Miracle-dz/UniFAR-FTUs huggingface dataset:
Use of item response analysis to investigate measurement properties and clinical validity of data for the dynamic gait index.

BACKGROUND AND PURPOSE The Dynamic Gait Index (DGI) is a standardized clinical assessment that aids in evaluating a subject's ability to modify gait in response to changing demands. The purpose of this study was to use Rasch measurement theory to examine whether the DGI rating scale meets suggested psychometric guidelines, whether the hierarchical order of DGI tasks is consistent with a clinically logical testing procedure, and whether the DGI represents a unidimensional construct. SUBJECTS Subjects were 84 community-dwelling male veterans (age range=64-88 years; mean+/-SD=75+/-6.47 years). METHODS Data were retrieved retrospectively from the participants' clinical records. The Rasch measurement model with the WINSTEPS program was used in this study because it offers distinct advantages over traditional psychometric approaches. RESULTS Overall, the DGI showed sound item psychometric properties. Each of the original 4 rating scale categories appeared to distinctly identify subjects at different ability levels. The analysis revealed a clear item difficulty hierarchical order that is generally consistent with clinical expectations. In addition, fit statistics and principal components analysis indicated that the 8 items of the DGI appear to represent a single construct. DISCUSSION AND CONCLUSION The results suggest that the rating scale of the DGI is used appropriately for community-dwelling older subjects with balance problems. The findings support the continued use of this well-constructed scale for clinical and research assessment in a community-dwelling population of older subjects.
Mixture cure model with random effects for clustered interval‐censored survival data

The mixture cure model is an effective tool for analysis of survival data with a cure fraction. This approach integrates the logistic regression model for the proportion of cured subjects and the survival model (either the Cox proportional hazards or accelerated failure time model) for uncured subjects. Methods based on the mixture cure model have been extensively investigated in the literature for data with exact failure/censoring times. In this paper, we propose a mixture cure modeling procedure for analyzing clustered and interval‐censored survival time data by incorporating random effects in both the logistic regression and PH regression components. Under the generalized linear mixed model framework, we develop the REML estimation for the parameters, as well as an iterative algorithm for estimation of the survival function for interval‐censored data. The estimation procedure is implemented via an EM algorithm. A simulation study is conducted to evaluate the performance of the proposed method in various practical situations. To demonstrate its usefulness, we apply the proposed method to analyze the interval‐censored relapse time data from a smoking cessation study whose subjects were recruited from 51 zip code regions in the southeastern corner of Minnesota. Copyright © 2011 John Wiley & Sons, Ltd.
QUASIREPLICATION AND THE CONTRACT OF ERROR: Lessons from Sex Ratios, Heritabilities and Fluctuating Asymmetry

▪ Abstract Selective reporting—e.g., the preferential publication of results that are statistically significant, or consistent with theory or expectation—presents a challenge to meta-analysis and seriously undermines the quest for generalizations. Funnel graphs (scatterplots of effect size vs. sample size) help reveal the extent of selective reporting. They also allow the strength of biological effects to be judged easily, and they reaffirm the value of graphical presentations of data over statistical summaries. Funnel graphs of published results, including: (a) sex-ratio variation in birds, (b) field estimates of heritabilities, and (c) relations between fluctuating asymmetry and individual attractiveness or fitness, suggest selective reporting is widespread and raise doubts about the true magnitude of these phenomena. Quasireplication—the “replication” of previous studies using different species or systems—has almost completely supplanted replicative research in ecology and evolution. Without incentives.
The IL-6/STAT3 pathway upregulates microRNA-125b expression in hepatitis C virus infection

Background/Aims MicroRNA-125b (miR-125b) has been found to regulate inflammation and acts as an oncogene in many cancers. The mechanisms of miR-125b expression during hepatitis C virus (HCV) infection remain to be clarified. The present study aims to identify the factors that might regulate miR-125b expression in HCV infection. Results High expression of miR-125b was found to correlate with HCV infection in replicon cells and in sera from HCV-infected patients, whereas the miR-125b inhibitor reduced HCV gene expression. The interleukin 6 (IL-6)/signal transducer and activator of transcription 3 (STAT3) pathway plays an inducible effect on miR-125b gene expression. STAT3 siRNA or inhibitor could reduce HCV replication. Materials and Methods HCV replicon cells Con1 (type 1b) and Huh7/Ava5 (type 1b) were treated with 17-hydroxy-jolkinolide B (HJB) or STAT3 siRNA. Cell viability assay and Renilla Luciferase Assay were used. Fragments of the miR-125b-1 promoter were constructed for the luciferase reporter assay. PSMB8, PSMB9, miR-125b-1, and miR-125b-2 expression was determined using TaqMan® Gene Expression Assays. Western blot analysis was performed to assess protein abundance. Conclusions This study elucidates a novel pathway for miR-125b in the pathogenesis of chronic HCV infection and suggests it as a possible target for treating HCV infection.
Understanding the role of mind wandering in stress-related working memory impairments

ABSTRACT Mind wandering has been identified as a possible cause for stress-related working memory (WM) task impairments following laboratory stressors. The current study attempted to induce mind wandering regarding negative, positive, or neutral events using an expressive writing task and examined the impact on WM task performance. We examined the role of mind wandering in understanding the impact of life stress on WM. Additionally, we explored the role of thought suppression on the relationship between mind wandering and WM. One hundred and fifty participants completed WM measures before (Time 1) and after (Time 2) the writing manipulation. The writing manipulation did not alter mind wandering or WM task performance. Time 1 WM predicted mind wandering during the Time 2 WM task, which subsequently predicted poorer Time 2 WM task performance. The impact of daily life stress on WM was mediated by mind wandering. Trait levels of thought suppression moderated the impact of mind wandering on WM. Specifically, higher levels of suppression resulted in stronger negative impact of mind wandering on WM task performance. Findings are discussed in terms of the impact of mind wandering on WM task performance.
DNA barcode-based delineation of putative species: efficient start for taxonomic workflows

The analysis of DNA barcode sequences with varying techniques for cluster recognition provides an efficient approach for recognizing putative species (operational taxonomic units, OTUs). This approach accelerates and improves taxonomic workflows by exposing cryptic species and decreasing the risk of synonymy. This study tested the congruence of OTUs resulting from the application of three analytical methods (ABGD, BIN, GMYC) to sequence data for Australian hypertrophine moths. OTUs supported by all three approaches were viewed as robust, but 20% of the OTUs were only recognized by one or two of the methods. These OTUs were examined for three criteria to clarify their status. Monophyly and diagnostic nucleotides were both uninformative, but information on ranges was useful as sympatric sister OTUs were viewed as distinct, while allopatric OTUs were merged. This approach revealed 124 OTUs of Hypertrophinae, a more than twofold increase from the currently recognized 51 species. Because this analytical protocol is both fast and repeatable, it provides a valuable tool for establishing a basic understanding of species boundaries that can be validated with subsequent studies.
Self-Assembled Lipid Nanoparticles for Oral Delivery of Heparin-Coated Iron Oxide Nanoparticles for Theranostic Purposes

Recently, solid lipid nanoparticles (SLNs) have attracted increasing attention owing to their potential as an oral delivery system, promoting intestinal absorption in the lymphatic circulation which plays a role in disseminating metastatic cancer cells and infectious agents throughout the body. SLN features can be exploited for the oral delivery of theranostics. Therefore, the aim of this work was to design and characterise self-assembled lipid nanoparticles (SALNs) to encapsulate and stabilise iron oxide nanoparticles non-covalently coated with heparin (Fe@hepa) as a model of a theranostic tool. SALNs were characterised for physico-chemical properties (particle size, surface charge, encapsulation efficiency, in vitro stability, and heparin leakage), as well as in vitro cytotoxicity by methyl thiazole tetrazolium (MTT) assay and cell internalisation in CaCo-2, a cell line model used as an indirect indication of intestinal lymphatic absorption. SALNs of about 180 nm, which are stable in suspension and have a high encapsulation efficiency (>90%) were obtained. SALNs were able to stabilise the heparin coating of Fe@hepa, which are typically unstable in physiological environments. Moreover, SALNs–Fe@hepa showed no cytotoxicity, although their ability to be internalised into CaCo-2 cells was highlighted by confocal microscopy analysis. Therefore, the results indicated that SALNs can be considered as a promising tool to orally deliver theranostic Fe@hepa into the lymphatic circulation, although further in vivo studies are needed to comprehend further potential applications.
TCR-clonotyping-based Analysis of a Frenemy-Public T Cells

Public T cells are characterized by a T-cell population bearing identical T-cell receptor (TCR) amino acid sequences in a majority of individuals. However, due to their out-of-balance production, they may serve as both "friend" and "enemy", i.e. a frenemy in many physiological and pathological activities. Thanks to the development of advanced TCR-clonotyping methods, such as next generation sequencing (NGS), we can gain a better understanding of public T-cell responses. In this review, we commenced with the underlying mechanisms of public TCR-production, and then discussed some researches that have been successfully utilized as a new method for the study of the CDR3 regions of the public and private TCRs, and we further explored the merits and demerits of the public T cells in different diseases. Finally, we discussed the current challenges and future hot focuses. Keywords— public T cells, TCR clonotyping, public TCR, private TCR, NGS
Alkaline peroxide mechanical pulping of novel Brazilian Eucalyptus hybrids

Eucalyptus wood is among the most important biomass resource in the world. Wood mechanical defibration and fibrillation are energy-intensive processes utilized not only to produce pulp for papermaking, but also to produce reinforcement fibers for biocomposites, nanocellulose, or pretreat lignocellulosic material for biofuels production. The structural features of different Eucalyptus hybrids affecting the refining energy consumption and produced fiber furnish properties were evaluated. The defibration and fiber development were performed using an alkaline peroxide mechanical pulping (APMP) process, which included chelation followed by an alkaline peroxide treatment prior to wood chip defibration. Despite the similar wood densities and chemical compositions of different Eucalyptus hybrids, there was a clear difference in the extent of defibration and fibrillation among the hybrids. The high energy consumption was related to a high amount of guaiacyl lignin. This observation is of major importance when considering the optimal wood hybrids for mechanical wood defibration and for understanding the fundamental phenomena taking place in chemi-mechanical defibration of wood.
Fructose, high-fructose corn syrup, sucrose, and nonalcoholic fatty liver disease or indexes of liver health: a systematic review and meta-analysis

Background: Concerns have been raised about the concurrent temporal trend between simple sugar intakes, especially of fructose or high-fructose corn syrup (HFCS), and rates of nonalcoholic fatty liver disease (NAFLD) in the United States. Objective: We examined the effect of different amounts and forms of dietary fructose on the incidence or prevalence of NAFLD and indexes of liver health in humans. Design: We conducted a systematic review of English-language, human studies of any design in children and adults with low to no alcohol intake and that reported at least one predetermined measure of liver health. The strength of the evidence was evaluated by considering risk of bias, consistency, directness, and precision. Results: Six observational studies and 21 intervention studies met the inclusion criteria. The overall strength of evidence for observational studies was rated insufficient because of high risk of biases and inconsistent study findings. Of 21 intervention studies, 19 studies were in adults without NAFLD (predominantly healthy, young men) and 1 study each in adults or children with NAFLD. We found a low level of evidence that a hypercaloric fructose diet (supplemented by pure fructose) increases liver fat and aspartate aminotransferase (AST) concentrations in healthy men compared with the consumption of a weight-maintenance diet. In addition, there was a low level of evidence that hypercaloric fructose and glucose diets have similar effects on liver fat and liver enzymes in healthy adults. There was insufficient evidence to draw a conclusion for effects of HFCS or sucrose on NAFLD. Conclusions: On the basis of indirect comparisons across study findings, the apparent association between indexes of liver health (ie, liver fat, hepatic de novo lipogenesis, alanine aminotransferase, AST, and γ-glutamyl transpeptase) and fructose or sucrose intake appear to be confounded by excessive energy intake. Overall, the available evidence is not sufficiently robust to draw conclusions regarding effects of fructose, HFCS, or sucrose consumption on NAFLD.
Verification of Current Risk Scores for Kawasaki Disease in Korean Children

The purpose of this study was to evaluate and assess the compatibility of current risk scoring systems from Japan that were developed to predict intravenous immunoglobulin (IVIG) resistance in patients with Kawasaki disease (KD). The authors previously investigated another prediction model for patients with refractory KD in Korea. A retrospective study involving 350 patients with KD who were admitted between January 2014 and December 2015 was performed. Patients younger than 2 years were excluded for the propensity score matching in this study. Patients were classified into IVIG responders and IVIG resistance groups. The well-known Harada, Kobayashi, and Egami risk scores were calculated for each patient, and the proportion of high-risk patients was compared between the two groups for each risk score. Logistic regression analysis revealed that platelets, C-reactive protein (CRP) levels, and aspartate aminotransferase levels were independent predictors of IVIG resistance. Multivariate analysis suggested that platelets and CRP were risk factors. Risk-scoring systems from Japan have good specificity but low sensitivity. Among the three risk scoring systems, the Kobayashi risk score demonstrated significant differences between the IVIG resistance and IVIG responder groups in Korean patients with KD. It is very important to identify IVIG-resistant patients to protect them from ongoing coronary arterial lesion(s); therefore, early prediction and timely optimal additional treatment is of significant benefit. It would be helpful to construct a highly sensitive, exclusive scoring system for Korean patients with KD.
Caregiver and care recipient characteristics as predictors of psychotropic medication use in community-dwelling dementia patients

Objectives: The current practice of prescribing psychotropic medication for the management of dementia-related behavioral disturbances is under substantial debate. Using Pearlin's stress process model as theoretical underpinning, the aim of this investigation is to identify caregiver and care recipient characteristics as predictors of anxiolytic, antipsychotic, and antidepressant use among community-dwelling dementia patients. We hypothesized that caregiving burden and patient characteristics, particularly behavior disturbances and pain, would be positively associated with psychotropic medication use. Methods: Data for this exploratory, cross-sectional study were drawn from the baseline assessment of the Resources for Enhancing Alzheimer's Caregiver Health II trial. Only participants with full baseline information were examined (N = 598). Caregiver characteristics, such as confidence managing problematic behaviors, and care recipient characteristics including pain, problem behaviors, cognitive impairment, and functional impairment, were examined in relation to care recipient psychotropic medication use. Results: Contrary to our hypothesis, behavioral disturbances and burden associated with these disturbances were not significantly associated with psychotropic use. Rather, caregiver characteristics such as race and overall vigilance, and care recipient characteristics such as cognitive status, functional status, and pain were significantly associated with the use of psychotropic medication. Findings differed by class of medication. Conclusion: These exploratory findings suggest the utility of a holistic approach to understanding the factors associated with pharmacotherapy among community-dwelling elders with dementia. Significant associations between caregiver characteristics and care recipient psychotropic medication use suggest that educating caregivers in non-pharmacologic strategies hold promise for a more balanced biopsychosocial approach to maintaining dementia patients in the community.
Cardiac safety of donepezil in elderly patients with Alzheimer disease.

OBJECTIVE Donepezil is a widely used cholinesterase inhibitor for the treatment of Alzheimer's disease (AD), however its cholinergic adverse side effects on the cardiovascular system are still unclear. In this study, we aimed to examine the adverse side effects caused by donepezil on cardiac rhythm and postural blood pressure changes in elderly patients with Alzheimer Disease. METHODS The ECG parameters including heart rate, PR, QT, QTc interval and QRS duration and postural blood pressure changes were recorded at the baseline and at each donepezil dose level (5 and 10 mg/d). Patients Seventy-one consecutive patients who were referred by primary care centers to a Geriatric Clinic were enrolled and underwent comprehensive geriatric assessment. RESULTS Fifty-two subjects completed the study. There were no significant changes relative to the baseline in any of the ECG parameters or arterial blood pressure at any of the investigated dosages of donepezil. CONCLUSION It was demonstrated that donepezil was not associated with increased negative chronotropic, arrhythmogenic or hypotensive effects for elderly patients with Alzheimer's disease.
Dissociable roles for histone acetyltransferases p300 and PCAF in hippocampus and perirhinal cortex‐mediated object memory

The importance of histone acetylation for certain types of memory is now well established. However, the specific contributions of the various histone acetyltransferases to distinct memory functions remain to be determined; therefore, we employed selective histone acetyltransferase protein inhibitors and short‐interference RNAs to evaluate the roles of CREB‐binding protein (CBP), E1A‐binding protein (p300) and p300/CBP‐associated factor (PCAF) in hippocampus and perirhinal cortex (PRh)‐mediated object memory. Rats were tested for short‐ (STM) and long‐term memory (LTM) in the object‐in‐place task, which relies on the hippocampus and PRh for spatial memory and object identity processing, respectively. Selective inhibition of these histone acetyltransferases by small‐interfering RNA and pharmacological inhibitors targeting the HAT domain produced dissociable effects. In the hippocampus, CBP or p300 inhibition impaired long‐term but not short‐term object memory, while inhibition of PCAF impaired memory at both delays. In PRh, HAT inhibition did not impair STM, and only CBP and PCAF inhibition disrupted LTM; p300 inhibition had no effects. Messenger RNA analyses revealed findings consistent with the pattern of behavioral effects, as all three enzymes were upregulated in the hippocampus (dentate gyrus) following learning, whereas only CBP and PCAF were upregulated in PRh. These results demonstrate, for the first time, the necessity of histone acetyltransferase activity for PRh‐mediated object memory and indicate that the specific mnemonic roles of distinctive histone acetyltransferases can be dissociated according to specific brain regions and memory timeframe.
Seasonal cycles enhance disparities between low- and high-income countries in exposure to monthly temperature emergence with future warming

A common proxy for the adaptive capacity of a community to the impacts of future climate change is the range of climate variability which they have experienced in the recent past. This study presents an interpretation of such a framework for monthly temperatures. Our results demonstrate that emergence into genuinely ‘unfamiliar’ climates will occur across nearly all months of the year for low-income nations by the second half of the 21st century under an RCP8.5 warming scenario. However, high income countries commonly experience a large seasonal cycle, owing to their position in the middle latitudes: as a consequence, temperature emergence for transitional months translates only to more-frequent occurrences of heat historically associated with the summertime. Projections beyond 2050 also show low-income countries will experience 2–10 months per year warmer than the hottest month experienced in recent memory, while high-income countries will witness between 1–4 months per year hotter than any month previously experienced. While both results represent significant departures that may bring substantive societal impacts if greenhouse gas emissions continue unabated, they also demonstrate that spatial patterns of emergence will compound existing differences between high and low income populations, in terms of their capacity to adapt to unprecedented future temperatures.