Miracle-dz/UniFAR-FTUs huggingface dataset:
Assessing the health information source perceptions of tweens using card-sorting exercises

As young people are increasingly turning to the Internet to meet their information needs, it is imperative to investigate their perceptions regarding various potential sources of health information. A series of card-sorting exercises were administered to new participants in an after-school programme (HackHealth) to find out which sources of health information these greater Washington DC metro area middle school students would turn to, which they would not and their reasons behind these judgements. The findings revealed that participants were very aware of the importance of trustworthiness when looking for health information and they valued both professional expertise based on formal education and expertise born of personal experience with a particular health condition. However, they also valued convenience, ease and speed, and sometimes sacrificed information quality. Some important implications of these findings for healthcare and information professionals are identified and suggestions for future research in this area are offered.
Glucosylceramide synthase regulates the proliferation and apoptosis of liver cells in vitro by Bcl-2/Bax pathway

Our previous study found that glucosylceramide, a type of sphingolipids, was associated with liver inflammation and fibrosis. Glucosylceramide is generated by glucosylceramide synthase (GCS), which is encoded by the UDP-glucose ceramide glucosyltransferase (UGCG) gene. GCS is a key enzyme to regulate the physiological activity of cells. However, the role of GCS in hepatic cells remains unclear. The aim of the present study was to explore the mechanism of GCS in the proliferation and apoptosis of liver cells. Following the interference of expression of GCS in vitro by UGCG small interfering (si)RNA, the MTT method was performed to detect the proliferation of HL-7702 hepatocytes, and ELISA was used to determine the concentration of tumor necrosis factor (TNF) α and cytochrome c in the supernatant of culture system. Fluorescence microscopy was used to observe the apoptosis of liver cells stained by Annexin V-fluorescein isothiocyanate/propidium iodide. Reverse transcription-quantitative polymerase chain reaction was used to detect the gene expression apoptosis regulator Bcl-2 (Bcl-2), apoptosis regulator Bax (Bax) and caspase-3. Western blot analysis was used to detect the expression of caspase-3 protein in the liver cells. Following treatment with UGCG siRNA for 24 h, the proliferation of HL-7702 hepatocytes was significantly inhibited when compared with the transfection reagent group. Furthermore, the early and advanced apoptosis of liver cells showed an increasing trend. Additionally, concentrations of TNF α and cytochrome c showed no significant difference between the UGCG siRNA and transfection reagent groups. Compared with the transfection reagent group, Bcl-2 mRNA expression decreased, and Bax and caspase-3 mRNA expression increased in the UGCG siRNA transfection group. The protein expression level of caspase-3 showed increased in hepatocytes following the treatment with UGCG siRNA. In conclusion, the metabolic changes of sphingolipids caused by the lack of GCS may be involved in the proliferation and apoptosis of liver cells through the Bcl-2/Bax signaling pathway.
Phosphorylated E2F1 is stabilized by nuclear USP11 to drive Peg10 gene expression and activate lung epithelial cells

Phosphorylation affects ubiquitination, stability, and activity of transcriptional factors, thus regulating various cellular functions. E2F transcriptional factor 1 (E2F1) regulates paternally expressed imprinted gene 10 (Peg10) expression, thereby promoting cell proliferation. However, the effect of E2F1 stability on Peg10 expression and the molecular regulation of E2F1 stability by its phosphorylation have not been well demonstrated. Here, we describe a new pathway in which phosphorylation of E2F1 by GSK3β increases E2F1 association with the deubiquitinating enzyme, ubiquitin-specific protease 11 (USP11), which removes K63-linked ubiquitin chains thereby preventing E2F1 degradation in the nuclei. Downregulation of USP11 increases E2F1 ubiquitination and reduces E2F1 stability and protein levels, thereby decreasing Peg10 mRNA levels. Physiologically, USP11 depletion suppresses cell proliferation and wound healing in lung epithelial cells, and these effects are reversed by E2F1 and PEG10 overexpression. Thus, our study reveals a new molecular model that phosphorylation promotes substrate stability through increasing its association with a deubiquitinating enzyme. The data suggest that GSK3β and USP11 act in concert to modulate E2F1 abundance and PEG10 expression in lung epithelial cells to affect cell wound healing. This study provides new therapeutic targets to lessen lung injury by improving lung epithelial cell repair and remodeling after injury.
Early Therapeutic Drug Monitoring for Isoniazid and Rifampin among Diabetics with Newly Diagnosed Tuberculosis in Virginia, USA

Slow responders to tuberculosis (TB) treatment in Virginia have prolonged treatment duration and consume more programmatic resources. Diabetes is an independent risk factor for slow response and low serum anti-TB drug concentrations. Thus, a statewide initiative of early therapeutic drug monitoring (TDM) for isoniazid and rifampin at 2 weeks after TB treatment was piloted for all diabetics with newly diagnosed TB. During the period of early TDM, 12/01/2011–12/31/2012, 21 diabetics had C 2 hr concentrations performed and 16 (76%) had a value below the expected range for isoniazid, rifampin, or both. Fifteen had follow-up concentrations after dose adjustment and 12 (80%) increased to within the expected range (including all for rifampin). Of 16 diabetic patients with pulmonary TB that had early TDM, 14 (88%) converted their sputum culture to negative in <2 months. Early TDM for diabetics was operationally feasible, may speed response to TB therapy, and can be considered for TB programs with high diabetes prevalence.
Attenuation of offset analgesia is associated with suppression of descending pain modulatory and reward systems in patients with chronic pain

Background Offset analgesia is a disproportionate decrease of pain perception following a slight decrease of noxious thermal stimulus and attenuated in patients with neuropathic pain. We examined offset analgesia in patients with heterogeneous chronic pain disorders and used functional magnetic resonance imaging to explore modification of cerebral analgesic responses in comparison with healthy controls. Results We recruited seventeen patients with chronic pain and seventeen age-, sex-matched healthy controls. We gave a noxious thermal stimulation paradigm including offset analgesia and control stimuli on the left volar forearm, while we obtained a real-time continuous pain rating and a whole-brain functional magnetic resonance imaging. Baseline, first plateau (5 s), increment (5 s), and second plateau (20 s) temperatures of offset analgesia stimulus were set at 32°C, 46°C, 47°C, and 46°C, respectively. Control stimulus included 30-s 46°C stimulus or only the first 10 s of offset analgesia stimulus. We evaluated magnitude of offset analgesia, analyzed cerebral activation by thermal stimulation, and further compared offset analgesia-related activation between the groups. Magnitude of offset analgesia was larger in controls than in patients (median: 28.9% (interquartile range: 11.0–56.0%) vs. 19.0% (4.2–48.7%), p = 0.047). During the second plateau, controls showed a larger blood oxygenation level-dependent activation than patients at the putamen, anterior cingulate, dorsolateral prefrontal cortices, nucleus accumbens, brainstem, and medial prefrontal cortex (p < 0.05), which are known to mediate either of descending pain modulation or reward responses. Offset analgesia-related activity at the anterior cingulate cortex was negatively correlated with neuropathic component of pain in patients with chronic pain (p = 0.004). Conclusions Attenuation of offset analgesia was associated with suppressed activation of the descending pain modulatory and reward systems in patients with chronic pain, at least in the studied cohort. The present findings might implicate both behavioral and cerebral plastic alterations contributing to chronification of pain. Clinical trial registry: The Japanese clinical trials registry (UMIN-CTR, No. UMIN000011253; http://www.umin.ac.jp/ctr/)
Segmental regulation of pulmonary vascular permeability by store-operated Ca2+ entry.

An intact endothelial cell barrier maintains normal gas exchange in the lung, and inflammatory conditions result in barrier disruption that produces life-threatening hypoxemia. Activation of store-operated Ca2+ (SOC) entry increases the capillary filtration coefficient ( K f,c) in the isolated rat lung; however, activation of SOC entry does not promote permeability in cultured rat pulmonary microvascular endothelial cells. Therefore, current studies tested whether activation of SOC entry increases macro- and/or microvascular permeability in the intact rat lung circulation. Activation of SOC entry by the administration of thapsigargin induced perivascular edema in pre- and postcapillary vessels, with apparent sparing of the microcirculation as evaluated by light microscopy. Scanning and transmission electron microscopy revealed that the leak was due to gaps in vessels ≥ 100 μm, consistent with the idea that activation of SOC entry influences macrovascular but not microvascular endothelial cell shape. In contrast, ischemia and reperfusion induced microvascular endothelial cell disruption independent of Ca2+ entry, which similarly increased K f,c. These data suggest that 1) activation of SOC entry is sufficient to promote macrovascular barrier disruption and 2) unique mechanisms regulate pulmonary micro- and macrovascular endothelial barrier functions.
History-Aware Autonomous Exploration in Confined Environments Using MAVs

Many scenarios require a robot to be able to explore its 3D environment online without human supervision. This is especially relevant for inspection tasks and search and rescue missions. To solve this high-dimensional path planning problem, sampling-based exploration algorithms have proven successful. However, these do not necessarily scale well to larger environments or spaces with narrow openings. This paper presents a 3D exploration planner based on the principles of Next-Best Views (NBVs). In this approach, a Micro-Aerial Vehicle (MAV)equipped with a limited field-of-view depth sensor randomly samples its configuration space to find promising future viewpoints. In order to obtain high sampling efficiency, our planner maintains and uses a history of visited places, and locally optimizes the robot's orientation with respect to unobserved space. We evaluate our method in several simulated scenarios, and compare it against a state-of-the-art exploration algorithm. The experiments show substantial improvements in exploration time (2 ⨯ faster), computation time, and path length, and advantages in handling difficult situations such as escaping dead-ends (up to 20 ⨯ faster). Finally, we validate the on-line capability of our algorithm on a computational constrained real world MAV.
More Easily Cultivated Than Identified: Classical Isolation With Molecular Identification of Vaginal Bacteria.

BACKGROUND Women with bacterial vaginosis (BV) have complex communities of anaerobic bacteria. There are no cultivated isolates of several bacteria identified using molecular methods and associated with BV. It is unclear whether this is due to the inability to adequately propagate these bacteria or to correctly identify them in culture. METHODS Vaginal fluid from 15 women was plated on 6 different media using classical cultivation approaches. Individual isolates were identified by 16S ribosomal RNA (rRNA) gene sequencing and compared with validly described species. Bacterial community profiles in vaginal samples were determined using broad-range 16S rRNA gene polymerase chain reaction and pyrosequencing. RESULTS We isolated and identified 101 distinct bacterial strains spanning 6 phyla including (1) novel strains with <98% 16S rRNA sequence identity to validly described species, (2) closely related species within a genus, (3) bacteria previously isolated from body sites other than the vagina, and (4) known bacteria formerly isolated from the vagina. Pyrosequencing showed that novel strains Peptoniphilaceae DNF01163 and Prevotellaceae DNF00733 were prevalent in women with BV. CONCLUSIONS We isolated a diverse set of novel and clinically significant anaerobes from the human vagina using conventional approaches with systematic molecular identification. Several previously "uncultivated" bacteria are amenable to conventional cultivation.
Simulations of dry friction between rough surfaces and corresponding nonlinear problems at nano and microscales

The work is devoted to modelling of dry sliding friction between contacting surfaces and related problems of contact mechanics. To limit the number of physical phenomena involved, the studies are targeted to systems used in vacuum conditions, hence there is no need to consider environmental parameters, such as humidity or oxidation films. Although friction has been studied over many years, challenges remain for obtaining a comprehensive understanding and a quantitative description of influence of nanometre scale effects on friction at micro/macro levels. Many existing models are critically re-examined using ideas of nanoscience. The studies start from the classic Zhuravlev model well-known as the Greenwood - Williamson model representing rough surfaces as collections of spherical elastic asperities. Contact problems for bodies of various shapes are investigated using the Galin solution along with the Borodich rescaling formulae. The rescaling method is applied to indentation experiments by spherical and nominally sharp punches and then a way to model dry friction following Zhuravlev’s arguments is outlined. New ways for numerical simulations of dry sliding friction are presented assuming the friction force is defined by the total energy dissipated over the sliding distance. Novel hierarchical, multiscale, multilevel structural models for simulation of sliding dry friction are presented. The models reflect the physical mechanisms which are most relevant to dry friction at the specific length scales: the chemical interactions at the atomic scale, the adhesive (van der Waals) interactions at the nanoscale, and the mechanical interlocking of asperities and their coupling at the micro and macroscales. Although the models include some features of known models, the nanotribological interpretation of the features is novel. It is argued that the nano-asperities do not deform plastically due to the so-called Polonsky-Keer effect. The obtained results are in good agreement with the experimental observations found in literature.
Enhancing Biodiesel Production from Soybean Oil using Ultrasonics

Our objective was to determine the effect of ultrasonics on biodiesel production from soybean oil. In this study, ultrasonic energy was applied in two different modes: pulse and continuous sonication. Soybean oil was mixed with methanol and a catalytic amount of sodium hydroxide, and the mixture was sonicated at three levels of amplitude (60, 120, and 180 μmpp) in pulse mode (5 s on/25 s off). In the continuous mode, the same reaction mixture was sonicated at 120 μmpp for 15 s. The reaction was monitored for biodiesel yield by stopping the reaction at selected time intervals and analyzing the biodiesel content by thermogravimetric analysis (TGA). The results were compared to a control group, in which the same reactant composition was allowed to react at 60 °C for intervals ranging from 5 min to 1 h without ultrasonic treatment. It was observed that ultrasonic treatment resulted in a 96% by weight isolated yield of biodiesel in less than 90 s using the pulse mode, compared to 30−45 min for the unsonicated .
Analysis of polymerization shrinkage and thermo-mechanical characterizations of resin-based dental composite reinforced with silane modified nanosilica filler particle

The main challenges encountered in the development of dental composites are to formulate the composites with minimum polymerization shrinkage without sacrificing degree of conversion. To overcome this problem, various fillers and composite materials have been proposed till date, but the analysis was limited. Hence, our main objective of this study was to investigate the polymerization shrinkage and mechanical behavior of resin-based dental composite by means of adding different weight fraction of silane-modified nanosilica particles. The dental composite consisting of a monomer system (50 wt.% bisphenol-A glycidyl methacrylate (Bis-GMA), 49 wt. % tri-ethylene glycol dimethacrylate (TEGDMA), 0.2 wt. -% Camphorquinone and 0.8 wt. -% Ethyl 4 dimethyl amino benzoate) was filled with different weight percentage of silane-modified nanosilica particles. Fourier transform infrared (FTIR) spectroscopy and transmission electron microscope (TEM) analysis of modified nanosilica particles clearly indicated the presence of C = O bond of carbonyl group and stable siloxane linkage between the monomer and filler particle. The mechanical results indicated that the composite with 3 wt. % nanosilica particle exhibited maximum depth of cure (4.2 mm) and the lowest polymerization shrinkage (1.53%). However, unfilled dental composite exhibited maximum compression strength (464 MPa) which was approximately 55% more than the compressive strength of filled composite. Finally, Dynamic mechanical analysis (DMA) results revealed that 1 wt. -% nanosilica content recorded the highest value of storage modulus. The proposed dental material exhibited better mechanical properties and lowest polymerization shrinkage with maximum conversion.
Comparative Analysis of Sequence Clustering Methods for Deduplication of Biological Databases

The massive volumes of data in biological sequence databases provide a remarkable resource for large-scale biological studies. However, the underlying data quality of these resources is a critical concern. A particular challenge is duplication, in which multiple records have similar sequences, creating a high level of redundancy that impacts database storage, curation, and search. Biological database deduplication has two direct applications: for database curation, where detected duplicates are removed to improve curation efficiency, and for database search, where detected duplicate sequences may be flagged but remain available to support analysis. Clustering methods have been widely applied to biological sequences for database deduplication. Since an exhaustive all-by-all pairwise comparison of sequences cannot scale for a high volume of data, heuristic approaches have been recruited, such as the use of simple similarity thresholds. In this article, we present a comparison between CD-HIT and UCLUST, the two best-known clustering tools for sequence database deduplication. Our contributions include a detailed assessment of the redundancy remaining after deduplication, application of standard clustering evaluation metrics to quantify the cohesion and separation of the clusters generated by each method, and a biological case study that assesses intracluster function annotation consistency to demonstrate the impact of these factors on a practical application of the sequence clustering methods. Our results show that the trade-off between efficiency and accuracy becomes acute when low threshold values are used and when cluster sizes are large. This evaluation leads to practical recommendations for users for more effective uses of the sequence clustering tools for deduplication.
Samd7 is a cell type-specific PRC1 component essential for establishing retinal rod photoreceptor identity

Significance Each retinal rod and cone photoreceptor cell subtype expresses a distinct set of genes including the genes encoding phototransduction components such as opsins and transducins. This subtype-specific gene expression is essential for achieving proper function in each photoreceptor cell. While the various cone and rod photoreceptor cell gene expressions are regulated by multiple transcription factors, whether epigenetic regulation plays an important role for photoreceptor cell-specific gene expression has been unclear. In the current study, we found that a photoreceptor-specific protein, Samd7, functions as a component of the epigenetic gene-silencing complex and is essential for establishing rod photoreceptor cell identity and function by silencing nonrod gene expression in developing rod photoreceptor cells. Precise transcriptional regulation controlled by a transcription factor network is known to be crucial for establishing correct neuronal cell identities and functions in the CNS. In the retina, the expression of various cone and rod photoreceptor cell genes is regulated by multiple transcription factors; however, the role of epigenetic regulation in photoreceptor cell gene expression has been poorly understood. Here, we found that Samd7, a rod-enriched sterile alpha domain (SAM) domain protein, is essential for silencing nonrod gene expression through H3K27me3 regulation in rod photoreceptor cells. Samd7-null mutant mice showed ectopic expression of nonrod genes including S-opsin in rod photoreceptor cells and rod photoreceptor cell dysfunction. Samd7 physically interacts with Polyhomeotic homologs (Phc proteins), components of the Polycomb repressive complex 1 (PRC1), and colocalizes with Phc2 and Ring1B in Polycomb bodies. ChIP assays showed a significant decrease of H3K27me3 in the genes up-regulated in the Samd7-deficient retina, showing that Samd7 deficiency causes the derepression of nonrod gene expression in rod photoreceptor cells. The current study suggests that Samd7 is a cell type-specific PRC1 component epigenetically defining rod photoreceptor cell identity.
Detection of gastric slow wave propagation from the cutaneous electrogastrogram.

The gastric slow wave is originated in the proximal stomach and propagates distally toward the pylorus. It determines the maximum frequency and propagation of gastric contractions. The aim of this study was to detect the propagation of the gastric slow wave from the surface electrogastrogram (EGG). The study was performed in 11 healthy subjects of normal weight. Gastric myoelectrical activity was recorded for 1 h in the fasting state with the use of a specially designed multichannel recording device that was composed of four identical amplifiers with cutoff frequencies of 1.8 and 16.0 cycles/min. Four active electrodes were placed on the abdomen along the gastric axis and were connected to a common reference electrode placed near the xiphoid process, yielding four-channel bipolar EGG signals. Cross-covariance analysis was performed to compute the time lag among the four channels. There was a time lag in EGG waveform between channels 1 and 4 (9.6 ± 1.1 s); the average time during which the time lag was observed (≥3 s) was 89.9 ± 9.0%. There was a significant difference in the time lag among different adjacent channels ( P< 0.04); the time lag observed between channels 3 and 4 was significantly smaller than that between channels 1 and 2( P < 0.03). No correlation was found between the body mass index and the time lag between channels 1 and 4 ( r= -0.31, P = 0.3). It was concluded that, with a multichannel recording device with identical multiamplifiers and an appropriate arrangement of abdominal electrodes, the propagation of the gastric slow wave could be identified from the EGG in healthy subjects. This method may be used to detect the coupling of the gastric slow wave noninvasively.