Miracle-dz/UniFAR-FTUs huggingface dataset:
RNA-dependent disassembly of nuclear bodies

ABSTRACT Nuclear bodies are membraneless organelles that play important roles in genome functioning. A specific type of nuclear bodies known as interphase prenucleolar bodies (iPNBs) are formed in the nucleoplasm after hypotonic stress from partially disassembled nucleoli. iPNBs are then disassembled, and the nucleoli are reformed simultaneously. Here, we show that diffusion of B23 molecules (also known as nucleophosmin, NPM1) from iPNBs, but not fusion of iPNBs with the nucleoli, contributes to the transfer of B23 from iPNBs to the nucleoli. Maturation of pre-ribosomal RNAs (rRNAs) and the subsequent outflow of mature rRNAs from iPNBs led to the disassembly of iPNBs. We found that B23 transfer was dependent on the synthesis of pre-rRNA molecules in nucleoli; these pre-rRNA molecules interacted with B23 and led to its accumulation within nucleoli. The transfer of B23 between iPNBs and nucleoli was accomplished through a nucleoplasmic pool of B23, and increased nucleoplasmic B23 content retarded disassembly, whereas B23 depletion accelerated disassembly. Our results suggest that iPNB disassembly and nucleolus assembly might be coupled through RNA-dependent exchange of nucleolar proteins, creating a highly dynamic system with long-distance correlations between spatially distinct processes. Summary: Interphase prenucleolar body disassembly and nucleolus assembly might be coupled through RNA-dependent exchange of nucleolar proteins.
Extended family studies for the identification of allogeneic stem cell transplant donors in Jewish and Arabic patients in Israel

Abstract: HLA‐identified donors are the best source of allogeneic hematopoietic stem cell transplants, and are available in approximately 40% of cases. If no HLA‐identical core family member is found, an extended family search may be performed. The aim of the study was to summarize the 10‐year (1990–1999) experience of our tertiary care center with extended family donor search. During this period, 356 patients and 2659 of their family members were tissue‐typed; 239 patients were Jewish (67%) and 117 were Arabic (33%). An HLA‐identical core‐family donor was identified for 168 patients (47%): 95 Jewish (40%) and 73 Arabic (62%) (p < 0.0001); 49 patients (14%) had more than one potential donor. An extended family search (grandmother/grandfather, aunts, uncles, etc.) was performed in 38 of the remaining families, which were found to be consanguineous: five Jewish and 33 Arabic. One HLA match was found in the Jewish families (20%) and 21 in the Arabic families (64%). The odds ratio for an Arabic patient to find a donor in the extended family search was 8.75, as opposed to a Jewish patient. Overall, HLA‐matched donors were found by core and extended family search for 53% of the patients. The rate for Arabic patients was 80% and for Jewish patients, 40% (p < 0.001). This difference may be explained by the greater number of siblings and higher rate of consanguinity in the Arabic population. In conclusion, an extended family search for potential HLA‐matched donors is worthwhile, especially in distinct ethnic populations with high consanguinity, such as Israeli Arabs.
Single-stage DC-AC converter for photovoltaic systems

This paper presents a DC-AC converter that merges a DC-DC converter and an inverter in a single-stage topology to be used as an interface converter between photovoltaic systems and the electrical AC grid. This topology is based on a full bridge converter with three levels output voltage, where two diodes and one inductor have been added in order to create a Boost converter. The control system of the proposed converter is based on two hysteretic controllers: one for the grid injected current and the other for controlling the panel current. A prototype of the proposed converter including power and control circuits was developed. The MPPT algorithm is not yet implemented and, therefore, to obtain experimental results an additional power supply is used to emulate the PV panel. Theoretical analysis and design criteria are presented together with simulated results to validate the proposed concepts. Experimental results are obtained in a lab prototype to evidence the feasibility and performance of the converter.
ROC curves with multiple marker measurements.

Properties of receiver operating characteristic (ROC) curves are explored for markers that are measured repeatedly, through space or time, for each subject. The true underlying response, positive or negative, of each subject is assumed to be constant across marker measurements, and is determined from assessment of some "gold standard. " A marker-based test is considered positive when at least one of a subject's marker values exceeds a designated cutoff. If subjects with positive and negative underlying responses differ in the number of marker measurements per subject, the ROC curve for a noninformative marker is bowed above or below the diagonal line representing the "null" curve for a marker that is measured just once per subject. If subjects with negative responses tend to have more measurements than those with positive responses, the ROC curve for even an informative marker may lie beneath the curve for the same marker measured once per subject. The form of the ROC curve for a marker used in this way is strongly influenced by the strength of the correlation of measurements within subjects.
Combining Zernike moments with Regional features for classification of handwritten ancient Tamil scripts using Extreme Learning Machine

Handwritten Tamil character recognition is one of the active areas in research. Due to high variability of writing styles, developing handwritten character recognition system is a big challenge. The concept proposed gives a way to perform classification of handwritten ancient scripts in Tamil, which is one of the oldest languages in India. The approach utilizes Extreme Learning Machine for classification of handwritten ancient Tamil scripts. The Extreme Learning Machine is trained by Zernike moments and Regional features. The performance of Extreme Learning Machine is compared with Probabilistic Neural Networks. From the experimental results it is inferred that Extreme Learning Machine gives highest accuracy rate of 95%.
Ideational power and pathways to legitimation in the euro crisis

Abstract How have European Union institutional actors sought to build, defend or undermine the legitimacy of crisis management during the euro crisis? Scholars have tended to investigate the euro crisis from either a pragmatic and prescriptive perspective – asking which reforms are necessary to build legitimacy in the governance structure of the Eurozone – or an analytical perspective focused on the power wielding of actors useful for understanding what actors have done and why they have been influential or not. The paper argues that rather than bifurcating the issues of legitimacy and power politics, much may be gained by investigating the relationship between legitimacy and power. Specifically, the paper employs the concept of ideational power to analyze the strategies through which actors have sought to defend their claims to three constitutive dimensions of legitimacy – input, output and throughput legitimacy – and proposes a matrix of nine pathways to legitimation that played into processes of legitimacy battles in the Eurozone crisis.
Urban Commons for the Edible City—First Insights for Future Sustainable Urban Food Systems from Berlin, Germany

Urban planning is facing multi-layered challenges to manage the transformation towards a more sustainable and inclusive society. The recently evolved concept of an “urban commons” responds to the crucial need to re-situate residents as key actors. Urban food commons summarize all initiatives that are food-related (e.g., cultivation, harvest, and distribution), aiming at a visualization and utilization of value chains and the commons-based linkage between them. We explored first insights of food commons in Berlin based on semi-structured, in-depth interviews. Urban food commons strengthen identification, participation, self-organization, and social resilience, are steered by bottom-up processes, and can be a powerful tool for a transformation towards urban sustainability. However, a viable political integration of existing initiatives lacks due to structural implementation problems. Respondents recommend a pooling of all initiatives in a strong network and a mediation interface to coordinate between food commons and city administration and politics. A combined approach of commons and edible cities will be helpful for the development of future prove food systems.
The role of dopaminergic signalling during larval zebrafish brain development: a tool for investigating the developmental basis of neuropsychiatric disorders

Abstract Neurodevelopment depends on intrinsic and extrinsic factors that influence the overall pattern of neurogenesis and neural circuit formation, which has a direct impact on behaviour. Defects in dopamine signalling and brain morphology at a relatively early age, and mutations in neurodevelopmental genes are strongly correlated with several neuropsychiatric disorders. This evidence supports the hypothesis of a neurodevelopmental origin of at least some forms of mental illness. Zebrafish (Danio rerio) has emerged as an important vertebrate model system in biomedical research. The ease with which intrinsic and extrinsic factors can be altered during early development, the relatively conserved dopaminergic circuit organisation in the larval brain, and the emergence of simple sensorimotor behaviours very early in development are some of the appealing features that make this organism advantageous for developmental brain and behaviour research. Thus, examining the impact of altered dopamine signalling and disease related genetic aberrations during zebrafish development presents a unique opportunity to holistically analyse the in vivo biochemical, morphological and behavioural significance of altered dopamine signalling during a crucial period of development using a highly tractable vertebrate model organism. Ultimately, this information will shed new light on potential therapeutic targets for the treatment of schizophrenia and perhaps serve as a paradigm for investigating the neurodevelopmental origin of other psychiatric disorders.
Patterns of Susceptibility of Aspergillus Isolates Recovered from Patients Enrolled in the Transplant-Associated Infection Surveillance Network

ABSTRACT We analyzed antifungal susceptibilities of 274 clinical Aspergillus isolates from transplant recipients with proven or probable invasive aspergillosis collected as part of the Transplant-Associated Infection Surveillance Network (TRANSNET) and examined the relationship between MIC and mortality at 6 or 12 weeks. Antifungal susceptibility testing was performed by the Clinical and Laboratory Standards Institute (CLSI) M38-A2 broth dilution method for amphotericin B (AMB), itraconazole (ITR), voriconazole (VOR), posaconazole (POS), and ravuconazole (RAV). The isolate collection included 181 Aspergillus fumigatus, 28 Aspergillus niger, 27 Aspergillus flavus, 22 Aspergillus terreus, seven Aspergillus versicolor, five Aspergillus calidoustus, and two Aspergillus nidulans isolates and two isolates identified as Aspergillus spp. Triazole susceptibilities were ≤4 μg/ml for most isolates (POS, 97.6%; ITR, 96.3%; VOR, 95.9%; RAV, 93.5%). The triazoles were not active against the five A. calidoustus isolates, for which MICs were ≥4 μg/ml. AMB inhibited 93.3% of isolates at an MIC of ≤1 μg/ml. The exception was A. terreus, for which 15 (68%) of 22 isolates had MICs of >1 μg/ml. One of 181 isolates of A. fumigatus showed resistance (MIC ≥ 4 μg/ml) to two of three azoles tested. Although there appeared to be a correlation of higher VOR MICs with increased mortality at 6 weeks, the relationship was not statistically significant (R2 = 0.61; P = 0.065). Significant relationships of in vitro MIC to all-cause mortality at 6 and 12 weeks for VOR or AMB were not found.
The influence of anonymous peers on prosocial behavior

Background Peer influence on students’ maladaptive behaviors has been well documented; however, the influence on positive development is less acknowledged. Purpose The purpose of this study was to examine anonymous peer influence on college students’ prosocial behavior, specifically behavior for the improvement of society (i.e., donating money or participating in social campaigns) via an experimental approach. The effects of indirect peer influence (IP) and direct peer influence (DP) on college students’ prosocial behavior were examined. Methods A total of 125 college students participated in an online survey and laboratory experiment. Self-reported helping behavior, social concern goals, and empathy were measured by the online survey. In the laboratory experiments, reading of a prosocial paragraph (IP) and confederates’ prosocial behavior (DP) were manipulated. Participation in a signature campaign and money donation for illness were observed. Furthermore, 19 participants among those who donated were asked about their reasons for participating in such prosocial behavior. Results Prosocial behavior of anonymous peers (confederates) exerts a profound influence on college students’ participation in a signature campaign and money donation, whereas the reading of a prosocial paragraph has no effect. Furthermore, no participants reported peer influence as a reason for engaging in prosocial behavior. Conclusion This finding supports and extends recent research examining the positive impacts of anonymous peers on prosocial behavior. Prosocial behavior is not only a foundational and consistent aspect of personality, as previous studies report, but is also highly malleable and unstable in response to immediate situations.
Residential Consumers’ Willingness to Pay Price Premium for Renewable Heat in South Korea

Heat accounts for about one-third of the final energy use and it is mostly produced using fossil fuels in South Korea. Thus, heat production is an important source of greenhouse gas emissions. However, using renewable heat that is directly produced from renewable energy, such as bioenergy, geothermal, or solar heat can save energy and reduce greenhouse gas emissions, rather than transforming conventional fuel into heat. Therefore, an energy policy for renewable heat urgently needs to be established. It is such situations that this paper attempts to assess the consumers’ additional willingness to pay (WTP) or the price premium for renewable heat over heat that is produced from fossil fuels for residential heating. To that end, a nationwide contingent valuation survey of 1000 households was conducted during August 2018. Employing the model allowing for zero WTP values, the mean of the additional WTP or premium for one Gcal of heat produced using renewable energy rather than fossil fuels was estimated to be KRW 3636 (USD 3.2), which is statistically meaningful at the 1% level. This value represents the price premium for renewable heat over heat that is based on fossil fuels. Given that the heat price for residential heating was approximately KRW 73,000 (USD 65.1) per Gcal at the time of the survey, the additional WTP or the price premium corresponds to about 5% of that. When considering that the cost of producing renewable heat is still significantly higher than the cost of producing fossil fuels-based heat, more efforts to lower the production costs of renewable heat as well as financial support of the government for producing and supplying renewable heat are needed to ensure residential consumers’ acceptance of renewable heat.
Crystal Structure of the HMG‐CoA Synthase MvaS from the Gram‐Negative Bacterium Myxococcus xanthus

A critical step in bacterial isoprenoid production is the synthesis of 3‐hydroxy‐3‐methylglutaryl coenzyme A (HMG‐CoA) catalyzed by HMG‐CoA synthase (HMGCS). In myxobacteria, this enzyme is also involved in a recently discovered alternative and acetyl‐CoA‐dependent isovaleryl CoA biosynthesis pathway. Here we present crystal structures of MvaS, the HMGCS from Myxococcus xanthus, in complex with CoA and acetylated active site Cys115, with the second substrate acetoacetyl CoA and with the product of the condensation reaction, 3‐hydroxy‐3‐methylglutaryl CoA. With these structures, we show that MvaS uses the common HMGCS enzymatic mechanism and provide evidence that dimerization plays a role in the formation and stability of the active site. Overall, MvaS shows features typical of the eukaryotic HMGCS and exhibits differences from homologues from Gram‐positive bacteria. This study provides insights into myxobacterial alternative isovaleryl CoA biosynthesis and thereby extends the toolbox for the biotechnological production of renewable fuel and chemicals.
An ssDNA virus infecting archaea: a new lineage of viruses with a membrane envelope

Archaeal organisms are generally known as diverse extremophiles, but they play a crucial role also in moderate environments. So far, only about 50 archaeal viruses have been described in some detail. Despite this, unusual viral morphotypes within this group have been reported. Interestingly, all isolated archaeal viruses have a double‐stranded DNA (dsDNA) genome. To further characterize the diversity of archaeal viruses, we screened highly saline water samples for archaea and their viruses. Here, we describe a new haloarchaeal virus, Halorubrum pleomorphic virus 1 (HRPV‐1) that was isolated from a solar saltern and infects an indigenous host belonging to the genus Halorubrum. Infection does not cause cell lysis, but slightly retards growth of the host and results in high replication of the virus. The sequenced genome (7048 nucleotides) of HRPV‐1 is single‐stranded DNA (ssDNA), which makes HRPV‐1 the first characterized archaeal virus that does not have a dsDNA genome. In spite of this, similarities to another archaeal virus were observed. Two major structural proteins were recognized in protein analyses, and by lipid analyses it was shown that the virion contains a membrane. Electron microscopy studies indicate that the enveloped virion is pleomorphic (approximately 44 × 55 nm). HRPV‐1 virion may represent commonly used virion architecture, and it seems that structure‐based virus lineages may be extended to non‐icosahedral viruses.
Prevalence of opportunistic intestinal parasitic infection among HIV infected patients who are taking antiretroviral treatment at Jimma Health Center, Jimma, Ethiopia.

BACKGROUND One of the major health problems among HIV sero-positive patients are superimposed infections due to the deficient immunity. Furthermore, intestinal parasitic (IP) infections, which are also one of the basic health problems in tropical regions, are common in these patients. Infection by opportunistic pathogens, including various forms of intestinal parasites has been the hall mark of HIV since the beginning of the epidemic. AIM To study the prevalence of opportunistic intestinal parasitic infection among HIV patients who are taking antiretroviral treatment (ART) in Jimma, Ethiopia. MATERIALS AND METHODS Patient samples were diagnosed by examination of single stool specimen which was examined as fresh wet mounts, formal-ether concentration technique and modified Ziehl-Neelsen staining technique. Data was obtained from 91 study subjects selected by convenience sampling method. RESULTS The overall prevalence of intestinal parasitic infections was found to be 39.56%. Eight types of intestinal parasites was identified, the most dominant being, Ascaris lumbricoides, 21.67%, Entamoeba histolytica, 15% and Cryptosporidium parvum 13.33%. The prevalence of opportunistic parasite was 15.38%, the prevalence of non-opportunistic parasite was 20.87% and the prevalence of both opportunistic and non opportunistic was 3.29%. CONCLUSIONS The study indicated that intestinal parasites were still a problem in the study area. Data also showed that among the predisposing factors, habit of hand washing before meal, usage of latrine and duration after treatment was statistically associated with intestinal parasitic infections.
External Validation and Comparison of Three Scores to Predict Renal Replacement Therapy after Cardiac Surgery: A Multicenter Cohort

Purpose Cardiac surgery-associated acute kidney injury requiring renal replacement therapy (RRT) is independently associated with mortality. Several risk scores have been developed to predict the need for RRT after cardiac surgery. We have compared and verified the external validity of the three main available scores for RRT prediction after cardiac surgery: the Thakar score, the Mehta tool, and the Simplified Renal Index. Methods The risk scores were calculated in a cohort of 1084 adult patients, 248 of whom required RRT, who underwent open-heart surgery in 24 Spanish hospitals in 2007. The performance of the systems was determined by examining their discrimination (areas under the receiver operating characteristic curves (aROC) and calibration (Lemeshow-Hosmer chi-square goodness-of-fit statistics). Results: The aROCs in the Thakar score, the Mehta tool, and the Simplified Renal Index were 0.82, 0.76 and 0.79, respectively. The three scoring systems were poorly calibrated and tended to underestimate the actual need for RRT. Conclusions The Thakar score and the Simplified Renal Index discriminated well between low - and high-risk patients in our cohort, and Thakar outperformed the Mehta tool. These best-performing scores may aid in the selection of optimal therapy, facilitate the planning of hospital resource utilization, improve preoperative counseling, select participants for clinical trials of renal-protective therapies and enable an accurate comparison between different institutions or surgeons.
Molecular Cloning of a Sixth Member of the K+-dependent Na+/Ca2+ Exchanger Gene Family, NCKX6*

Bioinformatic and molecular cloning tools were used to identify and isolate cDNA clones from mouse and human tissues that encode the sixth member of the K+-dependent Na+/Ca2+ exchanger family, NCKX6. The mouse NCKX6 protein is 585 amino acids long and shares about 62% sequence similarity with previously identified exchangers in the α-repeat regions but has little primary sequence similarity outside these regions. NCKX6 transcripts of 4 kb are abundantly expressed in all tissues examined and are thus more broadly distributed than previously described NC(K)X family members. Two alternatively spliced products of this novel gene were identified that encode proteins of different length. The short isoform differs from the full-length isoform at the C-terminal hydrophobic domain as a result of a shift in the reading frame caused by the deletion of two exons. Both NCKX6 isoforms were expressed in HEK-293 cells. Functional analysis by digital imaging of fura-2 loaded transfected HEK-293 cells demonstrated that the short isoform exhibited K+-dependent Na+/Ca2+ exchange activity whereas the full-length isoform did not. The latter was retained within the endoplasmic reticulum, whereas the short isoform was present at the plasma membrane in transfected cells. Immunofluorescence studies examining NCKX6 expression in native tissue using an NCKX6-specific antibody showed intense labeling of the cardiac sarcolemmal membrane. The discovery of NCKX6 therefore reveals a novel member of the Na+/Ca2+ exchanger superfamily whose ubiquitous expression in all tissues suggests an important role for K+-dependent Na+/Ca2+ exchange in maintaining cellular Ca2+ homeostasis in diverse tissues and cell types.