Miracle-dz/UniFAR-FTUs huggingface dataset:
Hepatocyte NAD(P)H oxidases as an endogenous source of reactive oxygen species during hepatitis C virus infection

Oxidative stress has been identified as a key mechanism of hepatitis C virus (HCV)–induced pathogenesis. Studies have suggested that HCV increases the generation of hydroxyl radical and peroxynitrite close to the cell nucleus, inflicting DNA damage, but the source of reactive oxygen species (ROS) remains incompletely characterized. We hypothesized that HCV increases the generation of superoxide and hydrogen peroxide close to the hepatocyte nucleus and that this source of ROS is reduced nicotinamide adenine dinucleotide phosphate (NAD(P)H) oxidase 4 (Nox4). Huh7 human hepatoma cells and telomerase‐reconstituted primary human hepatocytes, transfected or infected with virus‐producing HCV strains of genotypes 2a and 1b, were examined for messenger RNA (mRNA), protein, and subcellular localization of Nox proteins along with the human liver. We found that genotype 2a HCV induced persistent elevations of Nox1 and Nox4 mRNA and proteins in Huh7 cells. HCV genotype 1b likewise elevated the levels of Nox1 and Nox4 in telomerase‐reconstituted primary human hepatocytes. Furthermore, Nox1 and Nox4 proteins were increased in HCV‐infected human liver versus uninfected liver samples. Unlike Nox1, Nox4 was prominent in the nuclear compartment of these cells as well as the human liver, particularly in the presence of HCV. HCV‐induced ROS and nuclear nitrotyrosine could be decreased with small interfering RNAs to Nox1 and Nox4. Finally, HCV increased the level of transforming growth factor beta 1 (TGFβ1). TGFβ1 could elevate Nox4 expression in the presence of infectious HCV, and HCV increased Nox4 at least in part through TGFβ1. Conclusion: HCV induced a persistent elevation of Nox1 and Nox4 and increased nuclear localization of Nox4 in hepatocytes in vitro and in the human liver. Hepatocyte Nox proteins are likely to act as a persistent, endogenous source of ROS during HCV‐induced pathogenesis. Hepatology 2010
A Review of Current Myopic Foveoschisis Management Strategies

ABSTRACT Myopic foveoschisis (MF) is common in highly myopic eyes with posterior staphyloma, and optical coherence tomography is essential for establishing the diagnosis and monitoring disease progression. Untreated MF may lead to significant visual loss due to secondary complications. Vitrectomy with or without internal limiting membrane peeling followed by gas tamponade is the standard treatment; however, in recent years, new techniques, including macular buckling, have been introduced. We selected a total of 41 articles with 30 describing various modifications of pars plana vitrectomy, six describing the macular buckling technique, and five reporting combined surgery. The present review describes current MF treatment strategies, including outcomes, and provides a comprehensive understanding of current therapeutic options. Early detection and surgical intervention in eyes with specific risk factors may contribute to both improved visual recovery and more favorable anatomical outcomes.
Spatial distribution of mitochondrial and microsatellite DNA variation in Daubenton's bat within Scotland

Daubenton's bat (Myotis daubentonii) is a known reservoir for European bat lyssavirus type 2 (EBLV‐2). An appreciation of the potential for epidemiological spread and disease risk requires an understanding of the dispersal of the primary host, and any large‐scale geographical barriers that may impede gene flow. The spatial pattern of microsatellite and mitochondrial DNA variation was examined to infer patterns of dispersal of bats among 35 populations across Scotland. DNA sequence variation at the mitochondrial control region and ND1 genes revealed two distinct phylogeographical clades, with generally nonoverlapping geographical distributions except for a small number of populations where both matrilines were found in sympatry. Such discontinuity suggests that Scotland was recolonised twice following the retreat of the Pleistocene ice sheet with little subsequent matrilineal introgression. However, eight microsatellite loci showed low levels of genetic divergence among populations, even between populations from the two distinct mitochondrial DNA clades. An overall, macrogeographical genetic isolation‐by‐distance pattern was observed, with high levels of gene flow among local populations. Apparently contrasting patterns of mitochondrial and microsatellite divergence at different scales could be explained by sex‐specific differences in gene flow at large scales.
The neural correlates of the awe experience: Reduced default mode network activity during feelings of awe

In the present fMRI study, we aimed to obtain insight into the key brain networks involved in the experience of awe—a complex emotion that is typically elicited by perceptually vast stimuli. Participants were presented with awe‐eliciting, positive and neutral videos, while they were instructed to get fully absorbed in the scenery or to count the number of perspective changes. By using a whole‐brain analysis we found that several brain regions that are considered part of the default mode network (DMN), including the frontal pole, the angular gyrus, and the posterior cingulate cortex, were more strongly activated in the absorption condition. But this was less the case when participants were watching awe videos. We suggest that while watching awe videos, participants were deeply immersed in the videos and that levels of self‐reflective thought were as much reduced during the awe videos, as during the perspective counting condition. In contrast, key regions of the fronto‐parietal network (FPN), including the supramarginal gyrus, the medial frontal gyrus, and the insula, were most strongly activated in the analytical condition when participants were watching awe compared to positive and neutral videos. This finding underlines the captivating, immersive, and attention‐grabbing nature of awe stimuli that is considered to be responsible for reductions in self‐reflective thought. Together these findings suggest that a key feature of the experience of awe is a reduced engagement in self‐referential processing, in line with the subjective self‐report measures (i.e., participants perceived their self to be smaller).
Revenues from Patient Encounters and Establishment of an Outpatient Palliative Care Program in a Community Oncology Practice.

Background: There is increasing interest in expanding palliative care (PC) services in the community-based outpatient oncology clinic. However, there is a paucity of data on the economics of integrating palliative medicine in this setting. Objective: Provide scheduling and financial data on PC physician encounters, charges, and reimbursement in a community-based oncology practice. Design: Retrospective review of billing data and scheduling software at a single practice. Setting: A community-based oncology practice comprised of 25 medical oncologists in 8 suburban offices. PC physicians were integrated into the practice. Measurement: Billed PC physician charges were analyzed on an annual basis for a four-year period from initial start-up of the PC clinic on September 2, 2014 to August 31, 2018. Results: During year 1, a single PC physician saw 483 new patients and 827 follow-up encounters in four different office locations. In year 2, he saw 471 new patients and 1229 follow-up encounters. Actual collected revenue for those 1700 encounters was $228,168. In year 3, a second PC physician was added and services were expanded to a total of six offices. In year 4, two PC physicians billed for 832 new encounters and 2450 follow-up encounters for a total collected revenue of $454,356. Conclusions: In a suburban community-based oncology practice, a PC physician can support a substantial part of his or her cost to an oncology practice.
Sovereign Risk and Fiscal ( In ) attention : A Look at the U . S . State Default of the 1840 s ∗ ( Preliminary & Incomplete )

Between 1841 and 1843, nine U.S. states and territories defaulted. Open-market prices of state bonds were relatively stable in the fifteen years preceding this episode, while both defaulting and non-defaulting states experienced market premiums as defaults became imminent. We construct a novel measure of attention to the states’ fiscal positions from the volume of contemporary U.S. and British newspaper articles related to fiscal policy. This measure exhibits a regime shift at the onset of the debt crisis, displaying a higher volume of articles about fiscal policy. In addition, the measure’s ability to predict bond prices increases in the crisis period. Our results suggest investors’ attention for fiscal fundamentals matters, and such inattention can help explain low risk premia in tranquil times. We develop a simple model of inattention to illustrate this mechanism.
Three‐dimensional distribution of wall shear stress and its gradient in red cell‐resolved computational modeling of blood flow in in vivo‐like microvascular networks

Using a high‐fidelity, 3D computational model of blood flow in microvascular networks, we provide the full 3D distribution of wall shear stress (WSS), and its gradient (WSSG), and quantify the influence of red blood cells (RBCs) on WSS and WSSG. The deformation and flow dynamics of the individual RBCs are accurately resolved in the model, while physiologically realistic microvascular networks comprised of multiple bifurcations, convergences, and tortuous vessels are considered. A strong heterogeneity in WSS and WSSG is predicted across the networks, with the highest WSS occurring in precapillary bifurcations and capillary vessels. 3D variations of WSS and WSSG are shown to occur due to both network morphology and the influence of RBCs. The RBCs increase the WSS by as much as three times compared to that when no RBCs are present, and the highest increase is observed in venules. WSSG also increases significantly, and high WSSGs occur over wider regions in the presence of RBCs. In most vessels, the circumferential component of WSSG is observed to be greater than the axial component in the presence of RBCs, while the opposite trend is observed when RBCs are not considered. These results underscore the important role of RBCs on WSS and WSSG that cannot be predicted by widely used 1D models of network blood flow. Furthermore, the subendothelium‐scale variations of WSS and WSSG predicted by the present model have implications in terms of endothelial cell functions in the microvasculature.
Sexually transmitted infections in young people and factors associated with HIV coinfection: an observational study in a large city

Objectives Young people are a critical target group for sexually transmitted infections (STI) surveillance due to their particular behavioural and social related vulnerability. The aim of this study was to describe the epidemiological characteristics and trends in the incidence of gonorrhoea, syphilis, HIV and venereal lymphogranuloma (LGV) among 15–24-year-olds in Barcelona, and to determine factors associated with HIV coinfection. Design We performed a population-based incidence study covering the 2007–2015 period. Participants All new cases of STI—HIV, gonorrhoea, infectious syphilis and LGV—notified to the epidemiological surveillance system in Barcelona between 2007 and 2015. 1218 cases were studied: 84.6% were men, 19.3% were 15–19 years old and 50.6% were born in Spain. Among men, 73.7% were men who have sex with men (MSM); among women, 85.6% were women that have sex with men. Primary and secondary outcomes Incidence of HIV, gonorrhoea, infectious syphilis and LGV. HIV coinfection. Results There was an increase in the incidence of gonorrhoea, from 1.9 cases per 10 000 people in 2007 to 7.6/10 000 in 2015 (p<0.01), in MSM from 27.1 to 228.8/10 000 (p<0.01). The incidence of syphilis increased from 0.4/10 000 in 2007 to 3.1/10 000 in 2015 (significant in men only, p<0.01), in MSM from 18.1 to 116.9/10 000 (p<0.01). The incidence of HIV showed a non-significant increase in men (p=0.27), and that of LGV remained stable (p=0.59). Factors associated with increased risk of HIV coinfection included being MSM (adjusted OR[ORa]=14.14, 95% CI 3.34 to 59.91) and having >10 sexual partners (ORa=4.11, 95% CI 1.53 to 11.01) or STI diagnosis during the previous 12 months (ORa=2.06; 95% CI 1.13 to 3.77). Conclusions The incidence of gonorrhoea and syphilis among 15–24-year-olds increased, while HIV infection remained stable but with a high incidence among MSM. Being MSM, having sex with multiple partners and having a diagnosis of an STI in the previous 12 months were factors associated with HIV coinfection.
Who's in Control of Your Control System? Device Fingerprinting for Cyber-Physical Systems

Industrial control system (ICS) networks used in critical infrastructures such as the power grid present a unique set of security challenges. The distributed networks are difficult to physically secure, legacy equipment can make cryptography and regular patches virtually impossible, and compromises can result in catastrophic physical damage. To address these concerns, this research proposes two device type fingerprinting methods designed to augment existing intrusion detection methods in the ICS environment. The first method measures data response processing times and takes advantage of the static and lowlatency nature of dedicated ICS networks to develop accurate fingerprints, while the second method uses the physical operation times to develop a unique signature for each device type. Additionally, the physical fingerprinting method is extended to develop a completely new class of fingerprint generation that requires neither prior access to the network nor an example target device. Fingerprint classification accuracy is evaluated using a combination of a real world five month dataset from a live power substation and controlled lab experiments. Finally, simple forgery attempts are launched against the methods to investigate their strength under attack.
The impact of three years of targeted IRS with pirimiphos-methyl on malaria parasite prevalence in a high-transmission area of northern Zambia.

Malaria transmission in northern Zambia has increased in the past decade despite malaria control activities. Evidence-based intervention strategies are needed to effectively reduce malaria transmission. Zambia's National Malaria Control Centre conducted targeted indoor residual spraying (IRS) in Nchelenge District, Luapula Province from 2014-2016 using the organophosphate insecticide pirimiphos-methyl. An evaluation of the IRS campaign was conducted by the Southern Africa International Centers of Excellence for Malaria Research using actively detected malaria cases in bimonthly household surveys from April 2012 to July 2017. Changes in parasite prevalence before vs. after IRS were assessed by season using Poisson regression models with robust standard errors, controlling for clustering of participants in households and demographic, geographic, and climatological covariates. In targeted areas, parasite prevalence declined approximately 25% during the rainy season following IRS with pirimiphos-methyl but did not decline during the dry season or in the overall study area. Within targeted areas, parasite prevalence declined in unsprayed households, suggesting both direct and indirect effects of IRS. The moderate decrease in parasite prevalence within sprayed areas indicates that IRS with pirimiphos-methyl is an effective malaria control measure, but a more comprehensive package of interventions is needed to effectively reduce the malaria burden in this setting.
Genome-Wide Identification and Expression Analyses of the bZIP Transcription Factor Genes in moso bamboo (Phyllostachys edulis)

The basic leucine zipper (bZIP) transcription factor (TF) family is one of the largest gene families, and play crucial roles in many processes, including stress responses, hormone effects. The TF family also participates in plant growth and development. However, limited information is available for these genes in moso bamboo (Phyllostachys edulis), one of the most important non-timber forest products in the world. In the present study, 154 putative PhebZIP genes were identified in the moso bamboo genome. The phylogenetic analyses indicate that the PhebZIP gene proteins classify into 9 subfamilies and the gene structures and conserved motifs that analyses identified among all PhebZIP proteins suggested a high group-specificity. Microsynteny and evolutionary patterns analyses of the non-synonymous (Ka) and synonymous (Ks) substitution rates and their ratios indicated that paralogous pairs of PhebZIP genes in moso bamboo underwent a large-scale genome duplication event that occurred 7–15 million years ago (MYA). According to promoter sequence analysis, we further selected 18 genes which contain the higher number of cis-regulatory elements for expression analysis. The result showed that these genes are extensively involved in GA-, ABA- and MeJA-responses, with possibly different mechanisms. The tissue-specific expression profiles of PhebZIP genes in five plant tissues/organs/developmental stages suggested that these genes are involved in moso bamboo organ development, especially seed development. Subcellular localization and transactivation activity analysis showed that PhebZIP47 and PhebZIP126 were localized in the nucleus and PhebZIP47 with no transcriptional activation in yeast. Our research provides a comprehensive understanding of PhebZIP genes and may aid in the selection of appropriate candidate genes for further cloning and functional analysis in moso bamboo growth and development, and improve their resistance to stress during their life.
Verbal descriptions of spatial information can interfere with picture processing

Two studies are reported that tested the assumption that learning is improved by presenting text and pictures compared to text only when the text conveys non-spatial rather than spatial information. In Experiment 1, 59 students learned with text containing either visual or spatial contents, both accompanied by the same pictures. The results confirmed the expected interference between the processing of spatial text contents and pictures: Learners who received text containing spatial information showed worse text and picture recall than learners who received text containing visual information. In Experiment 2, 85 students were randomly assigned to one of four conditions, which resulted from a 2×2 between-participants design, with picture presentation (with vs without) and text contents (visual vs spatial) as between-participants factors. Again the results confirmed the expected interference between processing of spatial text information and pictures, because beneficial effects of adding pictures to text were observed only when the texts conveyed visual information. Importantly, when no pictures were present no differences were observed between learners with either visual or spatial texts contents, indicating that the observed effects are not caused by absolute differences between the two texts such as their difficulty. The implications of these results are discussed.
Effects of habitat area and spatial configuration on biodiversity in an experimental intertidal community

Abstract Isolating the effects of fragmentation per se (i.e., spatial configuration of habitat patches) on species richness is an ongoing challenge as habitat configuration often covaries with the amount of habitat. Consequently, there is a lack of experimental evidence for configurational effects on species richness in the whole landscape. Here, we developed a novel experimental system for testing the independent and interactive effects of habitat area and configuration on tropical intertidal species richness. Our results confirmed the expectation that average species richness would increase monotonically with habitat area. More intriguingly, we found mixed evidence for a non‐monotonic relationship between species richness and fragmentation per se, with the highest richness at intermediate fragmentation configuration, that is, when habitat tiles were placed in a “several‐small” configuration. The effect of habitat configuration was not due to passive sampling (since area was controlled for), variation in total individual abundance, or niche specialization of species to different landscape configurations. We postulate that a combination of processes, including local negative density dependence and dispersal limitation, could give rise to the observed pattern. We emphasize the importance of considering configurational effects on biodiversity at broader spatial scales and for more experimental research to delve into the mechanisms driving the patterns seen here.
Functional suppression of Epiregulin impairs angiogenesis and aggravates left ventricular remodeling by disrupting the extracellular‐signal‐regulated kinase1/2 signaling pathway in rats after acute myocardial infarction

Acute myocardial infarction (AMI), a severe consequence of coronary atherosclerotic heart disease, is often associated with high mortality and morbidity. Emerging evidence have shown that the inhibition of the extracellular‐signal‐regulated kinase (ERK) signaling pathway appears to protect against AMI. Epiregulin (EREG) is an autocrine growth factor that is believed to activate the MEK/ERK signaling pathway. Therefore, the aim of the present study was to determine the expression patterns of EREG in AMI and to further study its effects on AMI induced experimentally in rats focusing on angiogenesis and left ventricular remodeling. Microarray‐based gene expression profiling of AMI was used to identify differentially expressed genes. To understand the biological significance of EREG and whether it is involved in AMI disease through the ERK1/2 signaling pathway, rats after AMI were treated with small interfering RNA (siRNA) against EREG, an ERK1/2 pathway inhibitor, PD98059, or both of them. The microarray data sets GSE66360 and GSE46395 showed that EREG was robustly induced in AMI. Both siRNA‐mediated depletion of EREG and PD98059 treatment were shown to significantly increase infarct size and left ventricular cardiomyocyte loss and enhance left ventricular remodeling. In addition, we also found that the ERK1/2 signaling pathway was inhibited following siRNA‐mediated EREG inhibition and PD98059 could enhance the effects of EREG inhibition on AMI. In conclusion, these findings highlight that the silencing of EREG inhibits angiogenesis and promotes left ventricular remodeling by disrupting the ERK1/2 signaling pathway, providing a novel therapeutic target for limiting AMI.
On a Mirkin-Muchnik-Smith Conjecture for Comparing Molecular Phylogenies

A conjecture of Mirkin, Muchnik, and Smith is answered affirmatively which connects the inconsistency function, a biologically meaningful similarity/dissimilarity measure for a gene tree and a species tree, to the mutation cost function, a combinatorial measure based on the mapping of trees. A linear-time algorithm for computing the mutation cost function is also derived from the conjecture.
210Po in popular medicinal herbs from Poland

ABSTRACT Herbs are an important part of traditional medicine in Poland. Therefore, the aim of this study was the determination of polonium 210Po in 48 selected medicinal herb samples from the Polish market. The activity concentrations of 210Po were measured using alpha spectrometry. The activity concentration of 210Po was in the range from 0.3 ± 0.1 to 28.2 ± 0.4 Bq kg–1. The obtained results were compared with corresponding studies conducted worldwide. A higher 210Po activity concentration was observed in the above-ground part of plants. The obtained results show that the highest 210Po activity concentration was observed in evergreen plants and winter-hardy plants. Yet even infusions with 2 g of the most contaminated herbs examined were considered to be radiologically safe.