Miracle-dz/UniFAR-FTUs huggingface dataset:
Assessing auditory nerve condition by tone decay in deaf subjects with a cochlear implant

Abstract The condition of the auditory nerve is a factor determining hearing performance of cochlear implant (CI) recipients. Abnormal loudness adaptation is associated with poor auditory nerve survival. We examined which stimulus conditions are suitable for tone decay measurements to differentiate between CI recipients with respect to their speech perception. Tone decay was defined here as occurring when the percept disappears before the stimulus stops. We measured the duration of the percept of a 60-s pulse train. Current levels ranged from below threshold up to maximum acceptable loudness, pulse rates from 250 to 5000 pulses/s, and duty cycles (percentages of time the burst of pulses is on) from 10% to 100%. Ten adult CI recipients were included: seven with good and three with poor speech perception. Largest differences among the subjects were found at 5000 pulses/s and 100% duty cycle. The well performing subjects had a continuous percept of the 60-s stimulus within 3 dB above threshold. Two poorly performing subjects showed abnormal loudness adaptation, that is, no continuous percept even at levels greater than 6 dB above threshold. We conclude that abnormal loudness adaptation can be detected via an electric tone decay test using a high pulse rate and 100% duty cycle.
Involvement and Possible Role of Eosinophils in Asthma Exacerbation

Eosinophils are involved in the development of asthma exacerbation. Recent studies have suggested that sputum and blood eosinophil counts are important factors for predicting asthma exacerbation. In severe eosinophilic asthma, anti-interleukin (IL)-5 monoclonal antibody decreases blood eosinophil count and asthma exacerbation frequency. However, even in the absence of IL-5, eosinophilic airway inflammation can be sufficiently maintained by the T helper (Th) 2 network, which comprises a cascade of vascular cell adhesion molecule-1/CC chemokines/eosinophil growth factors, including granulocyte-macrophage colony-stimulating factor (GM-CSF). Periostin, an extracellular matrix protein and a biomarker of the Th2 immune response in asthma, directly activates eosinophils in vitro. A major cause of asthma exacerbation is viral infection, especially rhinovirus (RV) infection. The expression of intercellular adhesion molecule (ICAM)-1, a cellular receptor for the majority of RVs, on epithelial cells is increased after RV infection, and adhesion of eosinophils to ICAM-1 can upregulate the functions of eosinophils. The expressions of cysteinyl leukotrienes (cysLTs) and CXCL10 are upregulated in virus-induced asthma. CysLTs can directly provoke eosinophilic infiltration in vivo and activate eosinophils in vitro. Furthermore, eosinophils express the CXC chemokine receptor 3, and CXCL10 activates eosinophils in vitro. Both eosinophils and neutrophils contribute to the development of severe asthma or asthma exacerbation. IL-8, which is an important chemoattractant for neutrophils, is upregulated in some cases of severe asthma. Lipopolysaccharide (LPS), which induces IL-8 from epithelial cells, is also increased in the lower airways of corticosteroid-resistant asthma. IL-8 or LPS-stimulated neutrophils increase the transbasement membrane migration of eosinophils, even in the absence of chemoattractants for eosinophils. Therefore, eosinophils are likely to contribute to the development of asthma exacerbation through several mechanisms, including activation by Th2 cytokines, such as IL-5 or GM-CSF or by virus infection-related proteins, such as CXCL10, and interaction with other cells, such as neutrophils.
Compartmental models for seasonal hyperendemic bacterial meningitis in the African meningitis belt

Abstract The pathophysiological mechanisms underlying the seasonal dynamic and epidemic occurrence of bacterial meningitis in the African meningitis belt remain unknown. Regular seasonality (seasonal hyperendemicity) is observed for both meningococcal and pneumococcal meningitis and understanding this is critical for better prevention and modelling. The two principal hypotheses for hyperendemicity during the dry season imply (1) an increased risk of invasive disease given asymptomatic carriage of meningococci and pneumococci; or (2) an increased transmission of these bacteria from carriers and ill individuals. In this study, we formulated three compartmental deterministic models of seasonal hyperendemicity, featuring one (model1-‘inv’ or model2-‘transm’), or a combination (model3-‘inv-transm’) of the two hypotheses. We parameterised the models based on current knowledge on meningococcal and pneumococcal biology and pathophysiology. We compared the three models' performance in reproducing weekly incidences of suspected cases of acute bacterial meningitis reported by health centres in Burkina Faso during 2004–2010, through the meningitis surveillance system. The three models performed well (coefficient of determination R2, 0.72, 0.86 and 0.87, respectively). Model2-‘transm’ and model3-‘inv-transm’ better captured the amplitude of the seasonal incidence. However, model2-‘transm’ required a higher constant invasion rate for a similar average baseline transmission rate. The results suggest that a combination of seasonal changes of the risk of invasive disease and carriage transmission is involved in the hyperendemic seasonality of bacterial meningitis in the African meningitis belt. Consequently, both interventions reducing the risk of nasopharyngeal invasion and the bacteria transmission, especially during the dry season are believed to be needed to limit the recurrent seasonality of bacterial meningitis in the meningitis belt.
ESS: A Tool for Genome-Scale Quantification of Essentiality Score for Reaction/Genes in Constraint-Based Modeling

Genome-scale metabolic models (GEMs) are comprehensive descriptions of cell metabolism and have been extensively used to understand biological responses in health and disease. One such application is in determining metabolic adaptation to the absence of a gene or reaction, i.e., essentiality analysis. However, current methods do not permit efficiently and accurately quantifying reaction/gene essentiality. Here, we present Essentiality Score Simulator (ESS), a tool for quantification of gene/reaction essentialities in GEMs. ESS quantifies and scores essentiality of each reaction/gene and their combinations based on the stoichiometric balance using synthetic lethal analysis. This method provides an option to weight metabolic models which currently rely mostly on topologic parameters, and is potentially useful to investigate the metabolic pathway differences between different organisms, cells, tissues, and/or diseases. We benchmarked the proposed method against multiple network topology parameters, and observed that our method displayed higher accuracy based on experimental evidence. In addition, we demonstrated its application in the wild-type and ldh knock-out E. coli core model, as well as two human cell lines, and revealed the changes of essentiality in metabolic pathways based on the reactions essentiality score. ESS is available without any limitation at https://sourceforge.net/projects/essentiality-score-simulator.
Effects of clinoptilolite zeolite on phosphorus dynamics and yield of Zea Mays L. cultivated on an acid soil

Efficient management of P fertilizers ensures good yield of crops and adequate food supply. In the acid soil of the tropics, soluble P is fixed by Al and Fe. Exploitation of the high CEC and pH of Clinoptilolite zeolite (CZ) could mitigate low soil pH and P fixation in acid soils. This study was undertaken to determine the effects of amending a weathered acid soil with CZ on: (i) soil P availability and other related soil chemical properties, and (ii) nutrient concentration, nutrient uptake, above-ground biomass, agronomic efficiency, and yield of Zea mays L. on a tropical acidic soil. Triple superphosphate (TSP), Egypt Rock phosphate (ERP), and Christmas Island Rock phosphate (CIRP) were used as P sources. The treatments evaluated were: (i) soil alone, (ii) 100% recommended fertilizer rate (NPK), and (iii) 75% fertilizer rate + Clinoptilolite zeolite. Selected soil chemical properties and P availability were determined before and after field trials. Zea mays L. above-ground biomass, nutrient concentration, nutrient uptake, agronomic efficiency, and fresh cob yield were also determined. Results revealed that the effects of treatments with and without CZ treatments on soil pH, P fractions, soil acidity, dry matter production, yield of maize, nutrient uptake, and agronomic efficiency were similar. Hence, suggesting CZ inclusion in the fertilization program of Zea mays L is beneficial in terms of reducing excessive or unbalanced use of chemical fertilizers due to reduction of fertilizers usage by 25%.
Microcrack Analysis of Dental Hard Tissue After Root Canal Irradiation with a 970-nm Diode Laser.

OBJECTIVES The aim of the present study was to investigate differences in the amount of dentin microcracking caused by the use of a 970-nm diode laser with different parameters for endodontic disinfection procedures. MATERIALS AND METHODS Forty dental roots underwent mechanical endodontic preparation in a standardized manner. Each sample was randomly allocated to 4 groups receiving constant or interval laser irradiation time, calcium hydroxide disinfection, or a control group, with 10 samples per group. Transmission microscopy of all samples was performed at T0, before preparation; T1, immediately after endodontic preparation; and T2, after laser application in the laser groups and after 1 week of storage in the control and calcium hydroxide groups. The microcracks at each measurement point were color labeled, layered, and compared. RESULTS No significant differences were noted at T0 and T1 (p > 0.05). Statistically significant differences in the overall amount of microcracking were observed between the constant laser group and all other groups at T2 (p < 0.05). There were no statistically significant differences between the interval laser group, the calcium hydroxide group, and the control group at T2 in relation to the overall amount of microcracking (p > 0.05). When the root sections were analyzed separately, the coronal section did not show any statistically significant differences between the constant laser and interval laser groups (p > 0.05). The middle and apical root sections in the constant laser group showed the significantly largest amount of crack formation in comparison with the other groups (p < 0.05). The statistically significantly smallest amount of crack formation was observed in the apical third for all groups (p < 0.05). CONCLUSIONS Clinically proposed laser protocol seems to be able to prevent side effects to the tissue, such as microcracks of the root canal dentine.
Toward the Optimal Construction of a Loss Function Without Spurious Local Minima for Solving Quadratic Equations

The problem of finding a vector <inline-formula> <tex-math notation="LaTeX">$\boldsymbol {x}$ </tex-math></inline-formula> which obeys a set of quadratic equations <inline-formula> <tex-math notation="LaTeX">$| \boldsymbol {a}_{\text {k}}^\top \boldsymbol {x} |^{2}=\text {y}_{\text {k}}$ </tex-math></inline-formula>, <inline-formula> <tex-math notation="LaTeX">$\text {k}=1,\cdots,\text {m}$ </tex-math></inline-formula>, plays an important role in many applications. In this paper we consider the case when both <inline-formula> <tex-math notation="LaTeX">$\boldsymbol {x}$ </tex-math></inline-formula> and <inline-formula> <tex-math notation="LaTeX">$\boldsymbol {a}_{k}$ </tex-math></inline-formula> are real-valued vectors of length n. A new loss function is constructed for this problem, which combines the smooth quadratic loss function with an activation function. Under the Gaussian measurement model, we establish that with high probability the target solution <inline-formula> <tex-math notation="LaTeX">$\boldsymbol {x}$ </tex-math></inline-formula> is the only minimizer (up to a global sign) of the new loss function provided <inline-formula> <tex-math notation="LaTeX">$\text {m}\gtrsim \text {n}$ </tex-math></inline-formula>. Moreover, the loss function always has a negative directional curvature around its saddle points.
The use of echinocandins in hospitalized children in the United States.

Echinocandins are used for treatment of invasive candidiasis, but data on their use in children are limited. We sought to describe the epidemiology of echinocandin use in hospitalized children in the United States.We performed a retrospective cohort study of children <18 years of age hospitalized between January 2005 and December 2015 and exposed to ≥1 day of a systemic antifungal agent using the Pediatric Health Information System (PHIS) database. Univariate analyses compared recipients of two echinocandin agents, caspofungin and micafungin. Crude prescribing rates of each antifungal group were calculated across hospitals and per year. The rate of antifungal agent prescribing over time was assessed using two-level mixed-effects negative binomial regression, accounting for variability in prescribing by hospital over time. From 2005 to 2015, fluconazole was prescribed most often (n = 148,859, 74.3%), followed by mould-active triazoles (n = 36,131, 18.0%), amphotericin products (n = 29,008, 14.5%), and echinocandins (n = 28,371, 14.2%). The crude rate of systemic antifungal prescribing decreased across all PHIS hospitals from 36.3 to 33.8 per 1000 admissions during the study period, but echinocandin prescribing increased from 2.2 to 7.2 per 1000 admissions. A mixed effects regression model revealed that echinocandin prescribing increased by 15.1% per year (95% CI 11.2-19.2). Echinocandin administration increased from 6.1% to 21.0% of admissions during which a systemic antifungal agent was given. In conclusion, echinocandin use has increased significantly over time, accounting for an increasing proportion of systemic antifungal prescribing in children.
Bidirectional predictions between Internet addiction and probable depression among Chinese adolescents

Background and aims The aim of the study is to investigate (a) whether probable depression status assessed at baseline prospectively predicted new incidence of Internet addiction (IA) at the 12-month follow-up and (b) whether IA status assessed at baseline prospectively predicted new incidence of probable depression at follow-up. Methods We conducted a 12-month cohort study (n = 8,286) among Hong Kong secondary students, and derived two subsamples. The first subsample (n = 6,954) included students who were non-IA at baseline, using the Chen Internet Addiction Scale (≤63), and another included non-depressed cases at baseline (n = 3,589), using the Center for Epidemiological Studies Depression Scale (<16). Results In the first subsample, 11.5% of the non-IA cases developed IA during follow-up, and probable depression status at baseline significantly predicted new incidence of IA [severe depression: adjusted odds ratio (ORa) = 2.50, 95% CI = 2.07, 3.01; moderate: ORa = 1.82, 95% CI = 1.45, 2.28; mild: ORa = 1.65, 95% CI = 1.32, 2.05; reference: non-depressed], after adjusting for sociodemographic factors. In the second subsample, 38.9% of those non-depressed participants developed probable depression during follow-up. Adjusted analysis showed that baseline IA status also significantly predicted new incidence of probable depression (ORa = 1.57, 95% CI = 1.18, 2.09). Discussion and conclusions The high incidence of probable depression is a concern that warrants interventions, as depression has lasting harmful effects in adolescents. Baseline probable depression predicted IA at follow-up and vice versa, among those who were free from IA/probable depression at baseline. Healthcare workers, teachers, and parents need to be made aware of this bidirectional finding. Interventions, both IA and depression prevention, should thus take both problems into consideration.
Prevalence and correlates of common mental disorders among dental students in Brazil

This study aimed to estimate prevalence of common mental disorders (CMD) and associated factors among dental students. In this cross-sectional study, 230 students answered a questionnaire and instruments to assess CMD (Self Reporting Questionnaire-20), hazardous alcohol consumption (Alcohol Use Disorder Identification Test), social support (Social Support Scale), perceptions of academic life (Dundee Ready Education Environment Measure), coping (Ways of Coping Inventory) and resilience (Resilience Scale). Bivariate analysis was conducted using the Chi-Square and Mann-Whitney tests. Logistic regression included all explanatory variableswith p<0.20 in the bivariate analysis, besides sex and academic year. The explanatory variables were analyzed in five successive blocks (backward-stepwise), until all variables presented statistical significance in the final model (p<0.05). The prevalence of CMD was 45.2% (95%CI: 38.7–51.6), with no significant differences between sexes. Students with no extracurricular activities, who had negatively self- assessed their health status and their academic performance, were about four times more likely to present CMD, followed by receiving psychological or psychiatric treatment during university (AOR: 2.65; 95%CI: 1.1–6.1) and those with high scores for confrontive coping (AOR: 1.20; 95%CI: 1.0–1.4). Resilience was a protective factor for CMD among dental students (AOR: 0.93; 95%CI: 0.9–1.0). Aspects related to academic performance, health status and confrontive coping strategies were risk factors to students’ mental health. Individuals with high levels of resilience showed lower prevalence of CMD. Further prospective studies could contribute to understanding the role of resilience among this population.
CNN Based Posture-Free Hand Detection

Although many studies suggest high performance hand detection methods, those methods are likely to be overfitting. Fortunately, the Convolution Neural Network (CNN) based approach provides a better way that is less sensitive to translation and hand poses. However the CNN approach is complex and can increase computational time, which at the end reduce its effectiveness on a system where the speed is essential.In this study we propose a shallow CNN network which is fast, and insensitive to translation and hand poses. It is tested on two different domains of hand datasets, and performs in relatively comparable performance and faster than the other state-of-theart hand CNN-based hand detection method. Our evaluation shows that the proposed shallow CNN network performs at 93.9% accuracy and reaches much faster speed than its competitors.
Learning Physically Based Humanoid Climbing Movements

We propose a novel learning‐based solution for motion planning of physically‐based humanoid climbing that allows for fast and robust planning of complex climbing strategies and movements, including extreme movements such as jumping. Similar to recent previous work, we combine a high‐level graph‐based path planner with low‐level sampling‐based optimization of climbing moves. We contribute through showing that neural network models of move success probability, effortfulness, and control policy can make both the high‐level and low‐level components more efficient and robust. The models can be trained through random simulation practice without any data. The models also eliminate the need for laboriously hand‐tuned heuristics for graph search. As a result, we are able to efficiently synthesize climbing sequences involving dynamic leaps and one‐hand swings, i.e. there are no limits to the movement complexity or the number of limbs allowed to move simultaneously. Our supplemental video also provides some comparisons between our AI climber and a real human climber.
Prospective Randomized Evaluation of Preoperative Angiotensin-Converting Enzyme Inhibition (PREOP-ACEI)

BACKGROUND Intraoperative hypotension is associated with an increased risk of end organ damage and death. The transient preoperative interruption of angiotensin-converting enzyme inhibitor (ACEI) therapy prior to cardiac and vascular surgeries decreases the occurrence of intraoperative hypotension. OBJECTIVE We sought to compare the effect of two protocols for preoperative ACEI management on the risk of intraoperative hypotension among patients undergoing noncardiac, nonvascular surgeries. DESIGN Prospective, randomized study. SETTING Midwestern urban 489-bed academic medical center. PATIENTS Patients taking an ACEI for at least six weeks preoperatively were considered for inclusion. INTERVENTIONS Randomization of the final preoperative ACEI dose to omission (n = 137) or continuation (n = 138). MEASUREMENTS The primary outcome was intraoperative hypotension, which was defined as any systolic blood pressure (SBP) < 80 mm Hg. Postoperative hypotensive (SBP < 90 mm Hg) and hypertensive (SBP > 180 mm Hg) episodes were also recorded. Outcomes were compared using Fisher’s exact test. RESULTS Intraoperative hypotension occurred less frequently in the omission group (76 of 137 [55%]) than in the continuation group (95 of 138 [69%]) (RR: 0.81, 95% CI: 0.67 to 0.97, P = .03, NNH 7.5). Postoperative hypotensive events were also less frequent in the ACEI omission group (RR: 0.49, 95% CI: 0.28 to 0.86, P = .02) than in the continuation group. However, postoperative hypertensive events were more frequent in the omission group than in the continuation group (RR: 1.95, 95%: CI: 1.14 to 3.34, P = .01). CONCLUSION The transient preoperative interruption of ACEI therapy is associated with a decreased risk of intraoperative hypotension. REGISTRATION ClinicalTrials.gov: NCT01669434.
Phomopsis liquidambari colonization promotes continuous cropping peanut growth by improving the rhizosphere microenvironment, nutrient uptake and disease incidence.

BACKGROUND The continuous cropping of peanuts is a primary cause of yield and quality loss. Solutions to this problem should be therefore developed to ensure the sustainability of peanut production. RESULTS In this study, colonization by the endophytic fungus Phomopsis liquidambari was detected, which led to significantly improved rhizosphere soil microenvironment, enhanced N, P and K assimilation and suppressed incidence of peanut disease. Statistical analysis demonstrated that the yield enhancement was significantly correlated with improvement of the rhizosphere soil microenvironment and the peanut's physiological status by P. liquidambari colonization. In addition, P. liquidambari colonization also significantly improved peanut quality. CONCLUSION Our results indicate that the practical application of the endophytic fungus P. liquidambari has a strong potential to alleviate the obstacles associated with continuous peanut cropping under field conditions. © 2018 Society of Chemical Industry.