Miracle-dz/UniFAR-FTUs huggingface dataset:
Commonsense Causal Reasoning between Short Texts

Commonsense causal reasoning is the process of capturing and understanding the causal dependencies amongst events and actions. Such events and actions can be expressed in terms, phrases or sentences in natural language text. Therefore, one possible way of obtaining causal knowledge is by extracting causal relations between terms or phrases from a large text corpus. However, causal relations in text are sparse, ambiguous, and sometimes implicit, and thus difficult to obtain. This paper attacks the problem of commonsense causality reasoning between short texts (phrases and sentences) using a data driven approach. We propose a framework that automatically harvests a network of causal-effect terms from a large web corpus. Backed by this network, we propose a novel and effective metric to properly model the causality strength between terms. We show these signals can be aggregated for causality reasonings between short texts, including sentences and phrases. In particular, our approach outperforms all previously reported results in the standard SE-MEVAL COPA task by substantial margins.
Arterial Stiffness in Patients With Renal Transplantation; Associations With Co-morbid Conditions, Evolution, and Prognostic Importance for Cardiovascular and Renal Outcomes

Patients with chronic kidney disease (CKD), particularly those with end-stage renal disease (ESRD), are at increased risk of cardiovascular events and mortality. The spectrum of arterial remodeling in CKD and ESRD includes atheromatosis of middle-sized conduit arteries and, most importantly, the process of arteriosclerosis, characterized by increased arterial stiffness of aorta and the large arteries. Longitudinal studies showed that arterial stiffness and abnormal wave reflections are independent cardiovascular risk factors in several populations, including patients with CKD and ESRD. Kidney transplantation is the treatment of choice for patients with ESRD, associated with improved survival and better quality of life in relation to hemodialysis or peritoneal dialysis. However, cardiovascular mortality in transplanted patients remains much higher than that in general population, a finding that is at least partly attributed to adverse lesions in the vascular tree of these patients, generated during the progression of CKD, which do not fully reverse after renal transplantation. This article attempts to provide an overview of the field of arterial stiffness in renal transplantation, discussing in detail available studies on the degree and the associations of arterial stiffness with other co-morbidities in renal transplant recipients, the prognostic significance of arterial stiffness for cardiovascular events, renal events and mortality in these individuals, as well as studies examining the changes in arterial stiffness following renal transplantation.
Suo Quan Wan Protects Mouse From Early Diabetic Bladder Dysfunction by Mediating Motor Protein Myosin Va and Transporter Protein SLC17A9

Objective: To investigate the effects of Suo Quan Wan (SQW), a traditional Chinese herbal formula, on the overactive bladder (OAB) of type 2 diabetes mellitus (T2DM) mouse models, particularly on its function of mediating the gene and protein expression levels of myosin Va and SLC17A9. Materials and Methods: After 4 weeks high-fat diet (HFD) feeding, C57BL/6J mice were injected with streptozotocin (100 mg/kg) for four times. After 3 weeks, the diabetic mice were treated with SQW for another 3 weeks. Voided stain on paper assay, fasting blood glucose (FBG) test, and oral glucose tolerance test (OGTT) were conducted. Urodynamic test, tension test [α,β-methylene ATP, electrical-field stimulation (EFS), KCl, and carbachol] and histomorphometry were also performed. Western blot analysis and qPCR assays were used to quantify the expression levels of myosin Va and SLC17A9. Results: The diabetic mice exhibited decreased weight but increased water intake, urine production, FBG, and OGTT. No significant changes were observed after 3 weeks SQW treatment. Urodynamic test indicated that the non-voiding contraction (NVC) frequency, maximum bladder capacity (MBC), residual volume (RV), and bladder compliance (BC) were remarkably increased in the diabetic mice, whereas the voided efficiency (VE) was decreased as a feature of overactivity. Compared with the model mice, SQW treatment significantly improved urodynamic urination with decreased NVC, MBC, RV, and BC, and increased VE. Histomorphometry results showed that the bladder wall of the diabetic mice thickened, and SQW effectively attenuated the pathological alterations. The contract responses of bladder strips to all stimulators were higher in the DSM strips of diabetic mice, whereas SQW treatment markedly decreased the contraction response for all stimuli. Moreover, the protein and gene expression levels of myosin Va and SLC17A9 were up-regulated in the bladders of diabetic mice, but SQW treatment restored such alterations. Conclusion: T2DM mice exhibited the early phase of diabetic bladder dysfunction (DBD) characterized by OAB and bladder dysfunction. SQW can improve the bladder storage and micturition of DBD mice by mediating the protein and gene expression levels of myosin Va and SLC17A9 in the bladder, instead of improving the blood glucose level.
SGI-4 in Monophasic Salmonella Typhimurium ST34 Is a Novel ICE That Enhances Resistance to Copper

A multi drug resistant (MDR) Salmonella enterica 4,[5],12:i-of sequence type 34 (monophasic S. Typhimurium ST34) is a current pandemic clone associated with livestock and numerous outbreaks in the human population. A large genomic island, termed SGI-4, is present in the monophasic Typhimurium ST34 clade and absent from other S. Typhimurium strains. SGI-4 consists of 78 open reading frames including sil and pco genes previously implicated in resistance to copper and silver, and multiple genes predicted to be involved in mobilisation and transfer by conjugation. SGI-4 was excised from the chromosome, circularised and transferred to recipient strains of S. Typhimurium at a frequency influenced by stress and induced by mitomycin C and oxygen tension. The presence of SGI-4 was associated with increased resistance to copper, particularly but not exclusively under anaerobic conditions. The presence of silCBA genes, predicted to encode an RND family efflux pump that transports copper from the periplasm to the external milieu, was sufficient to impart the observed enhanced resistance to copper. The presence of silCBA genes resulted in the absence of copper-dependent induction of a multicopper oxidase system encoded by pco genes, also present on SGI-4, suggesting that the system effectively limits the copper availability in the periplasm. The presence of silCBA genes did not affect SodCI-dependent macrophage survival.
Abundance of HPV L1 Intra-Genotype Variants With Capsid Epitopic Modifications Found Within Low- and High-Grade Pap Smears With Potential Implications for Vaccinology

Background: The aim of this study was to explore the Human Papillomavirus (HPV) genotype composition and intra-genotype variants within individual samples of low- and high-grade cervical cytology by deep sequencing. Clinical, cytological, sequencing, and functional/structural data were forged into an integrated variant profiling pipeline for the detection of potentially vaccine-resistant genotypes or variants. Methods: Low- and high-grade intraepithelial lesion (LSIL and HSIL) cytology samples with +HPV were subjected to amplicon (L1 gene fragment) sequencing by dideoxy (Sanger) and deep methods. Taxonomic, abundance, diversity, and phylogenetic analyses were conducted to determine HPV genotypes/sub-lineages, relative abundance, species diversity and phylogenetic distances within and between samples. Variant detection and functional analysis of translated L1 amino acid sequences determined structural variations of interest. Results: Pure and mixed HPV infections were common among LSIL (n = 6) and HSIL (n = 6) samples. Taxonomic profiling revealed loss of species richness and gain of dominance by carcinogenic genotypes in HSIL samples. Phylogenetic analysis showed excellent correlation between HPV-type specific genetic distances and carcinogenic potential. For combined LSIL/HSIL samples (n = 12), 11 HPV genotypes and 417 mutations were detected: 375 single-nucleotide variants (SNV), 29 insertion/deletion (indel), 12 multi-nucleotide variants (MNV), and 1 replacement variant. The proportion of nonsynonymous mutations was lower for HSIL (0.38) than for LSIL samples (0.51) (p < 0.05). HPV variant analysis pinpointed nucleotide-level mutations and amino acid-level structural modifications. Conclusion: HPV L1 intra-host and intra-genotype variants are abundant in LSIL and HSIL samples with potential functional/structural consequences. An integrated multi-omics approach to variant analysis may provide a sensitive and practical means of detecting changes in HPV evolution and dynamics within individuals or populations.
Investigating the Potential Role of Ecological Validity on Change-Detection Memory Tasks and Distractor Processing in Younger and Older Adults

Cognitive performance is often found to be lower in older adults, especially when the task requires memory, executive functions, or selective attention. But this alleged deterioration may have been overestimated in the past due to ecologically invalid testing. To verify this possible misjudgment here we compared age-related memory performance in a typical, abstract computer task to a paper-pencil test with a real-world map and to an even more realistic task that took place in a real room with everyday objects. Retention and response intervals differed between the tasks as they had to be adjusted to the different settings. Twenty-seven younger (19–29 years old) and twenty-three older participants (61–77 years old) took part in the study. As expected younger participants outperformed the older ones in the computer task. However, although older adults’ performance was better in both more realistic tasks, the delta to the young remained the same as in the computer task. Hence, these results do not support the general notion that older adults would profit from more realistic test scenarios. On the other hand, performance in a clinical screening task correlated only with the performance in the real world task suggesting that this task reflected the general cognitive status of participants better than the more abstract tasks. Finally, it was observed that the presence of task-irrelevant distractor items actually helped older adults to improve their performance in the paper pencil task arguing against the assumption of a general age-related impairment of inhibition. In sum, the present results show that age-related changes in memory are neither simply explained by reduced abilities to deal with abstract computer tasks nor by disturbed inhibition processes.
Recent Progress in Synthesis of Glycerol Carbonate and Evaluation of Its Plasticizing Properties

The state of the art on the glycerol carbonate (GC) synthesis has been updated since the last published reviews in 2012, 2013, and 2016. Three types of reactions continue to be studied: glycerolysis of urea, transcarbonation of DMC, DEC, or cyclic carbonates with glycerol and reaction using CO2. Among these different routes, DMC and glycerol were selected as the raw materials for the GC synthesis in this work since the transcarbonation from these green reagents leads to high yields and selectivities, using mild conditions including a less energy consuming GC separation process. Catalytic conditions using Na2CO3 seem to be a good compromise to achieve a high yield of GC, leading to an easier purification step without GC distillation. Mild temperatures for the reaction (73–78°C) as well as a low waste amount confirmed by the E-factor calculation, are in favor of controlled costs. Plasticizing properties of synthesized GC were compared to the behaviors of a commercial plasticizer and natural dialkyl carbonates, for a colorless nail polish formulation. The resulting films subjected to mechanical and thermal stresses (DMA and Persoz pendulum) showed the high plasticizing effect of GC toward nitrocellulose based films, probably due to hydrogen bond interactions between GC and nitrocellulose. The GC efficiency gives the possibility to decrease the content of the plasticizer in the formulation. Glycerol carbonate can be thus considered as a biobased ingredient abiding by the green chemistry concepts, and safe enough to be used in an ecodesigned nail polish formulation.
Nutritional Security in Drylands: Fast-Track Intra-Population Genetic Improvement for Grain Iron and Zinc Densities in Pearl Millet

Considering the pervasive malnutrition caused by micronutrients, particularly those arising from the deficiencies of iron (Fe) and zinc (Zn), the primary focus of research in pearl millet is on biofortifying the crop with these two minerals. Pearl millet is a highly cross-pollinated crop where open-pollinated varieties (OPVs) and hybrids are the two distinct cultivar types. In view of the severe deficiency of Fe and Zn in Asia and Africa where this crop is widely consumed, crop biofortification holds a key role in attenuating this crisis. The present study included three OPVs previously identified for high-Fe and Zn density to assess the magnitude of variability and test the effectiveness of intra-population improvement as a fast-track selection approach. Large variability among the S1 progenies was observed in all three OPVs, with the Fe varying from 31 to 143 mg kg−1 and Zn varying from 35 to 82 mg kg−1. Progeny selection was effective for Fe density in all three OPVs, with up to 21% selection response for Fe density, and up to 10% selection response in two OPVs for Zn density, for which selection was made as an associated trait. Selection for Fe density had no adverse effect on grain yield and other agronomic traits. These results suggest that effective selection for Fe density in OPVs and composites can be made for these micronutrients and selection for Fe density is highly associated with the improvement of Zn density as well. These genetic changes can be achieved without compromising on grain yield and agronomic traits. Such improved versions could serve as essentially-derived varieties for immediate cultivation and also serve as potential sources for the development of parental lines of hybrids with elevated levels of Fe and Zn density. Therefore, fast-track breeding is essential to produce biofortified breeding pipelines to address food-cum-nutritional security.
Annotation of subtitle paraphrases using a new web tool

This paper analyzes the manual annotation effort carried out to produce Opusparcus, the Open Subtitles Paraphrase Corpus for six European languages. Within the scope of the project, a new web-based annotation tool was created. We discuss the design choices behind the tool as well as the setup of the annotation task. We also evaluate the annotations obtained. Two independent annotators needed to decide to what extent two sentences approximately meant the same thing. The sentences originate from subtitles from movies and TV shows, which constitutes an interesting genre of mostly colloquial language. Inter-annotator agreement was found to be on par with a well-known previous paraphrase resource from the news domain, the Microsoft Research Paraphrase Corpus (MSRPC). Our annotation tool is open source. The tool can be used for closed projects with restricted access and controlled user authentification as well as open crowdsourced projects, in which anyone can participate and user identification takes place based on IP addresses.
Exogenous Melatonin Alleviates Oxidative Damages and Protects Photosystem II in Maize Seedlings Under Drought Stress

The protective role of melatonin in plants against various abiotic stresses have been widely demonstrated, but poorly explored in organ-specific responses and the transmission of melatonin signals across organs. In this study, the effects of melatonin with the root-irrigation method and the leaf-spraying method on the antioxidant system and photosynthetic machinery in maize seedlings under drought stress were investigated. The results showed that drought stress led to the rise in reactive oxygen species (ROS), severe cell death, and degradation of D1 protein, which were mitigated by the melatonin application. The application of melatonin improved the photosynthetic activities and alleviated the oxidative damages of maize seedlings under the drought stress. Compared with the leaf-spraying method, the root-irrigation method was more effective on enhancing drought tolerance. Moreover, maize seedlings made organ-specific physiological responses to the drought stress, and the physiological effects of melatonin varied with the dosage, application methods and plant organs. The signals of exogenous melatonin received by roots could affect the stress responses of leaves, and the melatonin signals perceived by leaves also led to changes in physiological metabolisms in roots under the stress. Consequently, the whole seedlings coordinated the different parts and made a systemic acclimation against the drought stress. Melatonin as a protective agent against abiotic stresses has a potential application prospect in the agricultural industry.
Applications of Microbiome Analyses in Alternative Poultry Broiler Production Systems

While most of the focus on poultry microbiome research has been directed toward conventional poultry production, there is increasing interest in characterizing microbial populations originating from alternative or non-conventional poultry production. This is in part due to the growing general popularity in locally produced foods and more specifically the attractiveness of free-range or pasture raised poultry. Most of the focus of microbiome characterization in pasture flock birds has been on live bird production, primarily on the gastrointestinal tract. Interest in environmental impacts on production responses and management strategies have been key factors for comparative microbiome studies. This has important ramifications since these birds are not only raised under different conditions, but the grower cycle can be longer and in some cases slower growing breeds used. The impact of different feed additives is also of interest with some microbiome-based studies having examined the effect of feeding these additives to birds grown under pasture flock conditions. In the future, microbiome research approaches offer unique opportunities to develop better live bird management strategies and design optimal feed additive approaches for pasture flock poultry production systems.
Neuroimaging and Neuropsychological Studies in Sports-Related Concussions in Adolescents: Current State and Future Directions

Sports-related concussion, is a serious neurological concern that many adolescent athletes will face during their athletic careers. In some instances, the effects of sports-related head injury are long-lasting. Due to their still-developing brains, adolescents appear to be more vulnerable to long-term repercussions of these injuries. As all sports-related concussions are mild traumatic brain injuries (mTBI), this review we will examine the pathophysiology of mTBI, its acute effects and long-term risks from sustaining injury, and current and needed advancements in the areas of neuropsychological testing, accelerometer telemetry, and neuroimaging. Current methods do not adequately measure the extent of an injury that an athlete may sustain, potentially putting these athletes at a much greater risk for long-term effects. To better understand mTBI, neuropsychological testing best practices need to be developed, standardized, and implemented based on sound scientific evidence in order to be propagated as clinical guidelines. Wearable accelerometers can be used to assess thresholds for mTBI and cumulative effects of concussive and subconcussive injuries. Novel neuroimaging methods that can detect anatomical abnormalities and functional deficits with more specificity and sensitivity should be developed. Young athletes are particularly a vulnerable population warranting immediate and significant research aimed at protecting them against sports related injury and mitigating their long-term deficits.
IgA-Targeted Lactobacillus jensenii Modulated Gut Barrier and Microbiota in High-Fat Diet-Fed Mice

IgA-coated Lactobacillus live in the mucous layer of the human or mammalian intestine in close proximity to epithelial cells. They act as potential probiotics for functional food development, but their physiological regulation has not yet been studied. We isolated IgA-targeted (Lactobacillus jensenii IgA21) and lumen lactic acid bacterial strains (Pediococcus acidilactici FS1) from the fecal microbiota of a healthy woman. C57BL/6 mice were fed a normal (CON) or high fat diet (HFD) for 6 weeks and then treated with IgA21 or FS1 for 4 weeks. HFD caused dyslipidemia, mucosal barrier damage, and intestinal microbiota abnormalities. Only IgA21 significantly inhibited dyslipidemia and gut barrier damage. This was related to significant up-regulation of mucin-2, PIgR mRNA expression, and colonic butyrate production (P < 0.05 vs. HFD). Unlike IgA21, FS1 caused a more pronounced gut dybiosis than did HFD, and, in particular, it induced a significant decrease in the Bacteroidales S24-7 group and an increase in Desulfovibrionaceae (P < 0.05 vs. CON). In conclusion, IgA-coated and non-coated lactic acid bacteria of gut have been demonstrated to differentially affect the intestinal barrier and serum lipids. This indicates that IgA-bound bacteria possess the potential to more easily interact with the host gut to regulate homeostasis.
Towards the Automatic Classification of Speech Subjects in the Danish Parliament Corpus

This paper addresses the semi-automatic subject area annotation of the Danish Parliament Corpus 2009-2017 in order to construct a gold standard corpus for automatic classification. The corpus consists of the transcriptions of the speeches in the Danish parliamentary meetings. In our annotation work, we mainly use subject categories proposed by Danish scholars in political sciences. The relevant subjects areas of the speeches have been manually annotated using the titles of the agendas items for the parliamentary meetings and then the subjects areas have been assigned to the corresponding speeches. Some subjects co-occur in the agendas, since they are often debated at the same time. The fact that the same speech can belong to more subject areas is further analysed. Currently, more than 29,000 speeches have been classified using the titles of the agenda items. Different evaluation strategies have been applied. We also describe automatic classification experiments on a subset of the corpus using feature extracted with NLP techniques. The best results (96% F-score) were obtained using features extracted from the agenda items. These results indicate that the gold standard corpus and agenda items can be used for automatically classify parliamentary debates with high accuracy.