Miracle-dz/UniFAR-FTUs huggingface dataset:
A Conserved Motif Is Prerequisite for the Interaction of NAC with Ribosomal Protein L23 and Nascent Chains*

In eukaryotes, newly synthesized proteins interact co-translationally with a multitude of different ribosome-bound factors and chaperones including the conserved heterodimeric nascent polypeptide-associated complex (NAC) and a Hsp40/70-based chaperone system. These factors are thought to play an important role in protein folding and targeting, yet their specific ribosomal localizations, which are prerequisite for their functions, remain elusive. This study describes the ribosomal localization of NAC and the molecular details by which NAC is able to contact the ribosome and gain access to nascent polypeptides. We identified a conserved RRK(X)nKK ribosome binding motif within the β-subunit of NAC that is essential for the entire NAC complex to attach to ribosomes and allow for its interaction with nascent polypeptide chains. The motif localizes within a potential loop region between two predicted α-helices in the N terminus of βNAC. This N-terminal βNAC ribosome-binding domain was completely portable and sufficient to target an otherwise cytosolic protein to the ribosome. NAC modified with a UV-activatable cross-linker within its ribosome binding motif specifically cross-linked to L23 ribosomal protein family members at the exit site of the ribosome, providing the first evidence of NAC-L23 interaction in the context of the ribosome. Mutations of L23 reduced NAC ribosome binding in vivo and in vitro, whereas other eukaryotic ribosome-associated factors such as the Hsp70/40 chaperones Ssb or Zuotin were unaffected. We conclude that NAC employs a conserved ribosome binding domain to position itself on the L23 ribosomal protein adjacent to the nascent polypeptide exit site.
A case study in a socio-technical approach in ontology engineering

This paper describes results from the study case in developing an ontology for the Indonesian medicinal plants. The approach to the new way of developing ontology is taken from the point view of a socio-technical system theory. The case study was conducted after the theoretical model development developed through a qualitative research synthesis which aimed as a proof of concept. We describe a socio-technical ontology engineering approach for developing an ontology. The approach was applied within all of the phases in the life-cycle of the ontology and involved about ten domain experts from research centers and universities. The results show a promising way of conducting ontology engineering to ensure success.
Hepatology – Guidelines on Parenteral Nutrition, Chapter 16

Parenteral nutrition (PN) is indicated in alcoholic steatohepatitis (ASH) and in cirrhotic patients with moderate or severe malnutrition. PN should be started immediately when sufficientl oral or enteral feeding is not possible. ASH and cirrhosis patients who can be sufficiently fed either orally or enterally, but who have to abstain from food over a period of more than 12 hours (including nocturnal fasting) should receive basal glucose infusion (2–3 g/kg/d). Total PN is required if such fasting periods last longer than 72 h. PN in patients with higher-grade hepatic encephalopathy (HE); particularly in HE IV° with malfunction of swallowing and cough reflexes, and unprotected airways. Cirrhotic patients or patients after liver transplantation should receive early postoperative PN after surgery if they cannot be sufficiently rally or enterally nourished. No recommendation can be made on donor or organ conditioning by parenteral administration of glutamine and arginine, aiming at minimising ischemia/reperfusion damage. In acute liver failure artificial nutrition should be considered irrespective of the nutritional state and should be commenced when oral nutrition cannot be restarted within 5 to 7 days. Whenever feasible, enteral nutrition should be administered via a nasoduodenal feeding tube.
Online Fault Detection in Reversible Logic

A new approach for online fault detection in Boolean reversible circuits is described. Previous work had described this approach for circuits generated by the basic ESOP-based logic synthesis, and in this work we extend the approach for any type of Toffoli networks. An online testable circuit is created by modifying an existing cascade of Toffoli gates in a simple process that involves changing the existing Toffoli gates as well as the addition of one line and 2p gates, where p is the number of lines in the original circuit.
The Human Ageing Genomic Resources: online databases and tools for biogerontologists

Aging is a complex, challenging phenomenon that requires multiple, interdisciplinary approaches to unravel its puzzles. To assist basic research on aging, we developed the Human Ageing Genomic Resources (HAGR). This work provides an overview of the databases and tools in HAGR and describes how the gerontology research community can employ them. Several recent changes and improvements to HAGR are also presented. The two centrepieces in HAGR are GenAge and AnAge. GenAge is a gene database featuring genes associated with aging and longevity in model organisms, a curated database of genes potentially associated with human aging, and a list of genes tested for their association with human longevity. A myriad of biological data and information is included for hundreds of genes, making GenAge a reference for research that reflects our current understanding of the genetic basis of aging. GenAge can also serve as a platform for the systems biology of aging, and tools for the visualization of protein–protein interactions are also included. AnAge is a database of aging in animals, featuring over 4000 species, primarily assembled as a resource for comparative and evolutionary studies of aging. Longevity records, developmental and reproductive traits, taxonomic information, basic metabolic characteristics, and key observations related to aging are included in AnAge. Software is also available to aid researchers in the form of Perl modules to automate numerous tasks and as an SPSS script to analyse demographic mortality data. The HAGR are available online at http://genomics.senescence. info.
Stability analysis of systems with distributed delays and application to hematopoietic cell maturation dynamics

We consider linear systems with distributed delays where delay kernels are assumed to be finite duration impulse responses of finite dimensional systems. We show that stability analysis for this class of systems can be reduced to stability analysis of linear systems with discrete delays, for which many algorithms are available in the literature. The results are illustrated on a mathematical model of hematopoietic cell maturation dynamics.
Hypoglycemia in patients with type 2 diabetes mellitus.

BACKGROUND Although hypoglycemia is the most common complication of intensive diabetes therapy, there is little information about risk factors for hypoglycemia in patients with type 2 diabetes mellitus. OBJECTIVE To determine the prevalence and predisposing factors for hypoglycemia in patients with type 2 diabetes. METHODS Retrospective, cross-sectional analysis set in an outpatient specialty diabetes clinic. We included those patients who had baseline and follow-up visits from April 1 through October 31, 1999. Hypoglycemia was defined as typical symptoms relieved by eating, and/or blood glucose level of less than 60 mg/dL (<3.3 mmol/L). Univariate and multivariate logistic regression were used to determine the contributions to hypoglycemia of age, sex, diabetes duration, body mass index (calculated as weight in kilograms divided by the square of height in meters), fasting plasma glucose level, glycosylated hemoglobin (HbA(1c)) level, type of therapy, and previous episodes at the follow-up visit. RESULTS We studied 1055 patients. Prevalence of hypoglycemic symptoms was 12% (9/76) for patients treated with diet alone, 16% (56/346) for those using oral agents alone, and 30% (193/633) for those using any insulin (P<.001). Severe hypoglycemia occurred in only 5 patients (0.5%), all using insulin. Multiple logistic regression analysis demonstrated that insulin therapy, lower HbA(1c) level at follow-up, younger age, and report of hypoglycemia at the baseline visit were independently associated with increased prevalence of hypoglycemia. There were no significant predictors of severe hypoglycemia. CONCLUSIONS Mild hypoglycemia is common in patients with type 2 diabetes undergoing aggressive diabetes management, but severe hypoglycemia is rare. Concerns about hypoglycemia should not deter efforts to achieve tight glycemic control in most patients with type 2 diabetes.
Fuzzy logic controllers are universal approximators

In this paper, we consider a fundamental theoretical question on why does fuzzy control have such a good performance for a wide variety of practical problems. We try to answer this fundamental question by proving that for each fixed fuzzy logic belonging to a wide class of fuzzy logics, and for each fixed type of membership function belonging to a wide class of membership functions, the fuzzy logic control systems using these two and any method of defuzzification are capable of approximating any real continuous function on a compact set to arbitrary accuracy. On the other hand, this result can be viewed as an existence theorem of an optimal fuzzy logic control system for a wide variety of problems. >
Teacher effectiveness through self-efficacy, collaboration and principal leadership

Purpose Teacher effectiveness has been a matter of concern not only for the parents and students but also for the policy makers, researchers, and educationists. Drawing from the “self-efficacy” theory (Bandura, 1977), the purpose of this paper is to explore the relationship between teacher self-efficacy and teacher effectiveness. In addition, it explores the role of collaboration among teachers and principal leadership in explaining the above relationship. Design/methodology/approach Data were collected from 575 secondary school teachers and 6,020 students representing grade 6-12th from 25 privately owned schools in India. Teacher self-efficacy, collaboration and principal leadership were reported by the teachers whereas effectiveness of each teacher was captured from around ten students each who were taught by the corresponding teacher. Data were analyzed using SEM-PLS. Findings Results confirmed a positive association between teacher self-efficacy and the three dimensions of teacher effectiveness, namely, teacher’s delivery of course information, teacher’s role in facilitating teacher-student interactions, and teacher’s role in regulating students’ learning. Results also confirmed that both collaboration and principal leadership are positively related to teacher self-efficacy. Originality/value The results of the study indicate that schools need to focus on enhancing self-efficacy of their teachers and give importance to teacher collaboration and principal leadership in order to improve their effectiveness in terms of delivery of instruction, teacher-student interactions, and regulating student learning.
Early-phase circulating miRNAs predict tumor recurrence and survival of hepatocellular carcinoma patients after liver transplantation

Post-liver transplantation tumor recurrence is a major challenge for hepatocellular carcinoma (HCC) recipients. We aimed to identify early-phase circulating microRNAs after liver transplantation for predicting tumor recurrence and survival of HCC recipients. Circulating microRNA profiles at early-phase (2-hour after portal vein reperfusion) after liver transplantation were compared between HCC recipients with (n=4) and without tumor recurrence (n=8) by microarray analyses. Candidate microRNAs were validated in 62 HCC recipients by quantitative RT-PCR. The prognostic values of microRNAs for tumor recurrence and survival were examined. Simulated in vitro ischemia-reperfusion injury models were employed to characterize the possible mechanism of up-regulation of circulating microRNAs. Our results showed that up-regulation of circulating miR-148a, miR-1246 or miR-1290 at early-phase was significantly associated with HCC recurrence after liver transplantation. Among them, miR-148a (p=0.030) and miR-1246 (p=0.009) were significant predictors of HCC recurrence. MiR-1246 was an independent predictor of overall (p=0.023) and disease-free survival (p=0.020) of HCC recipients. The level of early-phase circulating miR-1246 was positively correlated with serum AST and ALT levels in HCC recipients after liver transplantation. The expression of hepatic miR-1246 was positively correlated with TNFα mRNA. In vitro experiments indicated that injury-induced activation and differentiation of macrophages significantly elevated the expression and secretion of miR-1246. In conclusion, early-phase circulating miR-1246 is an indicator of hepatic injury and a novel prognostic biomarker for tumor recurrence and survival of HCC recipients after liver transplantation.
Cost-bene t analysis of local decisions, with application to home radon measurement and remediation

This paper examines the decision problems associated with measurement and remediation of environmental hazards, using the example of indoor radon (a carcinogen) as a case study. Innovative methods developed here include (1) the use of results from previous statistical analysis to allow recommendations to vary geographically, (2) graphical methods to display the aggregate consequences of decisions by individuals, and (3) alternative parameterizations for individual variation in the dollar value of a given reduction in risk. We perform cost-bene t analyses for a variety of decision strategies, as a function of home types and geography, so that measurement and remediation can be recommended where it is most e ective. We also brie y discuss the sensitivity of policy recommendations and outcomes to uncertainty in inputs. For the home radon example, we estimate that if the recommended decision rule were applied to all houses in the United States, it would be possible to save the same number of lives as with the current o cial recommendations for about 40% less cost.
Low tacrolimus concentrations and increased risk of early acute rejection in adult renal transplantation.

BACKGROUND A retrospective analysis was performed on adult renal transplant recipients to evaluate the relationship between tacrolimus trough concentrations and the development of rejection in the first month after transplant. METHODS A total of 349 concentrations from 29 patients, measured by enzyme-linked immunosorbent assay (ELISA), were recorded. Based on an increased serum creatinine, 12 patients were considered to have organ rejection. Rejection was confirmed by biopsy in five of these. The median trough concentration of tacrolimus over the first month of therapy, or until the time of first rejection was compared in rejecters vs non-rejecters. RESULTS Median trough concentrations of tacrolimus were found to be lower in biopsy-proven rejecters vs non-rejecters (P=0.03) and all rejecters vs non-rejecters (P=0.04). The average median concentration (+/-SD) in the biopsy-proven rejecter group was 5.09+/-1.16 ng/ml, compared to 9.20+/-3.52 ng/ml in the non-rejecter group. After exclusion of an outlier, the average median concentration in all rejecters was 5.57+/-1.47 ng/ml, compared with 9.20+/-3.52 ng/ml in non-rejecters. A rejection rate of 55% was found for patients with a median trough concentration between 0 and 10 ng/ml. This compared with no observed rejection in patients with a median concentration between 10 and 15 ng/ml. CONCLUSION A significant relationship exists between organ rejection and median tacrolimus trough concentrations in the first month post-transplant, with patients displaying low concentrations more likely to reject. In order to minimize rejection in the first month after renal transplantation, trough concentrations greater than 10 ng/ml must be achieved.
Multichannel CSMA with signal power-based channel selection for multihop wireless networks

We describe a new carrier-sense multiple access (CSMA) protocol for multihop wireless networks, using multiple channels and a distributed channel selection scheme. The proposed protocol divides the available bandwidth into N channels where the transmitting station selects an appropriate channel for packet transmission. The selection criterion is based on the interference power measurements on the channels. We show via simulations that this multichannel CSMA protocol provides a higher throughput compared to its single channel counterpart by reducing the packet loss due to collisions.
Buyers versus Sellers: How They Differ in Their Responses to Framed Outcomes

Consumers' reactions to a difference in price can depend on how it is framed. If buyers interpret paying $60 rather than $65 as getting a $5 discount, they are likely to consider paying $60 to be a gain and paying $65 to be a nongain. Alternatively, if they interpret having to pay $65 rather than $60 as incurring a $5 penalty, they may consider paying $60 to be a nonloss and paying $65 to be a loss. Similarly, sellers can also experience gains, nongains, nonlosses, and losses. This paper suggests that buyers are prevention focused and consequently place a greater emphasis on loss-related frames whereas sellers are promotion focused and place a greater emphasis on gain-related frames. Therefore, for equivalent positive outcomes, buyers feel better about nonlosses but sellers feel better about gains. For equivalent negative outcomes, buyers feel worse about losses but sellers feel worse about nongains. These effects, however, disappear when there is little motivation to process information about the monetary transaction.
Dendritic growth and remodeling of cat retinal ganglion cells during fetal and postnatal development

We have studied the development of retinal ganglion cell morphology in the cat's visual system from early fetal to postnatal times. In particular, we have examined the contribution of growth and remodeling to the establishment of mature retinal ganglion cell form. Ganglion cells were identified by retrograde labeling with rhodamine latex microspheres deposited in the superior colliculus and lateral geniculate nucleus between embryonic day 34 (E34; birth = E65) and adulthood. To reveal the fine morphological details of retrogradely labeled ganglion cells, 48 hr later Lucifer yellow was injected intracellularly in living retinae that had been dissected and maintained in vitro. Our results show that at E35–37 the majority of ganglion cells are very simple in morphology, with a few dendritic processes that are generally aligned in a radial direction towards or away from the optic disc. During the ensuing 2 week period, there is a progressive growth and elaboration of dendrites. By E50, some ganglion cells resembling the adult alpha, beta, and gamma classes can be identified based on comparisons of the appearance and dimensions of their dendritic trees and somata with neighboring filled cells. However, ganglion cell dendrites and axons at this age express several transient morphological features. The axons of ganglion cells give rise to delicate processes originating from the intraretinal portion of the axon, including side branches, present in about half of the cells, and occasionally bifurcations that give rise to axon collaterals. These transient axonal features are present throughout development, including the neonatal period; no axon collaterals were observed after postnatal day 15, while axonal side branches persisted even at P31 but were gone by adulthood. Ganglion cell dendrites exhibit excessive branches and exuberant somatic and dendritic spines. Quantitative analysis of these processes shows that after E45 dendritic trees increase dramatically in complexity, reaching the peak number of spines and branch points by the first week of postnatal life. The number of dendritic processes then falls abruptly to reach near-adult levels by the end of the first postnatal month. Even though dendritic morphology closely resembles that seen in the adult at this age, ganglion cell bodies and dendrites must continue to grow to reach their adult size. (ABSTRACT TRUNCATED AT 400 WORDS)
Statistical Analysis of BATSE Gamma-Ray Bursts: Self-Similarity and the Amati Relation

The statistical properties of a complete, flux-limited sample of 197 long gamma-ray bursts (GRBs) detected by BATSE are studied. In order to bring forth their main characteristics, care was taken to define a representative set of 10 parameters. A multivariate analysis gives that ~70% of the total variation in parameter values is driven by only three principal components. The variation of the temporal parameters is clearly distinct from that of the spectral ones. A close correlation is found between the half-width of the autocorrelation function (τ) and the emission time (𝒯50); most importantly, this correlation is self-similar in the sense that the mean values and dispersions of both τ and 𝒯50 scale with the duration of the burst (T90). It is shown that the Amati relation can be derived from the sample and that the scatter around this relation is correlated with the value of τ. Hence, τ has a role similar to that of the break in the afterglow light curve (tb) in the Ghirlanda-relation. In the standard GRB-scenario, the close relation between a global parameter (tb) and a local one (τ) indicates that some of the jet-properties do not vary much for different lines of sight. Finally, it is argued that the basic temporal and spectral properties are associated with individual pulses, while the overall properties of a burst is determined mainly by the number of pulses.
Longitudinal Associations between Exercise and Pain in the General Population - The HUNT Pain Study

Background Population-based studies have reported conflicting findings on the relationship between physical activity and pain, and most studies reporting a relationship are cross sectional. Temporal relationships are therefore difficult to infer and associations may be subject to confounding from a variety of other factors. The aim of the current study was to investigate the association between exercise and pain longitudinally and to use within subjects analyses to remove between subjects confounding. Methods In the population-based HUNT 3 study, participants reported both pain and level of exercise. A random sub-sample of 6419 participants was in addition invited to report their last week pain and exercise every three months over a 12 month period (five measurements in total). We used multilevel mixed effects linear regression analyses to prospectively estimate the association between regular levels of exercise (measured in HUNT 3) and subsequent longitudinal reporting of pain. We also estimated within-subjects associations (i.e. the variation in pain as a function of variation in exercise, over time, within individuals) to avoid confounding from between subject factors. Results Among those invited to participate (N = 6419), 4219 subjects returned at least two questionnaires. Compared with subjects who reported no or light exercise, those who reported moderate levels of exercise or more at baseline, reported less pain in repeated measures over a 12 month period in analyses adjusted for age, sex,education and smoking. Adjusting for baseline level of pain distinctly attenuated the findings. Within subjects, an increase in exercise was accompanied by a concurrent reduction in intensity of pain. However, we found no indication that exercise level at one occasion was related to pain reporting three months later. Conclusion This longitudinal population-based study indicates that exercise is associated with lower level of pain and that this association is close in time.