Structured Prediction of Sequences and Trees using Infinite Contexts

Linguistic structures exhibit a rich array of global phenomena, however commonly used Markov models are unable to adequately describe these phenomena due to their strong locality assumptions. We propose a novel hierarchical model for structured prediction over sequences and trees which exploits global context by conditioning each generation decision on an unbounded context of prior decisions. This builds on the success of Markov models but without imposing a fixed bound in order to better represent global phenomena. To facilitate learning of this large and unbounded model, we use a hierarchical Pitman-Yor process prior which provides a recursive form of smoothing. We propose prediction algorithms based on A* and Markov Chain Monte Carlo sampling. Empirical results demonstrate the potential of our model compared to baseline finite-context Markov models on part-of-speech tagging and syntactic parsing

Developmental Changes in Infants' Categorization of Anger and Disgust Facial Expressions

For decades, scholars have examined how children first recognize emotional facial expressions. This research has found that infants younger than 10 months can discriminate negative, within-valence facial expressions in looking time tasks, and children older than 24 months struggle to categorize these expressions in labeling and free-sort tasks. Specifically, these older children, and even adults, consistently misidentify disgust expressions as anger. Although some scholars have hypothesized that young infants would also be unable to categorize anger and disgust expressions, this question has not been empirically tested. In addition, very little research has examined developmental changes in infants' perceptual categorization abilities with high arousal, within-valence emotions. For this reason, the current study tested 10- and 18-month-olds in a looking time task and found that both age groups could perceptually categorize anger and disgust facial expressions. Furthermore, 18-month-olds showed a heightened sensitivity to novel anger expressions, suggesting that, over the second year of life, infants' emotion categorization skills undergo developmental change. These findings are the first to demonstrate that young infants can categorize anger and disgust facial expressions and to document how this skill develops and changes over time

Successional changes of epibiont fouling communities of the cultivated kelp Alaria esculenta: predictability and influences

There has been an increase in commercial-scale kelp cultivation in Europe, with fouling of cultivated kelp fronds presenting a major challenge to the growth and development of the industry. The presence of epibionts decreases productivity and impacts the commercial value of the crop. Several abiotic and biotic factors may influence the occurrence and degree of fouling of wild and cultivated fronds. Using a commercial kelp farm on the SW coast of Ireland, we studied the development of fouling communities on cultivated Alaria esculenta fronds over 2 typical growing seasons. The predictability of community development was assessed by comparing mean occurrence-day. Hypotheses that depth, kelp biomass, position within the farm and the hydrodynamic environment affect the fouling communities were tested using species richness and community composition. Artificial kelp mimics were used to test whether local frond density could affect the fouling communities. Species richness increased over time during both years, and species composition was consistent over years with early successional communities converging into later communities (no significant differences between June 2014 and June 2015 communities, ANOSIM; R = -0.184, p > 0.05). The timing of species occurrences was predictable across years for all shared species. Variations in biomass, depth and position within the farm had no significant effect on species richness and composition. Results from artificial kelp mimics suggest possible hydrodynamic effects. The ability to understand succession and the timing of occurrences of fouling organisms and predict their arrival has significant benefits for the seaweed cultivation industry

Cryopreservation of UVC pathogen-inactivated platelets

© 2019 AABB BACKGROUND: Extending the platelet (PLT) shelf life and enhancing product safety may be achieved by combining cryopreservation and pathogen inactivation (PI). Although studied individually, limited investigations into combining these treatments has been performed. The aim of this study was to investigate the effect of PI treating PLTs before cryopreservation on in vitro PLT quality and function. STUDY DESIGN AND METHODS: ABO-matched buffy coat–derived PLTs in PLT additive solution (SSP+; Macopharma) were pooled and split to form matched pairs (n = 8). One unit remained untreated and the other was treated with the THERAFLEX UV-Platelets System (UVC; Macopharma). For cryopreservation, 5% to 6% dimethyl sulfoxide was added to the PLTs, and they were frozen at −80°C. After being thawed, untreated cryopreserved PLTs (CPPs) and UVC-treated CPPs (UVC-CPPs) were resuspended in plasma. In vitro quality was assessed immediately after thawing and after 24 hours of room temperature storage. RESULTS: UVC-CPPs had lower in vitro recovery compared to CPPs. By flow cytometry, PLTs demonstrated a similar abundance of GPIX (CD42a), GPIIb (CD41a), and GPIbα (CD42b-HIP1), while the activation of GPIIb/IIIa (PAC-1) was increased in UVC-CPPs compared to CPPs. UVC-CPPs demonstrated greater phosphatidylserine exposure (annexin V) and microparticle shedding but similar P-selectin (CD62P) abundance compared to CPPs. UVC-CPPs displayed similar functionality to CPPs when assessed using aggregometry, thromboelastography, and thrombin generation. CONCLUSIONS: This study demonstrates the feasibility of cryopreserving UVC-PI–treated PLT products. UVC-PI treatment may increase the susceptibility of PLTs to damage caused during cryopreservation, but this is more pronounced during postthaw storage at room temperature

Refrigeration, cryopreservation and pathogen inactivation: an updated perspective on platelet storage conditions

© 2018 International Society of Blood Transfusion Conventional storage of platelet concentrates limits their shelf life to between 5 and 7 days due to the risk of bacterial proliferation and the development of the platelet storage lesion. Cold storage and cryopreservation of platelets may facilitate extension of the shelf life to weeks and years, and may also provide the benefit of being more haemostatically effective than conventionally stored platelets. Further, treatment of platelet concentrates with pathogen inactivation systems reduces bacterial contamination and provides a safeguard against the risk of emerging and re-emerging pathogens. While each of these alternative storage techniques is gaining traction individually, little work has been done to examine the effect of combining treatments in an effort to further improve product safety and minimize wastage. This review aims to discuss the benefits of alternative storage techniques and how they may be combined to alleviate the problems associated with conventional platelet storage

VAScular and Chronic Obstructive Lung disease (VASCOL): a longitudinal study on morbidity, symptoms and quality of life among older men in Blekinge county, Sweden

Purpose: Despite data showing breathlessness to be more prevalent in older adults, we have little detail about the severity or multidimensional characteristics of breathlessness and other self-reported measures (such as quality of life and other cardiorespiratory-related symptoms) in this group at the population level. We also know little about the relationship between multidimensional breathlessness, other symptoms, comorbidities and future clinical outcomes such as quality of life, hospitalisation and mortality. This paper reports the design and descriptive findings from the first two waves of a longitudinal prospective cohort study in older adults. Participants: Between 2010 and 2011, 1900 men in a region in southern Sweden aged 65 years were invited to attend for VAScular and Chronic Obstructive Lung disease (VASCOL) baseline (Wave 1) assessments which included physiological measurements, blood sampling and a self-report survey of lifestyle and previous medical conditions. In 2019, follow-up postal survey data (Wave 2) were collected with additional self-report measures for breathlessness, other symptoms and quality of life. At each wave, data are cross-linked with nationwide Swedish registry data of diseases, treatment, hospitalisation and cause of death. Findings to date: 1302/1900 (68%) of invited men participated in Wave 1, which include 56% of all 65-year-old men in the region. 5% reported asthma, 2% chronic obstructive pulmonary disease, 56% hypertension, 10% diabetes and 19% had airflow limitation. The VASCOL cohort had comparable characteristics to those of similarly aged men in Sweden. By 2019, 109/1302 (8.4%) had died. 907/1193 (76%) of the remainder participated in Wave 2. Internal data completeness of 95% or more was achieved for most Wave 2 measures. Future plans: A third wave will be conducted within 4 years, and the cohort will be followed through repeated follow-ups planned every fourth year, as well as national registry data of diagnosis, treatments and cause of death

Perceptual Embedding Consistency for Seamless Reconstruction of Tilewise Style Transfer

Style transfer is a field with growing interest and use cases in deep learning. Recent work has shown Generative Adversarial Networks(GANs) can be used to create realistic images of virtually stained slide images in digital pathology with clinically validated interpretability. Digital pathology images are typically of extremely high resolution, making tilewise analysis necessary for deep learning applications. It has been shown that image generators with instance normalization can cause a tiling artifact when a large image is reconstructed from the tilewise analysis. We introduce a novel perceptual embedding consistency loss significantly reducing the tiling artifact created in the reconstructed whole slide image (WSI). We validate our results by comparing virtually stained slide images with consecutive real stained tissue slide images. We also demonstrate that our model is more robust to contrast, color and brightness perturbations by running comparative sensitivity analysis tests

Antibodies to Seasonal Coronaviruses Rarely Cross-React with SARS-CoV-2: Findings from an African Birth Cohort

Antibodies to seasonal human-coronaviruses (sHCoV) may cross-protect against SARS-CoV-2. We investigated antibody responses in biobanked serum obtained before the pandemic from infants with polymerase chain reaction-confirmed sHCoV. Among 141 samples with antibodies to sHCoV, 4 (2.8%) were positive for SARS-CoV-2-S1 and 8 (5.7%) for SARS-CoV-2-S2. Antibodies to sHCoV rarely cross-react with SARS-CoV-2 antigens and are unlikely to account for mild pediatric illness

The challenges of analyzing behavioral response study data : an overview of the MOCHA (Multi-study OCean acoustics Human effects Analysis) project

Date of Acceptance:This paper describes the MOCHA project which aims to develop novel approaches for the analysis of data collected during Behavioral Response Studies (BRSs). BRSs are experiments aimed at directly quantifying the effects of controlled dosages of natural or anthropogenic stimuli (typically sound) on marine mammal behavior. These experiments typically result in low sample size, relative to variability, and so we are looking at a number of studies in combination to maximize the gain from each one. We describe a suite of analytical tools applied to BRS data on beaked whales, including a simulation study aimed at informing future experimental design.Postprin

Structures of SALSA/DMBT1 SRCR domains reveal the conserved ligand-binding mechanism of the ancient SRCR fold

The scavenger receptor cysteine-rich (SRCR) family of proteins comprises more than 20 membrane-associated and secreted molecules. Characterised by the presence of one or more copies of the similar to 110 amino-acid SRCR domain, this class of proteins have widespread functions as antimicrobial molecules, scavenger receptors, and signalling receptors. Despite the high level of structural conservation of SRCR domains, no unifying mechanism for ligand interaction has been described. The SRCR protein SALSA, also known as DMBT1/gp340, is a key player in mucosal immunology. Based on detailed structural data of SALSA SRCR domains 1 and 8, we here reveal a novel universal ligand-binding mechanism for SALSA ligands. The binding interface incorporates a dual cation-binding site, which is highly conserved across the SRCR superfamily. Along with the well-described cation dependency on most SRCR domain-ligand interactions, our data suggest that the binding mechanism described for the SALSA SRCR domains is applicable to all SRCR domains. We thus propose to have identified in SALSA a conserved functional mechanism for the SRCR class of proteins