julilili42/papers huggingface dataset:
A Novel Camera-Free Eye Tracking Sensor for Augmented Reality Based on Laser Scanning
2020-07-27

Next generation AR glasses require a highly integrated, high-resolution near-eye display technique such as focus-free retinal projection to enhance usability. Combined with low-power eye-tracking, such glasses enable better user experience and performance. We propose a novel and robust low-power eye-tracking sensor for integration into retinal projection systems. In our approach, a MEMS micro mirror scans an IR laser beam over the eye region and the scattered light is received by a photodiode. The advantages of our approach over typical VOG systems are its high integration capability and low-power consumption, which qualify our approach for next generation AR glasses. Here, we present a mathematical framework to estimate the achievable gaze angle resolution of our approach. We further show the viability of the proposed eye-tracking sensor based on a laboratory setup and discuss power consumption and gaze angle resolution compared to typical eye-tracking techniques.
Using a composite flow law to model deformation in the NEEM deep ice core, Greenland – Part 2: The role of grain size and premelting on ice deformation at high homologous temperature
2020-07-27

Abstract. The ice microstructure in the lower part of the North Greenland Eemian Ice Drilling (NEEM) ice core consists of relatively fine-grained ice with a single maximum crystallographic preferred orientation (CPO) alternated by much coarser-grained ice with a partial (great circle) girdle or multi-maxima CPO. In this study, the grain-size-sensitive (GSS) composite flow law of Goldsby and Kohlstedt (2001) was used to study the effects of grain size and premelting (liquid-like layer along the grain boundaries) on strain rate in the lower part of the NEEM ice core. The results show that the strain rates predicted in the fine-grained layers are about an order of magnitude higher than in the much coarser-grained layers. The dominant deformation mechanisms, based on the flow relation of Goldsby and Kohlstedt (2001), between the layers is also different, with basal slip rate limited by grain boundary sliding (GBS-limited creep) being the dominant deformation mechanism in the finer-grained layers, while GBS-limited creep and dislocation creep (basal slip rate limited by non-basal slip) contribute both roughly equally to bulk strain in the coarse-grained layers. Due to the large difference in microstructure between finer-grained ice and the coarse-grained ice at premelting temperatures (T&gt;262 K), it is expected that the fine-grained layers deform at high strain rates, while the coarse-grained layers are relatively stagnant. The difference in microstructure, and consequently in viscosity, between impurity-rich and low-impurity ice can have important consequences for ice dynamics close to the bedrock.
Differential effects of disease modifying drugs on peripheral blood B cell subsets: A cross sectional study in multiple sclerosis patients treated with interferon-β, glatiramer acetate, dimethyl fumarate, fingolimod or natalizumab
2020-07-27

Our results highlight differential effects of DMDs on the PB B cell compartment. Across the examined treatments, a decreased percentage of memory B cells was found in dimethyl fumarate, interferon-β and fingolimod treated patients which might contribute to the drugs' mode of action in MS. Further studies are necessary to decipher the exact role of B cell subsets during MS pathogenesis.
Using a composite flow law to model deformation in the NEEM deep ice core, Greenland – Part 1: The role of grain size and grain size distribution on deformation of the upper 2207 m
2020-07-27

Abstract. The effect of grain size on strain rate of ice in the upper 2207 m in the North Greenland Eemian Ice Drilling (NEEM) deep ice core was investigated using a rheological model based on the composite flow law of Goldsby and Kohlstedt (1997, 2001). The grain size was described by both a mean grain size and a grain size distribution, which allowed the strain rate to be calculated using two different model end-members: (i) the microscale constant stress model where each grain deforms by the same stress and (ii) the microscale constant strain rate model where each grain deforms by the same strain rate. The model results predict that grain-size-sensitive flow produces almost all of the deformation in the upper 2207 m of the NEEM ice core, while dislocation creep hardly contributes to deformation. The difference in calculated strain rate between the two model end-members is relatively small. The predicted strain rate in the fine-grained Glacial ice (that is, ice deposited during the last Glacial maximum at depths of 1419 to 2207 m) varies strongly within this depth range and, furthermore, is about 4–5 times higher than in the coarser-grained Holocene ice (0–1419 m). Two peaks in strain rate are predicted at about 1980 and 2100 m depth. The prediction that grain-size-sensitive creep is the fastest process is inconsistent with the microstructures in the Holocene age ice, indicating that the rate of dislocation creep is underestimated in the model. The occurrence of recrystallization processes in the polar ice that did not occur in the experiments may account for this discrepancy. The prediction of the composite flow law model is consistent with microstructures in the Glacial ice, suggesting that fine-grained layers in the Glacial ice may act as internal preferential sliding zones in the Greenland ice sheet.
Fetal/neonatal alloimmune thrombocytopenia: a systematic review of impact of HLA-DRB3*01:01 on fetal/neonatal outcome
2020-07-27

Abstract The most common, severe cases of fetal and neonatal alloimmune thrombocytopenia among whites are caused by antibodies against human platelet antigen 1a (HPA-1a). The aims of this systematic review and meta-analysis are to determine the association between maternal HLA-DRB3*01:01 and: (1) HPA-1a-alloimmunization and (2) neonatal outcome in children born of HPA-1a-immunized women. A systematic literature search identified 4 prospective and 8 retrospective studies. Data were combined across studies to estimate pooled odds ratios (ORs) and the associated 95% confidence intervals (CIs). The population represented by the prospective studies was more than 150 000. In the prospective studies, there were 64 severely thrombocytopenic newborns (platelet count &amp;lt;50 × 109/L) of whom 3 had intracranial hemorrhage. The mothers of all 64 children were HLA-DRB3*01:01+. The number of severely thrombocytopenic children born of HPA-1a-alloimmunized women in the retrospective studies was 214; 205 of whom were born of HLA-DRB3*01:01+ women. For HLA-DRB3*01:01− women, the OR (95% CI) for alloimmunization was 0.05 (0.00-0.60), and for severe neonatal thrombocytopenia 0.08 (0.02-0.37). This meta-analysis demonstrates that the risk of alloimmunization and of having a child with severe thrombocytopenia are both very low for HPA-1a− women who are HLA-DRB3*01:01−.
A RADIOCARBON DATING APPROACH TO THE DEPOSITION AND REMOVAL OF HUMAN BONE REMAINS IN MEGALITHIC MONUMENTS
2020-07-27

ABSTRACT The formation of commingled human bone assemblages is a key aspect for better understanding funerary rituals. The megalithic cemetery of Panoría (Spain) provides an excellent opportunity to explore bone assemblage formation thanks to the recent excavation of an undisturbed burial. For this purpose, we have approached the differential skeletal representation found between bone and teeth at the site through radiocarbon ( 14 C) dating and Bayesian modeling. The comparison between the series of 14 C dates on bone (n=12) and teeth (n=14) stress three main aspects: (1) the dates of teeth show a long period of funerary use before the deposition of the human bone remains; (2) both kinds of samples appear to be chronologically sequenced; the end of the teeth 14 C series matches with the beginning of human bone deposition; and (3) bone remains span a short period, not more than a few decades, which probably represents the last episode of intense mortuary activity. These differences suggest that teeth could be the evidence of skeletal depositions subsequently removed from the tomb. The deposition and removal of bone remains emerge as key aspects in the formation of the bone assemblage.
Activation of Literal Word Meanings in Idioms: Evidence from Eye-tracking and ERP Experiments
2020-07-27

How the language processing system handles formulaic language such as idioms is a matter of debate. We investigated the activation of constituent meanings by means of predictive processing in an eye-tracking experiment and in two ERP experiments (auditory and visual). In the eye-tracking experiment, German-speaking participants listened to idioms in which the final word was excised ( Hannes let the cat out of the . . .). Well before the offset of these idiom fragments, participants fixated on the correct idiom completion ( bag) more often than on unrelated distractors ( stomach). Moreover, there was an early fixation bias towards semantic associates ( basket) of the correct completion, which ended shortly after the offset of the fragment. In the ERP experiments, sentences (spoken or written) either contained complete idioms, or the final word of the idiom was replaced with a semantic associate or with an unrelated word. Across both modalities, ERPs reflected facilitated processing of correct completions across several regions of interest (ROIs) and time windows. Facilitation of semantic associates was only reliably evident in early components for auditory idiom processing. The ERP findings for spoken idioms compliment the eye-tracking data by pointing to early decompositional processing of idioms. It seems that in spoken idiom processing, holistic representations do not solely determine lexical processing.
Lipoprotein N -Acylation in Staphylococcus aureus Is Catalyzed by a Two-Component Acyl Transferase System
2020-07-27

Although it has long been known that S. aureus forms triacylated Lpps, a lack of homologs to known N -acylation genes found in Gram-negative bacteria has until now precluded identification of the genes responsible for this Lpp modification. Here, we demonstrate N-terminal Lpp acylation and chemotype conversion to the tri-acylated state is directed by a unique acyl transferase system encoded by two noncontiguous staphylococci genes ( lnsAB ). Since triacylated Lpps stimulate TLR2 more weakly than their diacylated counterparts, Lpp N -acylation is an important TLR2 immunoevasion factor for determining tolerance or nontolerance in niches such as in the skin microbiota. The discovery of the LnsAB system expands the known diversity of Lpp biosynthesis pathways and acyl transfer biochemistry in bacteria, advances our understanding of Lpp structural heterogeneity, and helps differentiate commensal and noncommensal microbiota.
A simple method for detecting oncofetal chondroitin sulfate glycosaminoglycans in bladder cancer urine
2020-07-27

Abstract Proteoglycans in bladder tumors are modified with a distinct oncofetal chondroitin sulfate (ofCS) glycosaminoglycan that is normally restricted to placental trophoblast cells. This ofCS-modification can be detected in bladder tumors by the malarial VAR2CSA protein, which in malaria pathogenesis mediates adherence of parasite-infected erythrocytes within the placenta. In bladder cancer, proteoglycans are constantly shed into the urine, and therefore have the potential to be used for detection of disease. In this study we investigated whether recombinant VAR2CSA (rVAR2) protein could be used to detect ofCS-modified proteoglycans (ofCSPGs) in the urine of bladder cancer patients as an indication of disease presence. We show that ofCSPGs in bladder cancer urine can be immobilized on cationic nitrocellulose membranes and subsequently probed for ofCS content by rVAR2 protein in a custom-made dot-blot assay. Patients with high-grade bladder tumors displayed a marked increase in urinary ofCSPGs as compared to healthy individuals. Urine ofCSPGs decreased significantly after complete tumor resection compared to matched urine collected preoperatively from patients with bladder cancer. Moreover, ofCSPGs in urine correlated with tumor size of bladder cancer patients. These findings demonstrate that rVAR2 can be utilized in a simple biochemical assay to detect cancer-specific ofCS-modifications in the urine of bladder cancer patients, which may be further developed as a noninvasive approach to detect and monitor the disease.
Structural Basis and Evolution of Glycan Receptor Specificities within the Polyomavirus Family
2020-07-27

Virus attachment to cell surface receptors is critical for productive infection. In this study, we have used a structure-based approach to investigate the cell surface recognition event for New Jersey polyomavirus (NJPyV) and human polyomavirus 12 (HPyV12). These viruses belong to the polyomavirus family, whose members target different tissues and hosts, including mammals, birds, fish, and invertebrates. Polyomaviruses are nonenveloped viruses, and the receptor-binding site is located in their capsid protein VP1. The NJPyV capsid features a novel sialic acid-binding site that is shifted in comparison to other structurally characterized polyomaviruses but shared with a closely related simian virus. In contrast, HPyV12 VP1 engages terminal sialic acids in a manner similar to the human Trichodysplasia spinulosa -associated polyomavirus. Our structure-based phylogenetic analysis highlights that even distantly related avian polyomaviruses possess the same exposed sialic acid-binding site. These findings complement phylogenetic models of host-virus codivergence and may also reflect past host-switching events.
No Evidence for an Influence of Grammatical Number in Two-Digit Magnitude and Place-Value Processing in Adults
2020-07-27

Numerous studies revealed effects of some linguistic properties like inversion or reading/writing direction on number processing. However, it remains more controversial, whether influences at a syntactic level, such as singular vs. plural form associated with certain numbers, can also influence magnitude and place-value processing and vice versa. In this study, we investigated for the first time in a classical two-digit number comparison task whether grammatical number also affects magnitude and place-value processing (and vice versa). To do so, we used a peculiarity of the Polish language, where the inflection of a verb depends on the unit digit of a number (singular for 25-29, 35-39, etc. and plural for 22-24, 32-34, etc.). This systematic pattern allows the manipulation of congruency between grammatical number and magnitude information, both on an item and a response level (i.e., the grammatical number is either compatible or incompatible to the magnitude information or the response side). We observed no significant interference effects, neither between grammatical number (i.e., associated singular/ plural inflection of the number) and magnitude information, nor between grammatical number and the response side. Model comparisons revealed that models without grammatical number, could explain our data best. Hence, grammatical number did not contribute to the explanation of the data beyond unit-decade compatibility, distance effect and SNARC effect and, thus, seems to be negligible in two-digit number comparison. Task characteristics, which might contribute to this finding are discussed.
MEG dataset nonlinguistic auditory statistical learning
2020-07-27

&lt;p&gt;MEG data of 24&nbsp;healthy adults with an auditory nonlinguistic statistical learning paradigm plus data from two subsequent behavioral tasks. For closer description of data see data description file.&nbsp;&lt;/p&gt;
Retrospective Accuracy Analysis of MRI Based Lesion Size Measurement in Neuroblastic Tumors: Which Sequence Should We Choose?
2020-07-27

<title>Abstract</title> <bold>Background: </bold>MR imaging of neuroblastic tumors is widely used for assessing the effect of chemotherapy on tumor size. However, there are some concerns that MRI might falsely estimate lesion diameters due to calcification and fibrosis.Therefore, the aim of our study was to compare neuroblastic tumor size based on MRI measurements to histopathology as standard of reference.<bold>Methods: </bold>Inclusion criteria were diagnosis of a neuroblastic tumor, MR imaging within 100 days to surgery and gross total resection without fragmentation of the tumor between 2008-2019. Lesion diameters were measured by two radiologists according to RECIST 1.1 in axial plane in T2w turbo spin echo (TSE), diffusion-weighted imaging (DWI) and in T1w pre- and postcontrast sequences. Furthermore, the largest lesion size in three-dimensions was noted. The largest diameter of histopathology measurements was used for comparison with MRI.<bold>Results: </bold>Thirty-seven patients (mean age: 5±4 years) with 38 lesions (neuroblastoma: n=17; ganglioneuroblastoma: n=11; ganglioneuroma: n=10) were included in this retrospective study. There was excellent intra-class correlation coefficient between both readers for all sequences(&gt;0.9)Tumor dimensions of reader 1 based on axial MRImeasurements were significantly smaller with the following median differences (cm): T1w precontrast-1.4 (interquartile range (IQR): 1.8 ), T1w postcontrast -1.0 (IQR: 1.9),T2w TSE:-1.0 (IQR: 1.6) and DWI -1.3 (IQR: 2.2) (p&lt;0.001 for all sequences). However, the evaluation revealed no significant differences between the three-dimensional measurements and histopathology regardless of the applied MRI sequence.<bold>Conclusions: </bold>Axial MRI based lesion size measurementsare significantly smaller than histopathological measurements. However, there was no significant difference between three-dimensional measurements and histopathology. T2w TSE and T1w postcontrast images provided the lowest deviation and might consequently be preferred for measurements.
An electrophysiological marker of arousal level in humans
2020-07-28

Deep non-rapid eye movement sleep (NREM) and general anesthesia with propofol are prominent states of reduced arousal linked to the occurrence of synchronized oscillations in the electroencephalogram (EEG). Although rapid eye movement (REM) sleep is also associated with diminished arousal levels, it is characterized by a desynchronized, ‘wake-like’ EEG. This observation implies that reduced arousal states are not necessarily only defined by synchronous oscillatory activity. Using intracranial and surface EEG recordings in four independent data sets, we demonstrate that the 1/f spectral slope of the electrophysiological power spectrum, which reflects the non-oscillatory, scale-free component of neural activity, delineates wakefulness from propofol anesthesia, NREM and REM sleep. Critically, the spectral slope discriminates wakefulness from REM sleep solely based on the neurophysiological brain state. Taken together, our findings describe a common electrophysiological marker that tracks states of reduced arousal, including different sleep stages as well as anesthesia in humans.
Utility of a Molecular Classifier as a Complement to High-Resolution Computed Tomography to Identify Usual Interstitial Pneumonia
2020-07-28

<b>Rationale:</b> Usual interstitial pneumonia (UIP) is the defining morphology of idiopathic pulmonary fibrosis (IPF). Guidelines for IPF diagnosis conditionally recommend surgical lung biopsy for histopathology diagnosis of UIP when radiology and clinical context are not definitive. A "molecular diagnosis of UIP" in transbronchial lung biopsy, the Envisia Genomic Classifier, accurately predicted histopathologic UIP.<b>Objectives:</b> We evaluated the combined accuracy of the Envisia Genomic Classifier and local radiology in the detection of UIP pattern.<b>Methods:</b> Ninety-six patients who had diagnostic lung pathology as well as a transbronchial lung biopsy for molecular testing with Envisia Genomic Classifier were included in this analysis. The classifier results were scored against reference pathology. UIP identified on high-resolution computed tomography (HRCT) as documented by features in local radiologists' reports was compared with histopathology.<b>Measurements and Main Results:</b> In 96 patients, the Envisia Classifier achieved a specificity of 92.1% (confidence interval [CI],78.6-98.3%) and a sensitivity of 60.3% (CI, 46.6-73.0%) for histology-proven UIP pattern. Local radiologists identified UIP in 18 of 53 patients with UIP histopathology, with a sensitivity of 34.0% (CI, 21.5-48.3%) and a specificity of 96.9% (CI, 83.8-100%). In conjunction with HRCT patterns of UIP, the Envisia Classifier results identified 24 additional patients with UIP (sensitivity 79.2%; specificity 90.6%).<b>Conclusions:</b> In 96 patients with suspected interstitial lung disease, the Envisia Genomic Classifier identified UIP regardless of HRCT pattern. These results suggest that recognition of a UIP pattern by the Envisia Genomic Classifier combined with HRCT and clinical factors in a multidisciplinary discussion may assist clinicians in making an interstitial lung disease (especially IPF) diagnosis without the need for a surgical lung biopsy.
Managing Soils for Recovering from the COVID-19 Pandemic
2020-07-28

The COVID-19 pandemic has disrupted the global food supply chain and exacerbated the problem of food and nutritional insecurity. Here we outline soil strategies to strengthen local food production systems, enhance their resilience, and create a circular economy focused on soil restoration through carbon sequestration, on-farm cycling of nutrients, minimizing environmental pollution, and contamination of food. Smart web-based geospatial decision support systems (S-DSSs) for land use planning and management is a useful tool for sustainable development. Forensic soil science can also contribute to cold case investigations, both in providing intelligence and evidence in court and in ascertaining the provenance and safety of food products. Soil can be used for the safe disposal of medical waste, but increased understanding is needed on the transfer of virus through pedosphere processes. Strengthening communication between soil scientists and policy makers and improving distance learning techniques are critical for the post-COVID restoration.
Optimizing MR-Guided Radiotherapy for Breast Cancer Patients
2020-07-28

Current research in radiotherapy (RT) for breast cancer is evaluating neoadjuvant as opposed to adjuvant partial breast irradiation (PBI) with the aim of reducing the volume of breast tissue irradiated and therefore the risk of late treatment-related toxicity. The development of magnetic resonance (MR)-guided RT, including dedicated MR-guided RT systems [hybrid machines combining an MR scanner with a linear accelerator (MR-linac) or <sup>60</sup>Co sources], could potentially reduce the irradiated volume even further by improving tumour visibility before and during each RT treatment. In this position paper, we discuss MR guidance in relation to each step of the breast RT planning and treatment pathway, focusing on the application of MR-guided RT to neoadjuvant PBI.