Miracle-dz/UniFAR-FTUs huggingface dataset:
On the Picard group scheme of the moduli stack of stable pointed curves

The aim of the present paper is to study the (abstract) Picard group and the Picard group scheme of the moduli stack of stable pointed curves over an arbitrary scheme. As a byproduct, we compute the Picard groups of the moduli stack of stable or smooth pointed curves over a field of characteristic different from two.
Detecting Adverse Drug Reactions from Twitter through Domain-Specific Preprocessing and BERT Ensembling

The automation of adverse drug reaction (ADR) detection in social media would revolutionize the practice of pharmacovigilance, supporting drug regulators, the pharmaceutical industry and the general public in ensuring the safety of the drugs prescribed in daily practice. Following from the published proceedings of the Social Media Mining for Health (SMM4H) Applications Workshop & Shared Task in August 2019, we aimed to develop a deep learning model to classify ADRs within Twitter tweets that contain drug mentions. Our approach involved fine-tuning $BERT_{LARGE}$ and two domain-specific BERT implementations, $BioBERT$ and $Bio + clinicalBERT$, applying a domain-specific preprocessor, and developing a max-prediction ensembling approach. Our final model resulted in state-of-the-art performance on both $F_1$-score (0.6681) and recall (0.7700) outperforming all models submitted in SMM4H 2019 and during post-evaluation to date.
Diet of the otter Lutra lutra in an almost pristine Portuguese river: seasonality and analysis of fish prey through scale and vertebrae keys and length relationships

Abstract The seasonal diet and size of fish prey of the otter Lutra lutra were studied in an almost pristine river of North Portugal (Paiva river) through the analysis of spraints collected during 1 year. To identify Iberian freshwater fish species (Salmo trutta, Micropterus salmoides, Lepomis gibbosus, Luciobarbus bocagei, Cyprinus carpio, Carassius auratus, Pseudochondrostoma polylepis, Achondrostoma arcasii, and Iberocypris alburnoides) consumed by the otter keys based on scales and vertebrae were first developed and tested. Both keys allowed identification of all fish species, although three Cyprinidae species could not be discriminated (P. polylepis, A. arcasii, and I. alburnoides). Regression equations were calculated to estimate the dimensions of preyed fish. Highly significant linear relationships were obtained for the standard length versus vertebrae measurements, for all fish species, except for C. carpio. Fish was the predominant prey category in autumn and winter, but the otter also preyed on amphibians, reptiles, mammals, and birds, particularly during spring and summer. In general, the otter consumed high proportions of small size fish (3–12 cm for the three indiscriminate Cyprinidae, 3–9 cm for C. carpio, and 6–12 cm for S. trutta).
Cerebral hemodynamic monitoring of Parkinson’s disease patients with orthostatic intolerance during head-up tilt test

Abstract. Significance: Monitoring of cerebral perfusion rather than blood pressure changes during a head-up tilt test (HUTT) is proposed to understand the pathophysiological effect of orthostatic intolerance (OI), including orthostatic hypotension (OH), in Parkinson’s disease (PD) patients. Aim: We aim to characterize and distinguish the cerebral perfusion response to a HUTT for healthy controls (HCs) and PD patients with OI symptoms. Approach: Thirty-nine PD patients with OI symptoms [10 PD patients with OH (PD-OH) and 29 PD patients with normal HUTT results (PD-NOR)], along with seven HCs participated. A 108-channel diffuse optical tomography (DOT) system was used to reconstruct prefrontal oxyhemoglobin (HbO), deoxyhemoglobin (Hb), and total hemoglobin (HbT) changes during dynamic tilt (from supine to 70-deg tilt) and static tilt (remained tilted at 70 deg). Results: HCs showed rapid recovery of cerebral perfusion in the early stages of static tilt. PD-OH patients showed decreasing HbO and HbT during dynamic tilt, continuing into the static tilt period. The rate of HbO change from dynamic tilt to static tilt is the distinguishing feature between HCs and PD-OH patients. Accordingly, PD-NOR patients were subgrouped based on positive-rate and negative-rate of HbO change. PD patients with a negative rate of HbO change were more likely to report severe OI symptoms in the COMPASS questionnaire. Conclusions: Our findings showcase the usability of DOT for sensitive detection and quantification of autonomic dysfunction in PD patients with OI symptoms, even those with normal HUTT results.
Influence of Osmolality and Acidity on Fertilized Eggs and Larvae of Olive Flounder (Paralichthys olivaceus)

Abstract The pH of water is one of the main environmental factors exerting selective pressure on marine and freshwater organisms. Here, we focus on the influence of pH on an organism’s ability to maintain homeostasis and investigate the effects of acidification on immunity-related genes and osmotic pressure during early development of the olive flounder, Paralichthys olivaceus. The aim of our study was to determine the influence of various pH levels on the fertilized eggs and larvae of P. olivaceus. Gametes of P. olivaceus were artificially introduced and the resulting fertilized eggs were incubated at pH 4.0 (low), 6.0, and 8.0 (equivalent to natural sea water; control). We found that all eggs sank from the water column at pH 4.0. After 38 h, these eggs showed slow development. Hatching occurred more slowly at pH 4.0 and 6.0 and did not occur at all at pH 4.0. Result of gene expression, caspase and galectin-1 were expressed from the blastula to pre-hatch stages, with the exception of the two-cell stage. HSP 70 was also steadily expressed at all pH levels over the five days. The osmolality of fertilized eggs differed marginally at each stage and across pH levels. So, this results demonstrates that low pH level is detrimental to P. olivaceus fertilized eggs.
High Prevalence of Multidrug-Resistant and Extended-Spectrum β-Lactamase-Producing Enterobacteriaceae: A Cross-Sectional Study at Arsho Advanced Medical Laboratory, Addis Ababa, Ethiopia

Background Multidrug-resistant Enterobacteriaceae particularly extended-spectrum beta-lactamase producers have become a major public health threat. Despite efforts to limit their spread, rates of multidrug-resistance members of the Enterobacteriaceae continue to increase throughout the world causing increased morbidity and mortality and raised costs for medical care. Objective The aim of this study was to determine the prevalence of multidrug resistance and extended-spectrum β-lactamase-producing Enterobacteriaceae. Methods Four hundred forty Enterobacteriaceae isolates from outpatients referred to Arsho Advanced Medical Laboratory were identified and assessed for their antimicrobial resistance pattern by using the automated VITEK 2 compact system. Extended-spectrum β-lactamase production was determined by the VITEK 2 automated compact system using the extended-spectrum β-lactamase test panel as per the instruction of the manufacturer. Results The overall resistance rates of Enterobacteriaceae against cephalosporins, aminoglycosides, and fluoroquinolones were high. Nitrofurantoin with a resistance rate of 14.3% and piperacillin/tazobactam combination with a resistance rate of 17.3% were better active against this group of Gram-negative bacteria. Out of 440 isolates of Enterobacteriaceae, 42.1% were multidrug-resistant of which 34.3% and 8.95% were extensively drug-resistant and pan-drug resistant, respectively. Among 185 multidrug-resistant Enterobacteriaceae, 63.9% of the isolates produced extended-spectrum β-lactamase of which 75.4%, 19.5%, 1.7%, 2.5%, and 0.8% were E. coli, K. pneumoniae, C. freundii, E. cloacae, and P. mirabilis, respectively. Conclusions The present study demonstrated high prevalence rates of multidrug-resistant and extended-spectrum-beta-lactamase-producing Enterobacteriaceae. In order to combat these problems, infection control strategy and proper antibiotic policies should be formulated.
Parasitic fungus mediates change in nitrogen‐exposed boreal forest vegetation

1 Experimental additions of N to an old‐growth boreal forest resulted in elevated levels of free amino acids in leaves of the dominant dwarf‐shrub Vaccinium myrtillus and increased attack from a parasitic fungus, Valdensia heterodoxa. 2 Glutamine additions to the leaf surface of V. myrtillus increased disease incidence by an average of almost three times compared to controls and suggested a causal connection between amino acid availability and fungal infection. 3 Increased abundance of the grass Deschampsia flexuosa followed N addition but infection by the parasitic fungus, which causes premature leaf loss of its primary host V. myrtillus, explained four times as much of the variation in grass abundance as N did. 4 Nitrogen deposition can have marked effects on vegetation by affecting the interaction between dominant hosts and their natural enemies. A shift in abundance of dominating species occurred within 3 years of treatment, with nitrogen loads similar to those deposited over large areas in Europe and North America, suggesting that such effects may by important for the vegetation of large areas subjected to low levels of nitrogen input.
Global Transcriptional Profiling Reveals Novel Autocrine Functions of Interleukin 6 in Human Vascular Endothelial Cells

Background Interleukin 6 (IL6) is a multifunctional cytokine produced by various cells, including vascular endothelial cells. IL6 has both pro- and non-/anti-inflammatory functions, and the response to IL6 is dependent on whether it acts via the membrane-bound IL6 receptor α (IL6Rα) (classic signaling) or the soluble form of the receptor (transsignaling). As human endothelial cells produce IL6 and at the same time express IL6Rα, we hypothesized that IL6 may have autocrine functions. Methods Knockdown of IL6 in cultured human endothelial cells was performed using siRNA. Knockdown efficiency was evaluated using ELISA. RNA sequencing was employed to characterize the transcriptional consequence of IL6 knockdown, and Ingenuity Pathway Analysis was used to further explore the functional roles of IL6. Results Knockdown of IL6 in cultured endothelial cells resulted in a 84-92% reduction in the release of IL6. Knockdown of IL6 resulted in dramatic changes in transcriptional pattern; knockdown of IL6 in the absence of soluble IL6Rα (sIL6Rα) led to differential regulation of 1915 genes, and knockdown of IL6 in the presence of sIL6Rα led to differential regulation of 1967 genes (fold change 1.5, false discovery rate < 0.05). Pathway analysis revealed that the autocrine functions of IL6 in human endothelial cells are mainly related to basal cellular functions such as regulation of cell cycle, signaling, and cellular movement. Furthermore, we found that knockdown of IL6 activates functions related to adhesion, binding, and interaction of endothelial cells, which seem to be mediated mainly via STAT3. Conclusion In this study, a large number of novel genes that are under autocrine regulation by IL6 in human endothelial cells were identified. Overall, our data indicate that IL6 acts in an autocrine manner to regulate basal cellular functions, such as cell cycle regulation, signaling, and cellular movement, and suggests that the autocrine functions of IL6 in human endothelial cells are mediated via IL6 classic signaling.
Conditioned medium from M2b macrophages modulates the proliferation, migration, and apoptosis of pulmonary artery smooth muscle cells by deregulating the PI3K/Akt/FoxO3a pathway

Background Immunity and inflammation are considered to be central features of pulmonary artery hypertension (PAH), in which macrophages are one of the main components of inflammatory cell infiltration around the pulmonary artery. M2b macrophages, which are different from M1 and M2 macrophages, are believed to have immunomodulatory activities and produce little fibrosis. The purpose of this study was to explore the effect of M2b macrophages on pulmonary artery smooth muscle cells (PASMCs) derived from monocrotaline-induced PAH rats. Methods PASMCs were cultured in serum-free medium, the supernatant of M0 macrophages, or the supernatant of M2b macrophages for 24 hours. Then cell proliferation was assessed by cell counting kit-8 and cell migration ability was detected by wound healing and transwell assays. The apoptosis rate of cells was determined by TUNEL staining and annexin V-PE/7-ADD staining. Western blot was used to detect the expression of Bcl-2 family proteins, cleaved caspase-9 and PI3K/Akt/FoxO3a pathway. LY294002 (a specific inhibitor of PI3K) was used to investigate its effect on PASMCs and its relationship with M2b macrophages. Results Conditioned medium from M2b macrophages significantly inhibited the proliferation and migration of PASMCs compared with the control group and M0 macrophage group. Furthermore, conditioned medium from M2b macrophages promote PASMC apoptosis and increased the expression of pro-apoptotic proteins Bax and cleaved caspase-9, inhibited the expression of anti-apoptotic proteins Bcl-2 and Bcl-xl. Finally, conditioned medium from M2b macrophages inhibited the PI3K/Akt/FoxO3a pathway. Inhibition of PI3K/Akt/FoxO3a pathway also significantly inhibit the proliferation, migration, and apoptosis resistance of PASMCs. Conclusion Conditioned medium from M2b macrophages can inhibit the proliferation, migration, and apoptosis resistance of PASMCs, which may be at least partially by deregulating the PI3K/Akt/FoxO3a pathway.
Menstrual Hygiene Management and School Absenteeism among Adolescents in Ghana: Results from a School-Based Cross-Sectional Study in a Rural Community

The study aimed to deepen our understanding of the menstrual hygiene management (MHM) of adolescents and the influence of menstruation on school absenteeism. We employed a school-based cross-sectional design in five Junior High Schools combining both quantitative and qualitative data collection methods. A questionnaire was used to collect quantitative data from 250 schoolgirls, and key informant interviews were conducted with a teacher in each of the five schools. We performed logistic regression analysis to provide crude and adjusted effect estimates and 95% confidence intervals. About fifty percent of the girls were engaged in good MHM, and approximately forty percent of them reported menstrual-related school absenteeism. We did not find evidence (p = 0.858) of association between MHM and menstrual-related school absenteeism. However, after controlling for the effect of other factors, we found evidence that the age of the schoolgirls, their father's occupation, and the receipt of allowance for menstrual care products were associated with MHM. When compared to those aged 17 to 19, those aged 10 to 13 years had 0.72 (95% CI 0.21, 2.44) decreased odds of poor MHM while those aged 14 to 16 had almost 3-fold increased odds (95% CI 1.49, 4.55) of poor MHM. The adolescents whose fathers were farmers had 0.42 (95% CI 0.21, 0.82) decreased odds of poor MHM while those whose fathers were unemployed had 0.24 (95% CI 0.10, 0.61) decreased odds of poor MHM. We found that girls who did not receive regular allowance for menstrual care products had nearly 2-fold increased odds (95% CI 1.06, 3.09) of poor MHM compared to those who received allowance for menstrual care products. Menstrual pain (82.2%), fear of staining clothing (70.3%), fear of being teased (70.3%), nonavailability of sanitary pad (63.4%), and lack of private place to manage period at school (60.4%) were the common reasons cited for menstrual-related school absenteeism.
Opinion: No

Urinary incontinence is a highly prevalent condition affecting up to half of all women, most of whom have a component of stress urinary incontinence (SUI) (1). Approximately 10% of these women will undergo surgical treatment. While for decades the standard of care was the Burch colposuspension or autologous fascial pubovaginal sling, rapid advances in the development of augmented polypropylene products (APM) for medical use led to the widespread adoption of synthetic midurethral slings (SMUS) for the treatment of SUI. SMUS are now the standard of care and the most commonly performed procedure for the treatment of SUI worldwide. Multiple level one randomized trials have demonstrated equivalent outcomes for SMUS to Burch colposuspension and autologous fascial slings (2). In addition to their ease of use, SMUS provide faster operative times, reduced post-operative morbidity, faster resumption of normal activity, and reduced cost (3). Patient satisfaction with the procedures has been quite high (4) with comparable durability to the older techniques. As seen for slings, the adoption of APM products for the treatment of pelvic organ prolapse (POP) gained rapid acceptance due to perceived safety, efficacy, and durability. With increasing use, however, a growing number of severe complications came to light, prompting the FDA to release its first black box warning in 2008 (5). Such concerns continue to grow; after an expanded warning reissued in 2011 (6), the past year has seen the FDA upgrade of transvaginal mesh for the treatment of POP to a class III (“high-risk”) device (7). Transvaginally-placed mesh used in the treatment of incontinence, however, remains exempt from these warnings, despite the fact that more than half of the tens of thousands of lawsuits brought against mesh manufacturers have been from patients implanted with retropubic or transobturator SMUS (8). Of the nearly one thousand patients seen at our center over the past five years for transvaginal mesh complications, 77% (n=747) were related to SMUS placement. The last FDA safety communication from 2011 notes that almost half of the Medical Device Reports (MDRs) for urogynecological meshes in the Manufacturer and User Device Experience (MAUDE) database were associated DIffERENCE Of OpINION
Fibrinogen as a Prognostic Predictor in Pediatric Patients with Sepsis: A Database Study

Background Systemic inflammatory response and vascular endothelial cell injury during sepsis lead to coagulopathy. Fibrinogen has been reported as a biomarker of coagulopathy; however, the prognostic value of fibrinogen remains undefined in pediatric patients with sepsis. The aim of this study was to assess fibrinogen level on pediatric intensive care unit (PICU) admission and to elucidate the relationship between fibrinogen levels and in-hospital mortality in children with sepsis. Methods We conducted a database study. The sepsis database was divided into a training set (between July 2014 and June 2018) and a validation set (from July 2018 to June 2019). The clinical and laboratory parameters on PICU admission and in-hospital mortality in sepsis database were collected and analyzed. Results A total of 819 pediatric patients were included from database as a training set. The overall hospital mortality was 12.1% (99/819). The fibrinogen levels were significantly lower in nonsurvivors than survivors. Multivariate logistic regression analysis showed significant associations between fibrinogen, lactate level, and hospital mortality (fibrinogen: odds ratio (OR), 0.767 (95% CI: 0.628-0.937), P = 0.009; lactate: OR, 1.346 (95% CI: 1.217-1.489), P < 0.001, respectively), which was confirmed in a validation set (0.616 [95% CI: 0.457-0.829], P = 0.001; 1.397 [95% CI: 1.245-1.569], P < 0.001, respectively). The hospital mortality of patients with fibrinogen < 1 g/L, 1-2 g/L, 2-3 g/L, or over 3 g/L displayed an obvious difference (62.5% vs. 27.66% vs. 18.1% vs. 4.2%, respectively). Furthermore, the area under the receiver operating characteristic curve (ROC) for fibrinogen in predicting hospital mortality was 0.780 (95% CI: 0.711-0.850) in pediatric patients with sepsis. Conclusions Fibrinogen is a valuable prognostic biomarker for pediatric sepsis. The level of fibrinogen lower than 2 g/L on PICU admission is closely related to the greater risk of hospital death in pediatric sepsis.
Trade-off between dispersal and reproduction of a seed-borne nematode, Aphelenchoides besseyi, parasitic on rice plants

The effect of nematode infestation on dispersal and survival of both host plant and parasitic nematode was investigated experimentally using rice plants, Oryza sativa L. and Aphelenchoides besseyi Christie, a seed-borne ectoparasite. Nematode-inoculated plants produced a greater proportion of light seeds floating on water than non-inoculated plants. Nematode mortality was greater in light seeds than in heavy seeds. In the case of light seeds, the mean degree of seed swelling increased as the number of nematodes harboured increased, whereas it was constant with increasing numbers of nematodes for the intermediate and heavy seed groups. A smaller proportion of light seeds germinated and these took longer for seminal roots to protrude than from heavy seeds, irrespective of whether they derived from nematode-inoculated or non-inoculated plants. These results indicate a trade-off for rice seed specific gravity between dispersal and competition of rice seeds and another trade-off between dispersal and reproduction of nematodes harboured in the seed.
MASS SPECTRAL INVESTIGATIONS ON MICROORGANISMS

Bacterial cells undergo lysis readily, when suspended in mild aqueous acids, and release the cellular proteins along with other biomolecules. Molecular masses of the protein biomarkers released in-situ from individual intact bacterial cells could be directly measured by mass spectrometry. Limited sample clean up may be required at times, prior to mass spectral analysis, to remove any ionizable impurities such as salts, buffers and deergents. The marker proteins specific for individual genus, species and strains were determined by the comparison of the biomarkers measured for several closely related organisms. Even though there is a probability of over 4000 cellular proteins expressed in any single bacterial cell, only a small fraction of the projected marker proteins are identified consistently during the process. This could be due to the variation in the ionization properties of the proteins and the limited energy available to prompt their ionization. Variation in the sample processing and culture conditions had little effect in the marker proteins observed during the process. This experimental procedure enables the distinction of gram positive as well as gram negative cellular pathogens and their corresponding non-pathogenic counterparts. The identity of few bacterial cells present in unknown samples can be easily, rapidly and accurately established by adopting a procedure involving simple sample processing followed by direct mass spectral analysis and data processing. Thus, an uncomplicated approach has been developed to resolve a complex problem involving cellular pathogens. This method has enormous application potential in the rapid identification and subsequent prevention of any potential health hazard caused by the pathogenic bacteria, either under natural or induced conditions. There is a great potential for the total automation of the entire process in the future for simpler but more effective unattended operations in the laboratory as well as in the field.
Systematics and distribution of the Acanthodactylus pardalis group (Lacertidae) in Egypt and Israel

Abstract Examination of 385 specimens of the Acanthodactylus pardalis group from eastern Libya, Egypt and Israel confirmed the occurrence of two allopatric species in this area: Acanthodactylus pardalis (Lichtenstein, 1823) distributed in Egypt And eastern Libya and a hitherto undescribed species endemic to the Negev (Israel). The species differ most markedly in body size, hemipenial structure, colouration and details of sexual dichromatism. Other significant differences involve scalation and biometrics. A simple method for artefact-free use of discriminant analysis in multivariate classification is presented. Redescription of A. pardalis (Lichtenstein, 1823), description of a new species Acanthodactylus beershebensis sp.n. and corrected geographical ranges of the two species are provided. Both species, each endemic to a small area, appear to be markedly endangered by habitat destruction.