Miracle-dz/UniFAR-FTUs huggingface dataset:
Error Estimation of Ultra-Short Heart Rate Variability Parameters: Effect of Missing Data Caused by Motion Artifacts

Application of ultra–short Heart Rate Variability (HRV) is desirable in order to increase the applicability of HRV features to wrist-worn wearable devices equipped with heart rate sensors that are nowadays becoming more and more popular in people’s daily life. This study is focused in particular on the the two most used HRV parameters, i.e., the standard deviation of inter-beat intervals (SDNN) and the root Mean Squared error of successive inter-beat intervals differences (rMSSD). The huge problem of extracting these HRV parameters from wrist-worn devices is that their data are affected by the motion artifacts. For this reason, estimating the error caused by this huge quantity of missing values is fundamental to obtain reliable HRV parameters from these devices. To this aim, we simulate missing values induced by motion artifacts (from 0 to 70%) in an ultra-short time window (i.e., from 4 min to 30 s) by the random walk Gilbert burst model in 22 young healthy subjects. In addition, 30 s and 2 min ultra-short time windows are required to estimate rMSSD and SDNN, respectively. Moreover, due to the fact that ultra-short time window does not permit assessing very low frequencies, and the SDNN is highly affected by these frequencies, the bias for estimating SDNN continues to increase as the time window length decreases. On the contrary, a small error is detected in rMSSD up to 30 s due to the fact that it is highly affected by high frequencies which are possible to be evaluated even if the time window length decreases. Finally, the missing values have a small effect on rMSSD and SDNN estimation. As a matter of fact, the HRV parameter errors increase slightly as the percentage of missing values increase.
An Integrated Pharmacophore/Docking/3D-QSAR Approach to Screening a Large Library of Products in Search of Future Botulinum Neurotoxin A Inhibitors

Botulinum toxins are neurotoxins produced by Clostridium botulinum. This toxin can be lethal for humans as a cause of botulism; however, in small doses, the same toxin is used to treat different conditions. Even if the therapeutic doses are effective and safe, the adverse reactions could be local and could unmask a subclinical impairment of neuromuscular transmissions. There are not many cases of adverse events in the literature; however, it is possible that sometimes they do not occur as they are transient and, if they do occur, there is no possibility of a cure other than to wait for the pharmacological effect to end. Inhibition of botulinum neurotoxin type A (BoNT/A) effects is a strategy for treating botulism as it can provide an effective post-exposure remedy. In this paper, 13,592,287 compounds were screened through a pharmacophore filter, a 3D-QSAR model, and a virtual screening; then, the compounds with the best affinity were selected. Molecular dynamics simulation studies on the first four compounds predicted to be the most active were conducted to verify that the poses foreseen by the docking were stable. This approach allowed us to identify compounds with a calculated inhibitory activity in the range of 316–500 nM.
Could Cognitive Behavioural Therapy Be an Effective Treatment for Long COVID and Post COVID-19 Fatigue Syndrome? Lessons from the Qure Study for Q-Fever Fatigue Syndrome

An increasing number of young and previously fit and healthy people who did not require hospitalisation continue to have symptoms months after mild cases of COVID-19. Rehabilitation clinics are already offering cognitive behavioural therapy (CBT) as an effective treatment for long COVID and post-COVID-19 fatigue syndrome based on the claims that it is effective for myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS)—the most common post-infectious syndrome—as no study into the efficacy of CBT for post-COVID-19 fatigue syndrome has been published. Re-analyses of these studies, however, showed that CBT did not lead to objective improvements in heterogeneous groups of ME/CFS patients, nor did it restore the ability to work. The group of patients with long COVID and post-COVID-19 fatigue syndrome, on the other hand, is homogeneous. We therefore analysed the Dutch Qure study, as it studied the efficacy of CBT in a homogeneous group of patients who developed Q-fever fatigue syndrome—which affects up to 30% of patients—after the largest reported outbreak of Q-fever, to see if CBT might potentially be an effective treatment for long-haulers after COVID-19 infection. Our reanalysis found that the Qure study suffered from many serious methodological problems, which included relying on one subjective primary outcome in a study without a control group for the non-blinded CBT treatment group, using a post hoc definition of improvement, waiting 2 years before publishing their objective actometer results and ignoring the null effect of said results. Moreover, only 10% of participants achieved a clinically meaningful subjective improvement in fatigue as a result of CBT according to the study’s own figures. Consequently, CBT has no subjective clinically meaningful effect in nine out of every ten patients that are treated with it. Additionally, the subjective improvement in fatigue was not matched by an improvement in disability, even though the disability was fatigue related according to the researchers. On top of this, CBT did not lead to an objective improvement in physical performance. Therefore, it cannot be said that CBT is an effective treatment for Q-fever fatigue syndrome either. It seems therefore unlikely that CBT will reduce disability or lead to objective improvement in long COVID or in post-COVID-19 fatigue syndrome.
Selective optimization with compensation strategies utilized by older adults newly-transitioned to assisted living

Abstract Objectives: Admission to assisted living (AL) is on the rise in the United States, and adjustment to this new environment can be challenging for older adults. To date, few studies have explored the ways in which older adults may be able to ease the transition to AL by minimizing relocation-related losses. Consequently, we explored the potential for the components of the framework Selective Optimization with Compensation (SOC) to facilitate successful adjustment to AL. Method: Ninety-one recently-relocated residents of eight assisted living facilities in Alabama and Maryland were interviewed about their transition and adjustment to AL. Using the SOC framework as an analytical lens, directed content analysis identified emergent themes. Results: Fifty-six participants were identified as using SOC-based strategies. Five major themes emerged: Relationships with Others, Health and Wellness, Normalcy, Entertainment, and Growth and Meaning. The theme of Health and Wellness was reported by nearly half of SOC users. Fifty-five percent reported at least one instance of elective selection, 51.8% reported loss-based selection, 48.2% reported optimization, and 41.1% reported compensation. Conclusion: These findings offer insight into strategies that may facilitate successful adaptation to AL and other long-term care settings. This represents an important first step in identifying ways older adults might cope with the different forms of loss and role adjustment that accompany the move from a private residence to assisted living.
Classification of Biodegradable Substances Using Balanced Random Trees and Boosted C5.0 Decision Trees

Substances that do not degrade over time have proven to be harmful to the environment and are dangerous to living organisms. Being able to predict the biodegradability of substances without costly experiments is useful. Recently, the quantitative structure–activity relationship (QSAR) models have proposed effective solutions to this problem. However, the molecular descriptor datasets usually suffer from the problems of unbalanced class distribution, which adversely affects the efficiency and generalization of the derived models. Accordingly, this study aims at validating the performances of balanced random trees (RTs) and boosted C5.0 decision trees (DTs) to construct QSAR models to classify the ready biodegradation of substances and their abilities to deal with unbalanced data. The balanced RTs model algorithm builds individual trees using balanced bootstrap samples, while the boosted C5.0 DT is modeled using cost-sensitive learning. We employed the two-dimensional molecular descriptor dataset, which is publicly available through the University of California, Irvine (UCI) machine learning repository. The molecular descriptors were ranked according to their contributions to the balanced RTs classification process. The performance of the proposed models was compared with previously reported results. Based on the statistical measures, the experimental results showed that the proposed models outperform the classification results of the support vector machine (SVM), K-nearest neighbors (KNN), and discrimination analysis (DA). Classification measures were analyzed in terms of accuracy, sensitivity, specificity, precision, false positive rate, false negative rate, F1 score, receiver operating characteristic (ROC) curve, and area under the ROC curve (AUROC).
Multifactorial role of HIV-Vpr in cell apoptosis revealed by a naturally truncated 54aa variant

Although antiretroviral therapy (ART) is effective at suppressing the human immunodeficiency virus type 1 (HIV-1) replication, HIV-1 infection is still a global public health problem. HIV-1 accessory protein viral protein R (Vpr) is a multifunctional protein with a primary role in regulating cellular apoptosis. The amino acid (aa) positions 52–96 in the C-terminus of Vpr were identified as the apoptosis-regulating domain. In this study, we found a natural Vpr variant truncated at the 54 aa position (∗54Vpr) from HIV patients in the acquired immune deficiency syndrome (AIDS) phase that mediated both proand antiapoptotic cellular effects by interactingwith distinct adenine nucleotide translocator (ANT) isoforms. A novel apoptosis-regulating domain was further identified in the 23–37 aa position in the N-terminus of Vpr.
Maternal Depression Affects Infants’ Lexical Processing Abilities in the Second Year of Life

Maternal depression and anxiety have been proposed to increase the risk of adverse outcomes of language development in the early years of life. This study investigated the effects of maternal depression and anxiety on language development using two approaches: (i) a categorical approach that compared lexical abilities in two groups of children, a risk group (mothers with clinical-level symptomatology) and a control non-risk group, and (ii) a continuous approach that assessed the relation between individual mothers’ clinical and subclinical symptomatology and their infants’ lexical abilities. Infants’ lexical abilities were assessed at 18 months of age using an objective lexical processing measure and a parental report of expressive vocabulary. Infants in the risk group exhibited lower lexical processing abilities compared to controls, and maternal depression scores were negatively correlated to infants’ lexical processing and vocabulary measures. Furthermore, maternal depression (not anxiety) explained the variance in infants’ individual lexical processing performance above the variance explained by their individual expressive vocabulary size. These results suggest that significant differences are emerging in 18-month-old infants’ lexical processing abilities, and this appears to be related, in part, to their mothers’ depression and anxiety symptomatology during the postnatal period.
A Co-Induction Technique Utilizing 4% Sevoflurane Followed by 0.75 mg/kg Propofol in Elderly Patients Undergoing Minimally Invasive Procedures: A Prospective Randomized Control Study

Background and Objectives: Elderly patients constitute a large segment of healthcare receivers. Considering the functional deterioration of multiple organ systems with aging, achieving a safe perioperative approach is challenging. Our aim is to study the safety and effectiveness of a genuinely regimented co-induction technique in order to minimize anesthesia-related complications. Materials and Methods: One hundred and five patients were assigned to three groups according to the induction technique: propofol, sevoflurane and co-induction group. Inclusion criteria: patients with age ≥65 and American Society of Anesthesiologists physical status classification (ASA) II-III who underwent endoscopic urological procedures. The propofol group received a dose of 1.5 mg kg−1 of propofol over two minutes for induction. The sevoflurane group received 8% of sevoflurane and 100% oxygen through a plastic facemask with the fresh gas flow set at 8 L min−1. The co-induction group received 4% sevoflurane through plastic facemask for two minutes, followed by a 0.75 mg kg−1 dose of propofol. After ensuring full range jaw relaxation, the laryngeal mask airway (LMA) was inserted. Results: Overall, the co-induction technique had a favorable profile in terms of respiratory adverse events, while the sevoflurane group had a favorable profile in terms of hemodynamic stability. Furthermore, 24 (68.6%) patients receiving inhalational sevoflurane had episodes of transient apnea, which constitutes 77.4% of the 31 episodes of transient apnea in the studied sample (p < 0.001). Moreover, six (17.1%) patients in the sevoflurane group had an episode of partial laryngospasm (p = 0.034). Compared with the co-induction group, we found that the propofol group had significantly less systolic and diastolic blood pressures in the second minute, with p values of (0.018) and (0.015), respectively. Conclusions: The co-induction technique utilizing 4% sevoflurane at 8 L min−1 flow of oxygen inhaled over two minutes followed by 0.75 mg kg−1 of propofol achieved less respiratory adverse events compared with the sevoflurane group, and less hemodynamic instability compared with the propofol group.
Materials Engineering in Perovskite for Optimized Oxygen Evolution Electrocatalysis in Alkaline Condition.

Developing robust and highly efficient electrocatalysts for oxygen evolution reaction (OER) is critical for renewable, secure, and emission-free energy technologies. Perovskite Ba0.5 Sr0.5 Co0.8 Fe0.2 O3-δ (BSCF) has emerged as a promising OER electrocatalyst with desirable intrinsic activity. Inspired by the factor that substituting in transition-metal sublattice of the perovskite can further optimize the OER activity, herein, nickel-substituted BSCF is adopted, that is, Ba0.5 Sr0.5 Co0.8- x Fe0.2 Nix O3-δ (x = 0.05, 0.1, 0.2, denoted as BSCFNx, x = 5, 10, 20, respectively), as efficient and stable OER catalysts in alkaline solution. The phase structure, microchemistry, oxygen vacancy, and electrochemical activity of such samples are well-investigated. Endowed with an overpotential of only 278 mV at 10 mA cm-2 and a Tafel slope of merely 47.98 mV dec-1 , BSCFN20 exhibits the optimum OER activity. When constructing a two-electrode cell with BSCFN20 as anode and Pt/C as cathode (BSCFN20||Pt/C) for water splitting, it only requires a voltage of 1.63 V to achieve 50 mA cm-2 , and the BSCFN20||Pt/C remains stable within 80 h at 10 mA cm-2 , superior to the state-of-the-art RuO2 ||Pt/C counterpart. This work provides a feasible strategy for designing stable and highly active perovskite electrocatalysts for future energy storage and conversion.
Powerful Antibacterial Peptides from Egg Albumin Hydrolysates

Native egg albumin (NEA) was isolated from hen eggs and hydrolyzed by pepsin to produce hydrolyzed egg albumin (HEA). HEA was chemically characterized and screened for its antibacterial activity against 10 pathogenic bacteria (6 Gram (+) and 4 Gram (−)). The SDS-PAGE pattern of NEA showed molecular weights of hen egg albumin subunits ranging from 30 to 180 kDa. The highest intensive bands appeared at a molecular mass of about 50 and 97 kDa. Ultra-performance liquid chromatography (UPLC) of the peptic HEA revealed 44 peptides, 17 of them were dipeptides, and the other 27 fractions corresponded to bigger peptides (3–9 amino acids). The dipeptides and big peptides represented 26% and 74% of the total hydrolysate, respectively. The MIC of HEA was about 100 μg/L for Listeria monocytogenes, Bacillus cereus, Staphylococcus aureus, Salmonella typhimurium, Streptococcus pyogenes, and Klebsiella oxytoca and 150 μg/L for Pseudomonas aeruginosa, Bacillus subtilis, and Listeria ivanovii and 200 μg/L for Escherichia coli. L. monocytogenes was the most sensitive organism to HEA. Mixtures of HEA with antibiotics showed more significant antibacterial activity than individually using them. Transmission electron microscopy (TEM) revealed various signs of cellular deformation in the protein-treated bacteria. HEA may electrostatically and hydrophobically interact with the cell wall and cell membrane of the susceptible bacteria, engendering large pores and pore channels leading to cell wall and cell membrane disintegration. Higher cell permeability may, thus, occur, leading to cell emptiness, lysis, and finally death. Alternatively, no toxicity signs appeared when HEA was administrated to Wistar Albino rats as one single dose (2000, 5000 mg/kg body weight) or repeated daily dose (500 and 2500 mg/kg body weight/day) for 28 days to disclose the possible toxicity hazards. HEA did not produce any death.
Recurrent food anaphylaxis and risk factors in children

Data about anaphylaxis recurrence and medical follow-up after an anaphylaxis reaction are scarce. Identify the phenotype of the patients who are the most at risk of anaphylaxis recurrences remains challenging. The aim of the study was to determine the incidence of food anaphylaxis recurrence in a cohort of children previously admitted to emergency care units (ECU) for food anaphylaxis and to determine the characteristics of these at-risk children i.e. with anaphylaxis recurrences.
ClonoMatch: a tool for identifying homologous immunoglobulin and T-cell receptor sequences in large databases

SUMMARY B cell receptor (BCR) and T cell receptor (TCR) repertoires are generated through somatic DNA rearrangements and are responsible for the molecular basis of antigen recognition in the immune system. Next-generation sequencing (NGS) of DNA and the falling cost of sequencing due to continued development of these technologies have made sequencing assays an affordable way to characterize the repertoire of adaptive immune receptors (sometimes termed the 'immunome'). Many new workflows have been developed to take advantage of NGS and have placed the resulting immunome datasets in the public domain. The scale of these NGS datasets has made it challenging to search through the Complementarity-determining region 3 (CDR3), which is responsible for imparting specific antibody-antigen interactions. Thus, there is an increasing demand for sequence analysis tools capable of searching through CDR3s from immunome data collections containing millions of sequences. To address this need, we created a software package called ClonoMatch that facilitates rapid searches in bulk immunome data for BCR or TCR sequences based on their CDR3 sequence or V3J clonotype. AVAILABILITY AND IMPLEMENTATION Documentation, software support and the codebase are all available at https://github.com/crowelab/clonomatch. This software is distributed under the GPL v3 license. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Preparation of Platinum Colloids on Polystyrene Nanospheres and Their Catalytic Properties in Hydrogenation

Well-dispersed platinum colloids have been prepared on polystyrene nanospheres with surface-grafted poly(N-isopropylacrylamide) (PNIPAAm) via the reduction of PtCl62- by ethanol. A range of monodisperse nanospheres was obtained by emulsifier-free dispersion copolymerization of styrene with a PNIPAAm macromonomer. The surface compositions of the polystyrene nanospheres before and after immobilization of Pt colloids have been investigated by X-ray photoelectron spectroscopy. Peak fitting of the C 1s core-line spectra provides evidence for the presence of PNIPAAm chains at the surface of polystyrene nanospheres. These immobilized Pt colloids were found to be active and stable heterogeneous catalysts for the hydrogenation of allyl alcohol in water. Both the particle size and activity of platinum colloids showed a marked dependence on the level of surface PNIPAAm. The average diameter of an immobilized Pt colloid is 15.0 A and largely unchanged after seven cycles in hydrogenation, as confirmed by TEM. The immo.
Tumor-associated macrophage polarization promotes the progression of esophageal carcinoma

The immune response facilitated by tumor-associated macrophages is a vital determinant of tumor progression. We identified differentially expressed genes between various macrophage phenotypes in the Gene Expression Omnibus, and used Kaplan-Meier Plotter to determine which of them altered the prognosis of esophageal carcinoma patients. Fibrinogen-like protein 2 (FGL2), an immunosuppressive factor in the tumor microenvironment of various cancers, was upregulated in M2 macrophages, and higher FGL2 expression was associated with poorer survival in esophageal carcinoma patients. Using the TIMER database, we found that FGL2 expression correlated positively with the levels of immune markers of infiltrating B cells, CD8+ T cells, CD4+ T cells, macrophages, neutrophils and dendritic cells in esophageal carcinoma samples. Correlation analyses in cBioPortal revealed that the mRNA levels of FGL2 correlated strongly with those of interleukin 10, matrix metalloproteinase 9, C-C motif chemokine ligand 5, T-cell immunoglobulin mucin 3, interleukin 13, vascular cell adhesion molecule 1, macrophage colony-stimulating factor and fibroblast growth factor 7 in esophageal carcinoma tissues. The same cytokines were upregulated when esophageal squamous cell carcinoma cells were co-cultured with M2-like tumor-associated macrophages. Thus, by secreting FGL2, M2-like tumor-associated macrophages may create an immunosuppressive tumor microenvironment that induces the occurrence and progression of esophageal carcinoma.
Independent Evolution of Sex Chromosomes in Eublepharid Geckos, A Lineage with Environmental and Genotypic Sex Determination

Geckos demonstrate a remarkable variability in sex determination systems, but our limited knowledge prohibits accurate conclusions on the evolution of sex determination in this group. Eyelid geckos (Eublepharidae) are of particular interest, as they encompass species with both environmental and genotypic sex determination. We identified for the first time the X-specific gene content in the Yucatán banded gecko, Coleonyx elegans, possessing X1X1X2X2/X1X2Y multiple sex chromosomes by comparative genome coverage analysis between sexes. The X-specific gene content of Coleonyx elegans was revealed to be partially homologous to genomic regions linked to the chicken autosomes 1, 6 and 11. A qPCR-based test was applied to validate a subset of X-specific genes by comparing the difference in gene copy numbers between sexes, and to explore the homology of sex chromosomes across eleven eublepharid, two phyllodactylid and one sphaerodactylid species. Homologous sex chromosomes are shared between Coleonyx elegans and Coleonyx mitratus, two species diverged approximately 34 million years ago, but not with other tested species. As far as we know, the X-specific gene content of Coleonyx elegans / Coleonyx mitratus was never involved in the sex chromosomes of other gecko lineages, indicating that the sex chromosomes in this clade of eublepharid geckos evolved independently.