Miracle-dz/UniFAR-FTUs huggingface dataset:
Deep Learning Convolutional Neural Networks Discriminate Adult ADHD From Healthy Individuals on the Basis of Event-Related Spectral EEG

Attention deficit hyperactivity disorder (ADHD) is a heterogeneous neurodevelopmental disorder that affects 5% of the pediatric and adult population worldwide. The diagnosis remains essentially clinical, based on history and exam, with no available biomarkers. In this paper, we describe a convolutional neural network (CNN) with a four-layer architecture combining filtering and pooling, which we train using stacked multi-channel EEG time-frequency decompositions (spectrograms) of electroencephalography data (EEG), particularly of event-related potentials (ERP) from ADHD patients (n = 20) and healthy controls (n = 20) collected during the Flanker Task, with 2800 samples for each group. We treat the data as in audio or image classification approaches, where deep networks have proven successful by exploiting invariances and compositional features in the data. The model reaches a classification accuracy of 88% ± 1.12%, outperforming the Recurrent Neural Network and the Shallow Neural Network used for comparison, and with the key advantage, compared with other machine learning approaches, of avoiding the need for manual selection of EEG spectral or channel features. The event-related spectrograms also provide greater accuracy compared to resting state EEG spectrograms. Finally, through the use of feature visualization techniques such as DeepDream, we show that the main features exciting the CNN nodes are a decreased power in the alpha band and an increased power in the delta-theta band around 100 ms for ADHD patients compared to healthy controls, suggestive of attentional and inhibition deficits, which have been previously suggested as pathophyisiological signatures of ADHD. While confirmation with larger clinical samples is necessary, these results suggest that deep networks may provide a useful tool for the analysis of EEG dynamics even from relatively small datasets, highlighting the potential of this methodology to develop biomarkers of practical clinical utility.
Role of Human Body Composition Analysis and Malnutrition Risk Questionnaire in the Assessment of Nutritional Status of Patients With Initially Diagnosed Crohn's Disease

Objective: This study was carried out to investigate the role and necessity of human body composition analysis in assessing the nutritional status of initially diagnosed Crohn's disease (CD) patients. Methods: A total of 47 initially diagnosed CD patients were recruited. The skeletal muscle mass index (SMI), fat-free mass index (FFMI), body fat mass, body fat percent, visceral fat area (VFA), and body cell mass were determined with the Biospace Inbody S10 composition analyzer. Results: In 47 patients with initially diagnosed CD, SMI could determine the muscular mass reduction that could not be determined by the body mass index (BMI) (35.3%), albumin (ALB) (65.6%), nutrition risk screening (NRS)2002 (25.0%), and Patient-Generated Subjective Global Assessment (PG-SGA) (55.6%). FFMI could determine the malnutrition that could not be determined by the BMI (58.8%), albumin (90.6%), NRS2002 (50.0%), and PG-SGA (55.6%). VFA in the fistulizing CD patients was significantly higher than in the stricturing and non-fistulizing, non-stricturing patients (P < 0.05). SMI and BMI had the same performance (P = 1.000) and general consistence (Kappa = 0.487, P = 0.001) in the assessment of malnutrition; SMI and ALB had different performance (P < 0.001) and inconsistence was noted (Kappa = 0.069, P = 0.489) in the assessment of malnutrition; the results of the nutrition assessment were different between SMI and NRS2002 (P = 0.002), and inconsistence was observed (Kappa = 0.190, P = 0.071). SMI and PG-SGA had the same performance in the assessment of nutrition (P = 0.143), but there was inconsistence (Kappa = 0.099, P = 0.464). FFMI and BMI had general consistence in the assessment of malnutrition (Kappa = 0.472, P < 0.001), but the positive rate determined by FFMI (85.1%) was markedly higher than that by BMI (63.8%) (P = 0.002). FFMI and ALB had different performance in the assessment of malnutrition (P < 0.001) and there was inconsistence (Kappa = −0.008, P = 0.877). FFMI and NRS2002 had the same performance in the assessment of malnutrition (P = 0.453), but the consistence was poor (Kappa = 0.286, P = 0.039). The results determined by SMI and PG-SGA were consistent (P = 0.727), but the consistence was poor (Kappa = 0.399, P = 0.006). Conclusion: Human body composition analysis can identify the patients with muscular mass reduction that cannot be identified by commonly used nutrition assessment scales/parameters. Thus, it is helpful for the assessment of disease severity and also important for the nutrition assessment in CD patients.
Higher Serum Uric Acid Level Predicts Non-alcoholic Fatty Liver Disease: A 4-Year Prospective Cohort Study

Background: Non-alcoholic fatty liver disease (NAFLD) has become a serious disease affecting people's health in the world. This article studies the causal relationship between NAFLD and serum uric acid (SUA) levels. Methods: During the 4 years of follow-up in a fixed cohort that was established in 2014, 2,832 follow-up subjects without NAFLD were finally included in this study. The study population was divided into four groups according to baseline SUA levels. Cox hazard regression model and Kaplan–Meier survival curves analysis were used to predict risk factors of NAFLD. The receiver operating characteristic curve analyses were used to determine SUA cutoffs for predicting NAFLD. Results: The cumulative prevalence rates of NAFLD were 33.97% (962/2,832), 38.93% (758/1,947) in males and 23.05% (204/885) in females. The results showed that males had a higher incidence of NAFLD (χ2 = 68.412, P = 0.000). The Cox regression analysis disclosed that the hazard ratios of NAFLD [95% confidence interval (CI)] were 1.431 (95% CI, 1.123~1.823), 1.610 (95% CI, 1.262–2.054), and 1.666 (95% CI, 1.287–2.157) across the second to the fourth quartile of SUA adjusted for other confounders. The SUA cutoffs, sensitivity, specificity, and area under the curve (AUC) (95% CI) were ≥288.5 μmol/L, 75.5, 46.5%, 0.637(0.616–0.658), respectively, for total; ≥319.5 μmol/L, 65.8%, 48.4%, 0.590 (0.564–0.615), respectively, for males; and ≥287.5 μmol/L, 51.0%, 75.6%, 0.662 (0.619–0.704), respectively, for females. Kaplan–Meier survival curves revealed that individuals with higher SUA level had an increased risk of NAFLD in comparison to lower SUA level (P = 0.000). Conclusion: Serum uric acid is positively correlated with NAFLD, and elevated SUA level can be used as an independent predictor for NAFLD.
Current Sampling Methods for Gut Microbiota: A Call for More Precise Devices

The development of next-generation sequencing technology has enabled researchers to explore and understand the gut microbiome from a broader and deeper perspective. However, the results of different studies on gut microbiota are highly variable even in the same disease, which makes it difficult to guide clinical diagnosis and treatment. The ideal sampling method should be non-invasive, involve little cross-contamination or bowel preparation, and collect gut microbiota at different sites. Currently, sequencing technologies are usually based on samples collected from feces, mucosal biopsy, intestinal fluid, etc. However, different parts of the gastrointestinal tract possess various physiological characteristics that are essential for particular species of living microbiota. Moreover, current sampling methods are somewhat defective. For example, fecal samples are just a proxy for intestinal microbiota, while biopsies are invasive for patients and not suitable for healthy controls. In this review, we summarize the current sampling methods and their advantages and shortcomings. New sampling technologies, such as the Brisbane Aseptic Biopsy Device and the intelligent capsule, are also mentioned to inspire the development of future precise description methods of the gut microbiome.
Revisiting the Practical Use of Automated Software Fault Localization Techniques

In the last two decades, a great amount of effort has been put in researching automated debugging techniques to support developers in the debugging process. However, in a widely cited user study published in 2011, Parnin and Orso found that research in automated debugging techniques made assumptions that do not hold in practice, and suggested four research directions to remedy this: absolute evaluation metrics, result comprehension, ecosystems, and user studies.In this study, we revisit the research directions proposed by the authors, offering an overview of the progress that the research community has made in addressing them since 2011. We observe that new absolute evaluation metrics and result comprehension techniques have been proposed, while research in ecosystems and user studies remains mostly unexplored. We analyze what is hard about these unexplored directions and propose avenues for further research in the area of fault localization.
Neural Network Analysis to Evaluate Ozone Damage to Vegetation Under Different Climatic Conditions

Tropospheric ozone (O3) is probably the air pollutant most damaging to vegetation. Understanding how plants respond to O3 pollution under different climate conditions is of central importance for predicting the interactions between climate change, ozone impact and vegetation. This work analyses the effect of O3 fluxes on net ecosystem productivity (NEP), measured directly at the ecosystem level with the eddy covariance (EC) technique. The relationship was explored with artificial neural networks (ANNs), which were used to model NEP using environmental and phenological variables as inputs in addition to stomatal O3 uptake in Spring and Summer, when O3 pollution is expected to be highest. A sensitivity analysis allowed us to isolate the effect of O3, visualize the shape of the O3-NEP functional relationship and explore how climatic variables affect NEP response to O3. This approach has been applied to eleven ecosystems covering a range of climatic areas. The analysis highlighted that O3 effects over NEP are highly non-linear and site-specific. A significant but small NEP reduction was found during Spring in a Scottish shrubland (−0.67%), in two Italian forests (up to −1.37%) and during Summer in a Californian orange orchard (−1.25%). Although the overall seasonal effect of O3 on NEP was not found to be negative for the other sites, with episodic O3 detrimental effect still identified. These episodes were correlated with meteorological variables showing that O3 damage depends on weather conditions. By identifying O3 damage under field conditions and the environmental factors influencing to that damage, this work provides an insight into O3 pollution, climate and weather conditions.
Maternal and Perinatal Factors Associated with the Human Milk Microbiome

ABSTRACT Microbes are present in human milk regardless of the mother's health. The origins of the milk microbiota likely include the mother's skin, infant's mouth, and transfer from the maternal gastrointestinal (GI) tract. Prominent bacterial taxa in human milk are Staphylococcus and Streptococcus, but many other genera are also found including anaerobic Lactobacillus, Bifidobacterium, and Bacteroides. The milk microbiome is highly variable and potentially influenced by geographic location, delivery mode, time postpartum, feeding mode, social networks, environment, maternal diet, and milk composition. Mastitis alters the milk microbiome, and the intake of Lactobacilli has shown potential for mastitis treatment and prevention. Although milk and infant fecal microbiomes are different, their variations appear to be related – suggesting that milk is an important contributor of early GI colonization. Nonetheless, nothing is known regarding whether the milk microbiome influences infant health. Further research and clinical interventions are needed to determine if changes in the microbiomes of human milk and infant formula/food impact health.
Elbasvir and grazoprevir for hepatitis C virus genotype 1 infection in people with recent injecting drug use (DARLO‐C): An open‐label, single‐arm, phase 4, multicentre trial

Direct‐acting antiviral therapy for hepatitis C virus (HCV) is effective, but few prospective studies among people with ongoing injecting drug use exist. This study evaluated the efficacy of elbasvir/grazoprevir in people with HCV genotype 1/4 (G1/4) infection and recent injecting drug use. An exploratory aim evaluated the feasibility of fingerstick point‐of‐care HCV RNA testing prior to and following treatment.
A multifunctional surfactant catalyst inspired by hydrolases

Enzyme-inspired catalysis using self-assembled amphiphiles mimic and localize multiple chemical units common to hydrolases. The remarkable power of enzymes to undertake catalysis frequently stems from their grouping of multiple, complementary chemical units within close proximity around the enzyme active site. Motivated by this, we report here a bioinspired surfactant catalyst that incorporates a variety of chemical functionalities common to hydrolytic enzymes. The textbook hydrolase active site, the catalytic triad, is modeled by positioning the three groups of the triad (-OH, -imidazole, and -CO2H) on a single, trifunctional surfactant molecule. To support this, we recreate the hydrogen bond donating arrangement of the oxyanion hole by imparting surfactant functionality to a guanidinium headgroup. Self-assembly of these amphiphiles in solution drives the collection of functional headgroups into close proximity around a hydrophobic nano-environment, affording hydrolysis of a model ester at rates that challenge α-chymotrypsin. Structural assessment via NMR and XRD, paired with MD simulation and QM calculation, reveals marked similarities of the co-micelle catalyst to native enzymes.
Inhibition of protective immunity against Staphylococcus aureus infection by MHC-restricted immunodominance is overcome by vaccination

MHC restriction determines whether S. aureus infection elicits protection, but vaccine efficacy is unconstrained by MHC haplotype. Recurrent Staphylococcus aureus infections are common, despite robust immune responses. S. aureus infection elicited protective antibody and T cell responses in mice that expressed the Major Histocompatibility Complex (MHC) of the H-2d haplotype, but not H-2b, demonstrating that host genetics drives individual variability. Vaccination with a-toxin or leukotoxin E (LukE) elicited similar antibody and T cell responses in mice expressing H-2d or H-2b, but vaccine-elicited responses were inhibited by concomitant infection in H-2d–expressing mice. These findings suggested that competitive binding of microbial peptides to host MHC proteins determines the specificity of the immunodominant response, which was confirmed using LukE-derived peptide-MHC tetramers. A vaccine that elicited T cell and antibody responses protected mice that expressed H-2d or H-2b, demonstrating that vaccination can overcome MHC-restricted immunodominance. Together, these results define how host genetics determine whether immunity elicted by S. aureus is protective and provide a mechanistic roadmap for future vaccine design.
Multiplexed molecular profiling of lung cancer with malignant pleural effusion using next generation sequencing in Chinese patients

Lung cancer is the most common type of cancer and the leading cause of cancer-associated death worldwide. Malignant pleural effusion (MPE), which is observed in ~50% of advanced non-small cell lung cancer (NSCLC) cases, and most frequently in lung adenocarcinoma, is a common complication of stage III–IV NSCLC, and it can be used to predict a poor prognosis. In the present study, multiple oncogene mutations were detected, including 17 genes closely associated with initiation of advanced lung cancer, in 108 MPE samples using next generation sequencing (NGS). The NGS data of the present study had broader coverage, deeper sequencing depth and higher capture efficiency compared with NGS findings of previous studies on MPE. In the present study, using NGS, it was demonstrated that 93 patients (86%) harbored EGFR mutations and 62 patients possessed mutations in EGFR exons 18–21, which are targets of available treatment agents. EGFR L858R and exon 19 indel mutations were the most frequently observed alterations, with frequencies of 31 and 25%, respectively. In 1 patient, an EGFR amplification was identified and 6 patients possessed a T790M mutation. ALK + EML4 gene fusions were identified in 6 patients, a ROS1 + CD74 gene fusion was detected in 1 patient and 10 patients possessed a BIM (also known as BCL2L11) 2,903-bp intron deletion. In 4 patients, significant KRAS mutations (G12D, G12S, G13C and A146T) were observed, which are associated with resistance to afatinib, icotinib, erlotinib and gefitinib. There were 83 patients with ERBB2 mutations, but only two of these mutations were targets of available treatments. The results of the present study indicate that MPE is a reliable specimen for NGS based detection of somatic mutations.
Solubilization of particulate organic carbon during the acid phase of anaerobic digestion

Hydrolysis of particulates to soluble substrates rather than bacterial growth was the rate-limiting step during the acid phase of anaerobic digestion of sewage sludge, and pH had a greater effect on the process than did influent solids concentrations, suggesting that digestability can be improved for highly variable feed sludges by separate phase digestion for acid production and CH/sub 4/ production. Carbohydrates were more readily degraded than nitrogenous materials, and lipids remained unaffected. A model of the acid phase of digestion is formulated.
Laparoscopic Management of Small Peripheral Hepatic Focal Lesions

Abstract: Laparoscopic resection of benign and malignant hepatic masses can now be accomplished with relatively low morbidity. This fact has changed the mindset of physicians involved in the diagnosis and management of these lesions and influenced the decision-making process. Aim: evaluate the indications and efficacy of both laparoscopic liver resection and laparoscopic radiofrequency ablation for small peripheral hepatic focal lesions. Patients and methods: From January 2015 to March 2018 61 patients with hepatic focal lesions managed at advanced center of Hepato-biliary disease, Zagazig University and National Hepatology & Tropical Medicine Research Institute. Where laparoscopic liver resection (LLR) done in 37 cases. While laparoscopic radiofrequency ablation (LRFA) in 20 cases 4 cases underwent laparoscopic de-roofing. Results: 33 males and 28 females with mean age 56.81± 10.6 years. 17 patients had postoperative complications. Recurrence occurred in 14 patients of HCC. Mortality occurred in 4 patients of HCC during the 2 years follow-up period. Conclusion: Laparoscopic liver surgery is an alternative to open surgery in small and peripheral focal lesions. Providing better results and advantages in terms of survival and recurrence.
Anatomy, Biomechanics and Complications of Arthroscopic Anterior Cruciate Ligament Reconstruction

Background: With increasing road traffic accidents and athletic participation, traumatic lesions of the ligaments about the knee are becoming increasingly more common. Those injuries can be isolated or combined with other components of the knee. No procedure is ever completely free of risks. However, Anterior Cruciate Ligament (ACL) reconstruction is a safe procedure that is performed thousands of times each year. ACL reconstruction surgery uses a graft to replace the ligament. The most common grafts are autografts using part of body, such as patellar tendon or one of the hamstring tendons. Results of arthroscopic ACL reconstruction have been excellent; the success rate has been reported to be more than 95% in term of patient satisfaction. Aim of the work: was to discuss anatomy and biomechanics of anterior cruciate ligament and the complications of arthroscopic anterior cruciate ligament reconstruction. Conclusion: It could be concluded that the challenge is to perform the reconstructive procedure with high success and minimal complications and morbidity. To accomplish this, it requires a combination of a skilled surgeon, appropriate graft selection and careful attention to the details of rehabilitation.
Predictors of nurses considering leaving the profession due to work-related stress in a large pediatric and women’s hospital in the United States

Nurse retention is of extreme importance in modern healthcare given the ever increasing nursing shortage and the high cost of training newly hired nurses. Research has repeatedly demonstrated that stress is strongly correlated with nursing staff turnover. This study examines the relationship of Secondary Traumatic Stress, Burnout, Compassion Satisfaction, personal life stress and nurse demographic characteristics with having considered leaving the nursing profession due to work-related stress. A survey was administered to nurses at a large pediatric and women’s hospital in the southern United States. Bivariate analyses (n = 496) indicated being Caucasian (p < .001), working fewer hours per week (p = .009), experiencing more personal life stress (p < .001), having higher Burnout (p < .001), or Secondary Traumatic Stress (p < .001) scores or lower Compassion Satisfaction (p = .015) scores were significantly associated with increased likelihood of having considered leaving the nursing profession. In multivariable logistic regression analysis, after variable selection, higher levels of Burnout (p < .001), more life stress (p = .010), being Caucasian (p < .001) and working fewer hours (p = .004) were all significantly associated with higher odds of considering leaving the nursing profession. Interventions to reduce work-related Burnout and help nurses cope with stressful life events are needed to increase retention of nurses in the profession.
Computer-aided search for codominant markers in complex haploid DNA banding patterns : A case study in Abies alba MILL.

A genetic trait defines a gene marker in a collection of diplo-phase individuals only if each phenotype is produced by only a single genotype. This requires codominance as the mode of gene action at each of the involved loci (as opposed to dominance) and the absence of epistasis. Two computer programs are presented that aid in inheritance analysis of complex DNA banding patterns of single diploid individuals by searching the banding patterns of their haploid gametophytes for pairs of segregating bands representing codominant alleles of a locus as well as for single bands showing dominance over a null allele defined as absence of the band. The program MATRIX 3 ) encodes densitometrical data obtained from DNA banding patterns as a 1/0 matrix. The program CoDo 3 ) searches this matrix for pairs of bands showing 1 :1 segregation and for single bands showing 1 :1 segregation with a null allele. This system is demonstrated on both a fictitious data set and on banding patterns obtained by PCR using a primer pair designed from an M13 bacteriophage sequence in an individual of Abies alba (MILL.) and the haploid primary endosperm of a sample of its seeds. For the latter, no band pair showed codominance of gene action, but several bands were suggested for dominance. Reasons for the small number of bands showing 1 :1 segregation are discussed.