate than the other two, particularly when evolutionary rates were autocorrelated or shifted convergently among lineages. The 95% confidence intervals (CIs) around RelTime dates showed appropriate coverage probabilities (95% on average), but other methods produced rather low coverage probabilities because of overly narrow CIs of time estimates. Overall, RelTime appears to be a more efficient method for estimating divergence times for large phylogenies.
Sonication strategies toward volumetric ultrasound hyperthermia treatment using the ExAblate body MRgFUS system

Abstract Purpose The ExAblate body MRgFUS system requires advanced beamforming strategies for volumetric hyperthermia. This study aims to develop and evaluate electronic beam steering, multi-focal patterns, and sector vortex beamforming approaches in conjunction with partial array activation using an acoustic and biothermal simulation framework along with phantom experiments. Methods The simulation framework was developed to calculate the 3D acoustic intensity and temperature distribution resulting from various beamforming and scanning strategies. A treatment cell electronically sweeping a single focus was implemented and evaluated in phantom experiments. The acoustic and thermal focal size of vortex beam propagation was quantified according to the vortex modes, number of active array elements, and focal depth. Results Turning off a percentage of the outer array to increase the f-number increased the focal size with a decrease in focal gain. 60% active elements allowed generating a sonication cell with an off-axis of 10 mm. The vortex mode number 4 with 60% active elements resulted in a larger heating volume than using the full array. Volumetric hyperthermia in the phantom was evaluated with the vortex mode 4 and respectively performed with 100% and 80% active elements. MR thermometry demonstrated that the volumes were found to be 18.8 and 29.7 cm3, respectively, with 80% array activation producing 1.58 times larger volume than the full array. Conclusions This study demonstrated that both electronic beam steering and sector vortex beamforming approaches in conjunction with partial array activation could generate large volume heating for HT delivery using the ExAblate body array.
Association of PNPLA3 I148M with Liver Disease Biomarkers in Latinos

Introduction: Liver disease accounts for approximately 2 million deaths per year worldwide. The majority of liver diseases are due to complications of cirrhosis, viral hepatitis, and hepatocellular carcinoma. Increased levels of alanine aminotransferase (ALT) and aspartate aminotransferase (AST) may indicate liver disease. Moreover, there are additional noninvasive liver fibrosis indices that help to estimate liver damage, including AST-to-ALT ratio, AST-to-platelet ratio index (APRI), fibrosis-4 (FIB-4) score, and nonalcoholic fatty liver disease (NAFLD) fibrosis score. The aims of the present study were to (1) perform an association analysis of the patatin-like phospholipase domain containing 3 (PNPLA3) I148M (rs738409) variant with ALT, AST, and various liver fibrosis indices, and (2) determine whether there are gender-related differences in these associations. Methods: We obtained demographic, anthropometric, and metabolic phenotypes from Latino adult participants (n = 503, 64% female, 36.4 ± 0.5 years) from the Arizona Insulin Resistance (AIR) registry. SNP genotyping of I148M was performed using the TaqMan allelic discrimination assay. We used linear regression for the association analyses of the genotypes with ALT, AST, and the various liver fibrosis indices. We included genotype, age, body mass index, and alcohol status in the linear regression model. Results: The variant I148M was in Hardy-Weinberg equilibrium, with genotype distribution: non-risk CC 118, heterozygous CG 246, and risk GG 139. The G allele was significantly associated with increased ALT and AST levels (p = 7.8 × 10–7 and p = 9.7 × 10–6, respectively). Moreover, we showed that the G allele was significantly associated with higher APRI (p = 3.7 × 10–7) and FIB-4 score (p = 4.1 × 10–3). When we analyzed the data by gender, we observed similar significant trends for ALT, AST, and APRI (all, p < 0.01). In females, the G allele was significantly associated with increased FIB-4 score (p = 6.9 × 10–3), which was not observed in the males (p > 0.05). There was no association of the I148M variant with AST/ALT ratio nor NAFLD risk score, whether analyzed in all adults or by gender. Discussion/Conclusion: Our findings provide additional evidence of an association of PNPLA3 I148M with several liver disease biomarkers in male and female Latinos residing in the Southwest of the United States.
Virtual technical support for field engineers in the water and ventilation hygiene industry

This paper presents an industrial application of VR, which has been integrated as a core component of a virtual technical support system. The problems that often impede conventional technical support and the way in which a virtual technical support system can overcome them are discussed. Field engineers are able to use the system to access improved information and knowledge through their laptop computers while on-the-job. Thereby, taking advantage of scarce investment resources. When used in synergy, the application of VR, multimedia, coordinated multiple views and knowledge-based technologies can be shown to significantly reduce technical support costs. Initial results are presented showing the effectiveness and benefits of such a system for field engineer support in the water and ventilation hygiene industry.
Why a Clinical Decision Support System is needed for Tinnitus?

Tinnitus is the perception of a phantom sound and the individual’s reaction to it. Although much progress has been made, tinnitus remains an unresolved scientific and clinical issue, affecting more than 10% of the general population and having a high prevalence and socioeconomic burden. Clinical decision support systems (CDSS) are used to assist clinicians in their complex decision-making processes, having been proved that they improve healthcare delivery. In this paper, we present a CDSS for tinnitus, attempting to address the question which treatment approach is optimal for a particular patient based on specific parameters. The CDSS will be developed in the context of the EU-funded "UNITI" project and, after the project completion, it will be able to determine the suitability and expected attachment of a particular patient to a list of available clinical interventions, utilizing predictive and classification machine learning models.Clinical Relevance — The proposed clinically utilizable CDSS will be able to suggest the optimal treatment strategy for the tinnitus patient based on a set of heterogeneous data.
Effects of symbiotic population impairment on microbiome composition and longevity of Bactrocera dorsalis

In order to understand the role of symbionts for their insect hosts, it is customary to treat them with antibiotics or to sterilize eggs (treatments), resulting in aposymbiotic and axenic insects, respectively. Such axenic insects can then be compared with untreated controls. Fruit flies often bear complex communities which are greatly reduced by such treatments. However, the bacterial community is not completely eliminated. Here, we examine the effect of these procedures on the structure of the remaining bacterial communities in Bactrocera dorsalis (Diptera: Tephritidae) and on the insect longevity. The antibiotics (Norfloxacin and Ceftazedime) were administered to 1-day-old adult flies through sugar meal for 7 days, and eggs were surface sterilized and dechorionated to produce axenic lines. The flies were starved of protein before they were offered full diets or diets containing non-essential amino acids only. Antibiotic and egg disinfection treatments resulted in a significant reduction of the vast majority of gut bacterial populations, especially Proteobacteria, Firmicutes and Bacteroidetes. On the other hand, antibiotic allowed the persistence of Actinobacteria, Cyanobacteria and Acidobacteria populations. In untreated control flies, longevity was extended irrespective of diet quality in comparison to treated flies. Conversely, when gut bacteria were largely reduced (aposymbiotic and axenic flies), longevity was reduced in the non-essential amino acids diet treatment versus slightly improved in the presence of a protein diet. We discuss these results in an ecological–life-history perspective.
Narwhals react to ship noise and airgun pulses embedded in background noise

Anthropogenic activities are increasing in the Arctic, posing a threat to niche-conservative species with high seasonal site fidelity, such as the narwhal Monodon monoceros. In this controlled sound exposure study, six narwhals were live-captured and instrumented with animal-borne tags providing movement and behavioural data, and exposed to concurrent ship noise and airgun pulses. All narwhals reacted to sound exposure with reduced buzzing rates, where the response was dependent on the magnitude of exposure defined as 1/distance to ship. Buzzing rate was halved at 12 km from the ship, and whales ceased foraging at 7–8 km. Effects of exposure could be detected at distances > 40 km from the ship.At only a few kilometres from the ship, the received high-frequency cetacean weighted sound exposure levels were below background noise indicating extreme sensitivity of narwhals towards sound disturbance and demonstrating their ability to detect signals embedded in background noise. The narwhal's reactions to sustained disturbance may have a plethora of consequences both at individual and population levels. The observed reactions of the whales demonstrate their auditory sensitivity but also emphasize, that anthropogenic activities in pristine narwhal habitats needs to be managed carefully if healthy narwhal populations are to be maintained.
Myeloid-derived suppressor cells and the pathogenesis of human immunodeficiency virus infection

There are several mechanisms by which human immunodeficiency virus (HIV) can mediate immune dysfunction and exhaustion during the course of infection. Chronic immune activation, after HIV infection, seems to be a key driving force of such unwanted consequences, which in turn worsens the pathological status. In such cases, the immune system is programmed to initiate responses that counteract unwanted immune activation, for example through the expansion of myeloid-derived suppressor cells (MDSCs). Although the expansion of immune suppressor cells in the setting of systemic chronic immune activation, in theory, is expected to contain immune activation, HIV infection is still associated with a remarkably high level of biomarkers of immune activation. Paradoxically, the expansion of immune suppressor cells during HIV infection can suppress potent anti-viral immune responses, which in turn contribute to viral persistence and disease progression. This indicates that HIV hijacks not only immune activation but also the immune regulatory responses to its advantage. In this work, we aim to pave the way to comprehend how such unwanted expansion of MDSCs could participate in the pathology of acute/primary and chronic HIV infection in humans, as well as simian immunodeficiency virus infection in rhesus macaques, according to the available literature.
Discussion: [of 'An overview of the Shainin System™ for quality improvement']

The article by Steiner, MacKay and Ramberg [An overview of the Shainin System for quality improvement] offers a sound and an accurate description of the Shainin System for quality improvement. Therefore, our comments will not address their representation of the Shainin System, but concern the Shainin System itself.
A low-order thermal model for monitoring critical temperatures in permanent magnet synchronous motors

Monitoring critical temperatures in electric motors is crucial for preventing shortened motor life spans due to excessive thermal stress. With regard to permanent magnet synchronous motors (PMSM), critical temperatures can occur in the magnets and the stator end winding. While excessive magnet temperatures involve the risk of irreversible demagnetization when operating the motor in flux weakening mode, exceeding the thermal limits of the stator windings can destroy the insulation varnish. As directly measuring temperatures, especially on the rotating part, is costly and thus not applicable with respect to automotive applications, model-based approaches are preferred. In this paper, a low-order thermal model for accurate temperature predictions in the permanent magnets, the windings and the end windings is introduced. The model parameters are estimated solely based on experimental data via a sequence of interdependent identification steps. The model performance is validated by experimental results based on a high-speed PMSM typically used as traction motor in subcompact electric cars.
Variation in framing as a function of temporal reporting distance

In this paper, we measure variation in framing as a function of foregrounding and backgrounding in a co-referential corpus with a range of temporal distance. In one type of experiment, frame-annotated corpora grouped under event types were contrasted, resulting in a ranking of frames with typicality rates. In contrasting between publication dates, a different ranking of frames emerged for documents that are close to or far from the event instance. In the second type of analysis, we trained a diagnostic classifier with frame occurrences in order to let it differentiate documents based on their temporal distance class (close to or far from the event instance). The classifier performs above chance and outperforms models with words.
Incremental Unit Networks for Multimodal, Fine-grained Information State Representation

We offer a fine-grained information state annotation scheme that follows directly from the Incremental Unit abstract model of dialogue processing when used within a multimodal, co-located, interactive setting. We explain the Incremental Unit model and give an example application using the Localized Narratives dataset, then offer avenues for future research.
Developing a multilayer semantic annotation scheme based on ISO standards for the visualization of a newswire corpus

In this paper, we describe the process of developing a multilayer semantic annotation scheme designed for extracting information from a European Portuguese corpus of news articles, at three levels, temporal, referential and semantic role labelling. The novelty of this scheme is the harmonization of parts 1, 4 and 9 of the ISO 24617 Language resource management - Semantic annotation framework. This annotation framework includes a set of entity structures (participants, events, times) and a set of links (temporal, aspectual, subordination, objectal and semantic roles) with several tags and attribute values that ensure adequate semantic and visual representations of news stories.