Miracle-dz/UniFAR-FTUs huggingface dataset:
Heparan sulfate proteoglycans interact exclusively with conformationally intact HPV L1 assemblies: Basis for a virus‐like particle ELISA

In this article, we demonstrate that interaction of human papillomavirus‐like particles (HPV‐VLPs) with the putative glucosaminoglycan binding receptor is strictly dependent on conformational integrity. Such conformations are present on VLPs and capsomeres but not on monomers of the major capsid protein, L1, confirming reports that capsomeres can induce virus‐neutralizing antibodies. Furthermore, we show the suitability of this specific interaction for development of VLP‐based enzyme‐linked immunosorbent assays (ELISAs), using heparin for indirect coupling of VLPs to microtiter plates, which may add an intrinsic quality control. This avoids presentation of linear, often highly cross‐reactive epitopes of L1. In addition, heparin specifically interacts with a wide variety of HPV types, making it a prime candidate for a universal capture molecule. J. Med. Virol. 75:114–121, 2005. © 2005 Wiley‐Liss, Inc.
Hydration in the Pediatric Athlete — How to Guide Your Patients

Hydration is arguably among the foremost priorities youth athletes, parents, and coaches habitually consider as vital for sports. Insufficient hydration and a resultant measurable sweat-induced body water deficit can negatively affect performance and, in some athletic scenarios, can be a danger to a young athlete’s health and safety, especially during vigorous physical activity in a warm-to-hot environment. Accordingly, it is essential to be well hydrated prior to practice, training, and competition and minimize total body water deficits incurred while being mindful of the greater sweat losses and hydration needs/challenges that accompany physical growth and maturation. Informed clinicians can play a key role as trusted resources in providing the most effective guidelines and making the best overall individual recommendations regarding hydration for youth athletes.
L1 adaptive attitude control for a picoscale satellite test bed

Smaller and more agile space assets, such as picoscale satellites, have become one of the promising focuses for space missions because of the benefits in cost reduction, enhanced flexibility, survivability, and reliability. A simple magnetic torque coil-based attitude control system is proposed here for a one unit picoscale satellite test bed using an L1 adaptive controller. A pointing accuracy of 2 deg is achieved in both a one-axis ground test bed and three-axis control simulation.
Hematogenous pyelonephritis in rats. IV. Relationship of bacterial species to the pathogenesis and sequelae of chronic pyelonephritis.

Despite the inherent differences in the various bacterial species responsible for human pyelonephritis, little consideration has been given to differences in the characteristics of the renal disease resulting from infection by each species. While it is possible that pyelonephritis is a single disease entity that develops in an identical fashion regardless of the type of bacteria, scattered clinical observations suggest that variations in the pathologic processes are governed to some extent by the properties of the infecting micro-organisms (1-4). In order to obtain further information on the pathologic differences resulting from renal infection by a variety of bacterial species, pyelonephritis was produced in rats by a method that allows the infection to develop without the confusing effects of surgical hydronephrosis (5). In the study described in the preceding paper in this series, remarkable differences were observed in the character of the acute and subacute renal infection produced by various strains of Escherichia coli, Proteus, Pseudomonas aeruginosa and enterococci isolated from patients with pyelonephritis (6). The present study was designed to examine the differential pathological effects of three of these species in chronic pyelonephritis in rats which were followed as long as one year after the onset of renal infection. In addition, the relationship of chronic pyelonephritis to hypertensive vascular disease was studied in an attempt to learn whether differences in bacterial species could account for the inconstant occurrence of hypertension in human chronic pyelonephritis and its absence in experimental chronic pyelonephritis due to E. coli (7).
Results of a Phase 1 Study of AME-133v (LY2469298), an Fc-Engineered Humanized Monoclonal Anti-CD20 Antibody, in FcγRIIIa-Genotyped Patients with Previously Treated Follicular Lymphoma

Purpose: AME-133v is a humanized monoclonal antibody engineered to have increased affinity to CD20 and mediate antibody-dependent cell-mediated cytotoxicity (ADCC) better than rituximab. Safety, pharmacokinetics, and efficacy were assessed in a phase 1/2 trial in patients with previously treated follicular lymphoma (FL). Patients and Methods: AME-133v was characterized in vitro by ADCC and cell binding assays. A phase 1 study was conducted in which 23 previously treated patients with FL were assigned sequentially to one of five dose-escalation cohorts of AME-133v at 2, 7.5, 30, 100, or 375 mg/m2 weekly × 4 doses. Results: AME-133v showed a 13- to 20-fold greater binding affinity for CD20 and was 5- to 7-fold more potent than rituximab in ADCC assays. Cell binding assays showed AME-133v and rituximab competed for an overlapping epitope on the CD20 antigen, and AME-133v inhibited binding of biotinylated rituximab to CD20 in a concentration-dependent manner. AME-133v was well tolerated by patients and common related adverse events included chills and fatigue. One patient experienced a dose-limiting toxicity of neutropenia. AME-133v showed nonlinear pharmocokinetics with properties similar to rituximab. Selective reduction of B cells during and after AME-133v treatment was shown by flow cytometry of peripheral blood. A partial or complete response was observed in 5 of 23 (22%) patients and the median progression-free survival was 25.4 weeks. Conclusions: AME-133v was safe and well tolerated at the doses tested. AME-133v showed encouraging results as an anti-CD20 therapy in heavily pretreated FL patients with the less favorable FcγRIIIa F-carrier genotype. Clin Cancer Res; 18(5); 1395–403. ©2012 AACR.
Knowledge and skill retention of a mobile phone data collection protocol in rural Liberia.

INTRODUCTION With a large number of births occurring outside the formal health system, it is difficult to determine the number of pregnant women in rural regions of Liberia. The exponential growth of mobile phone use in developing countries provides a potential avenue for data collection on maternal and child health in such rural, remote regions. METHODS A pre-, post-, and one-year posttest design was used to collect data on knowledge and skill retention for 7 essential items required for mobile phone use among traditional birth attendants (TBAs) trained in a short message service (SMS) texting data collection protocol (N = 99) in rural Liberia. RESULTS Sixty-three participants (63.6% retention) completed the one-year posttest and displayed evidence of statistically significant knowledge and skill retention in 6 of the 7 tasks (P < .005), including the ability to: 1) turn on the phone, 2) use the mobile phone to make a call, 3) recognize that they have coverage, 4) recognize that the mobile phone is charged, 5) create a SMS text message without help, and 6) send a SMS text message without help. The TBAs continued to have difficulty with more complex tasks such as adding minutes to a phone. DISCUSSION The mobile phone data-collection protocol proved feasible with TBAs demonstrating knowledge retention in a one-year posttest; however, clinical significance needs further investigation. The protocol increased communication and collaboration among TBAs, certified midwives, and clinic staff.
FEATURES-LEVEL FUSION OF FACE AND HANDWRITTEN SIGNATURE IN MULTIMODAL BIOMETRIC IDENTIFICATION SYSTEM

Biometrics is an emerging tool used to identify humans by their physical and/or behavioral characteristics. This article presents a novel neural network–based approach for features-level fusion in a multimodal biometric identification system by combining both physical (human face) and behavioral (handwritten signature) traits. A single biometrics system has the weakness of providing neither 100% identification nor a 0% false accept rate (FAR)/false reject rate (FRR). One solution to this is to combine different biometrics together to get a multimodal biometric identification system. Moreover, a multimodal system is also robust in providing security against spoof attacks. Images of 32 × 32 pixels are used to eliminate bulk storage and processing requirements.
The yield of monitoring adenovirus in pediatric hematopoietic stem cell transplant patients

Abstract Human adenovirus (HAdV) is recognized as a serious pathogen after allogeneic hematopoietic stem cell transplantation (HSCT), causing morbidity and mortality. Currently, there is no universal agreement regarding routine HAdV surveillance after HSCT. We assessed the impact of HAdV weekly monitoring by polymerase chain reaction (PCR) on HAdV viremia rates and the risk factors that influence survival. Three-hundred and fifty-six pediatric allogeneic HSCT were done between 2007 and 2015. Until July 2011, HAdV testing was performed based on clinical suspicion (cohort 1, n = 175) and from August 2011, weekly blood-HAdV monitoring was done (cohort 2, n = 181) until day +100. Twenty-three patients (4 [2.3%] from cohort 1 and 19 [10.5%] from cohort 2, p = .001) were found with HAdV viremia and seven of them died. Both cohorts had a similar incidence of HAdV-associated mortality (3/175; 1.7% in cohort 1 and 4/181; 2.2% in cohort 2). Respiratory failure was the cause of death in all patients. Clinical symptoms appeared prior to or within 5 days of HAdV detection in cohort 2. In summary, weekly monitoring was associated with higher detection of HAdV. The study could not assess survival benefit due to small numbers of HAdV-positive cases. In many instances, symptoms occurred with the development of positive HAdV blood PCR results and hence, symptomatology could have triggered the test. Future studies are needed to provide data that help establishing a uniform approach for regular monitoring of HAdV post-transplant.
Towards Cross-Project Defect Prediction with Imbalanced Feature Sets

Cross-project defect prediction (CPDP) has been deemed as an emerging technology of software quality assurance, especially in new or inactive projects, and a few improved methods have been proposed to support better defect prediction. However, the regular CPDP always assumes that the features of training and test data are all identical. Hence, very little is known about whether the method for CPDP with imbalanced feature sets (CPDP-IFS) works well. Considering the diversity of defect data sets available on the Internet as well as the high cost of labeling data, to address the issue, in this paper we proposed a simple approach according to a distribution characteristic-based instance (object class) mapping, and demonstrated the validity of our method based on three public defect data sets (i.e., PROMISE, ReLink and AEEEM). Besides, the empirical results indicate that the hybrid model composed of CPDP and CPDP-IFS does improve the prediction performance of the regular CPDP to some extent.
Propagation and senescence of human marrow stromal cells in culture: a simple colony‐forming assay identifies samples with the greatest potential to propagate and differentiate

Marrow stromal cells (MSCs) were isolated from bone marrow obtained by aspirates of the iliac crest of normal volunteers. The cells were isolated by their adherence to plastic and then passed in culture. Some of the samples expanded through over 15 cell doublings from the time frozen stocks were prepared. Others ceased replicating after about four cell doublings. The replicative potential of the cells in culture was best predicted by a simple colony‐forming assay in which samples from early passages were plated at low densities of about 10 cells per cm2. Samples with high colony‐forming efficiency exhibited the greatest replicative potential. The colonies obtained by plating early passage cells at low density varied in size and morphology. The large colonies readily differentiated into osteoblasts and adipocytes when incubated in the appropriate medium. As samples were expanded in culture and approached senescence, they retained their ability to differentiate into osteoblasts. However, the cells failed to differentiate into adipocytes. The loss of multipotentiality following serial passage in culture may have important implications for the use of expanded MSCs for cell and gene therapy.
Dendritic neurotransmitter release and its modulation in accessory olfactory bulb circuits

Dendrites are classically regarded as the brain's "listeners," while neuronal output is thought to be the exclusive privilege of the axon. Although we now appreciate the complexity of dendritic integration, the role of dendrites as output structures has received less attention. This is becoming an increasingly important topic, as the list of cell types with release competent dendrites continues to grow. One boon of coupling dendritic activity to dendritic release is that outputs from a single neuron - typically thought to occur from fixed sites with stereotyped dynamics - may occur for signals of varying spatial extent, timecourse, and release efficacy. In essence, dendritic output may "inherit" the same diversity characteristic of events in excitable dendrites. Here I studied dendritic transmitter output and its modulation in cells of the accessory olfactory bulb - a CNS structure critical for processing species-specific chemical signals called pheromones. Because of the stereotypy of its inputs, the prevalence of dendritic transmitter release from its cells, and its well-defined outputs, the AOB offers a superb model system for studying the integrative and output properties of dendrites. I first characterized basic excitable properties of the apical dendrites of mitral cells (the principal AOB neurons), and observed that they conduct non-decremental action potentials (APs). In addition to APs, these dendrites were also found to support compartmentalized, synaptically-evoked calcium spikes. Both APs and local spikes were triggers of dendritic glutamate release and feedback inhibition, suggesting that neuronal output can be flexibly routed to particular populations of postysynaptic cells. I next asked whether the relative efficacy of particular dendritic events as triggers of transmitter release can be altered, as this could provide an additional level of control over single neuron output. I found that metabotropic glutamate receptors (mGluRs) play a key role in controlling dendritic output from AOB mitral cells and an obligatory role in concomitant feedback inhibition. This work culminates with the demonstration of a new principle of neuronal signaling: the ability of mGluRs to gate a transition between phasic and tonic dendritic transmitter release. Taken in total, these results extend our understanding of how the outputs from single neurons are controlled.
Effect of Paroxetine on Physiological Response to Stress and Smoking

Objective Smokers often smoke during stressful events, which leads to large increases in cardiovascular measures such as blood pressure (BP) and heart rate (HR). Because exaggerated cardiovascular response to stress is associated with cardiovascular disease risk, this study examined paroxetine’s effect on the physiological response to combining stress and smoking. Methods Sixty-two participants completed this randomized, double-blind, crossover study in which BP, HR, plasma epinephrine, norepinephrine, and cortisol concentrations were measured at rest, while smoking, and during a speech and math task. Laboratory sessions occurred after 1 month of paroxetine and after 1 month of placebo. Results Significant increases occurred for all measures (except cortisol) during smoking, with further increases occurring during the speech task (time effect, p < .001). After 1 month of paroxetine, norepinephrine and HR values were lower and cortisol values were higher (versus placebo) throughout the laboratory session (treatment effect, p < .001). Treatment × time effects were observed for BP and HR (all, p < .01). For systolic and diastolic BP, a smaller increase (from baseline to measures during speech) was observed after paroxetine compared with placebo (both, p < .006). In both measures, the increase in response to smoking was similar for both treatments; however, the further increase during the speech was smaller when taking paroxetine (versus placebo). Conclusions This study suggests that paroxetine affects physiological response to stress in smokers. Further research is needed to determine the impact of these results on cardiovascular health. Trial Registration clinicaltrials.gov Identifier: NCT00218439.
A novel false-positive cause in testis scintigraphy in the diagnosis of testis torsion

Testis scintigraphy is the most reliable modality in the diagnosis of testis torsion since it directly reflects the vascularity of the testis. The ‘rim sign’ is considered as the pathognomonic sign of the missed torsion. However, there are some possible false-positive cases. In this case report, we would like to present an unexpected false-positive cause of the ‘rim sign’ in testis scintigraphy in an 18-year-old male patient.
Analysis and Design of Raptor Codes Using a Multi-Edge Framework

The focus of this paper is on the analysis and design of Raptor codes using a multi-edge framework. In this regard, we first represent Raptor codes as multi-edge type (MET) low-density parity-check codes. This MET representation gives a general framework to analyze and design Raptor codes over a binary input additive white Gaussian noise channel using MET density evolution (MET-DE). We then consider a joint decoding scheme based on the belief propagation (BP) decoding for Raptor codes in the multi-edge framework, and analyze the convergence behavior of the BP decoder using MET-DE. In joint decoding of Raptor codes, the component codes corresponding to the inner code and the precode are decoded in parallel and provide information to each other. We also derive an exact expression for the stability of Raptor codes with joint decoding. We then propose an efficient Raptor code design method using the multi-edge framework, where we simultaneously optimize the inner code and the precode. Through density evolution analysis we show that the designed Raptor codes using the multi-edge framework outperform the existing Raptor codes in literature in terms of realized rates.
Association between Faecalibacterium prausnitzii and dietary fibre in colonic fermentation in healthy human subjects

The intestinal microbiota are a complex ecosystem influencing the immunoregulation of the human host, providing protection from colonising pathogens and producing SCFA as the main energy source of colonocytes. Our objective was to investigate the effect of dietary fibre exclusion and supplementation on the intestinal microbiota and SCFA concentrations. Faecal samples were obtained from healthy volunteers before and after two 14 d periods of consuming formulated diets devoid or supplemented with fibre (14 g/l). The faecal microbiota were analysed using fluorescent in situ hybridisation and SCFA were measured using GLC. There were large and statistically significant reductions in the numbers of the Faecalibacterium prausnitzii (P ≤ 0·01) and Roseburia spp. (P ≤ 0·01) groups during both the fibre-free and fibre-supplemented diets. Significant and strong positive correlations between the proportion of F. prausnitzii and the proportion of butyrate during both baseline normal diets were found (pre-fibre free r 0·881, P = 0·001; pre-fibre supplemented r 0·844, P = 0·002). A significant correlation was also found between the proportional reduction in F. prausnitzii and the proportional reduction in faecal butyrate during both the fibre-free (r 0·806; P = 0·005) and the fibre-supplemented diet (r 0·749; P = 0·013). These findings may contribute to the understanding of the association between fibre, microbiota and fermentation in health, during enteral nutrition and in disease states such as Crohn's disease.
from 18 S rRNA Sequences

Several families in the beetle suborder Adephaga have an aquatic life style and are commonly grouped in the “Hydradephaga,” but their monophyly is contentious and relationships between and within these families are poorly understood. Here we present fulllength 18S rRNA sequence for 84 species of Hydradephaga, including representatives of most major groups down to the tribal level, and a total of 68 species of the largest family, Dytiscidae. Using a direct optimization method for the alignment of length-variable regions, the preferred tree topology was obtained when the cost of gaps and the cost of nucleotide changes were equal, and three hypervariable regions of 18S rRNA were downweighted by a factor of five. Confirming recent molecular studies, the Hydradephaga were found to be monophyletic, indicating a single colonization of the aquatic medium. The most basal group within Hydradephaga is Gyrinidae, followed in a comb-like arrangement by families Haliplidae, Noteridae, Amphizoidae, and Hygrobiidae plus Dytiscidae. Under most alignment parameters, Hygrobiidae is placed amid Dytiscidae in an unstable position, suggesting a possible data artifact. Basal relationships within Dytiscidae are not well established, nor is the monophyly of subfamilies Hydroporinae and Colymbetinae. In contrast, relationships at the genus level appear generally well supported. Despite the great differences in the rates of change and the significant incongruence of the phylogenetic signal in conserved vs hypervariable regions of the 18S rRNA gene, both contribute to establish relationships at all taxonomic levels. © 2002 Elsevier Science (USA)
A Cytophaga species endotoxin as a putative agent of occupation-related lung disease

A previous study suggested that a biologically active bacterial endotoxin was a putative agent of lung disease in a textile-producing facility. The endotoxin was isolated from the biomass growing in a chilled-water spray air humidification system. The bacterial flora of the air humidification system were isolated and taxonomically identified to the genus level. By using indirect immunofluorescence assays, a serologically reactive Cytophaga species was identified. A serologically reactive, biologically active (Limulus assay) endotoxin was purified from phenol extracts of the Cytophaga species. The endotoxin contained sugars, hexosamines, and lipids identical to those found in the humidifier biomass endotoxin. All subjects with biopsy-proven and suspected lung disease had antibodies directed toward the purified Cytophaga endotoxin. The data suggest that the Cytophaga endotoxin is the putative agent of lung disease in the textile facility.