Miracle-dz/UniFAR-FTUs huggingface dataset:
Prognostic value of serum exosomal microRNA-21 for patients with renal cell carcinoma

Background: Renal cell carcinoma (RCC) is the most common malignant cancer in the adult kidney. The aim of this study is to explore the prognostic values of exosomal miR-21 in patients with RCC. Methods: We retrospectively reviewed 62 patients with RCC. The expressions of exosomal miR-21 were detected by real-time PCR. Prognostic factors were evaluated using Kaplan-Meier curves and Cox proportional hazards models. Results: Of all 62 patients with RCC, miR-21 concentration was significantly higher in the exosomes than in the exosome-depleted supernatants and the whole plasma samples (P<0.001), which indicated that miR-21 mostly expressed in the exosomes. Moreover, through Kaplan-Meier survival analysis to compare OS and PFS according to miR-21 expression, we found that patients with low expression of exosomal miR-21 had a significantly better OS (P=0.03) and PFS (P=0.001) than patients with high exosomal miR-21 expression. Multivariable ananlysi showed that low exosomal miR-21 was also a favorable independent risk factor for both OS and RFS. Conclusions: In this study, we found that miR-21 concentration was significantly higher in the exosomes than in the exosome-depleted supernatants and the whole plasma samples. Furthermore, low exosomal miR-21 was also a favorable independent risk factor for both OS and PFS of patients with RCC.
Goodbye Smokers ’ Corner : Health Eff ects of School Smoking Bans # 678

We estimate the causal impact of school smoking bans in Germany on the propensity and intensity of smoking. Using representative longitudinal data, we use variation in state, year, age cohort, school track, and survey time for implementation of such smoking bans to identify the effects of interest. The estimates from our multipledifferences approach show that six to ten years after intervention, propensity towards smoking is reduced by 7-16 percent, while the number of smoked cigarettes per day decreases by 8-13 percent. Our results still hold if we account for the clustered data structure by evaluating the effects with randomization inference. JEL Classification: I12, I18, C12, C21
Enhancing Product Development Capabilities via Knowledge Management : A Case Study of Wistron

In recent years in-depth research regarding how knowledge management process affects the enhancement of product development capabilities has been still limited, so the study adopts the single-case-study method and applies the model of Probst et al. (2002) to investigate the knowledge management practices within the R&D Department of Wistron, a laptop computer ODM. The research outcome reveals that three main sources of knowledge goals are customers, suppliers, and set within Wistron. As for knowledge identification, there are four ways to access: specialized research department, database, online learning platform, and interactions between departments; As for knowledge acquisition, there are two primary knowledge providers: customers and suppliers; There are three directions in knowledge development: the cultivation of staff creativity, the cultivation of the staff’s problem solving , and innovation in problem solving; In knowledge sharing and distribution, there are four methods: through project and mobile dispatch, distributing one laptop computer for every person , the database and online learning, and the best practices of sharing; There are two coordination methods in knowledge utilization: culture and coordination of learning activities; In knowledge retention, the management emphasizes four foci: knowledge transfer, retention, experience heritage, the management and access of the existing technical knowledge; In knowledge assessment, the management depends mainly on quantitative indicators with the support of qualitative measures. Therefore, this study concludes Wistron has effectively implemented these eight steps of knowledge management process to enhance its product development capabilities. Another important finding is that Wistron draws on six types of integration to promote knowledge integration which transforms further to organizational capability. With enhanced organizational capability, product development capabilities improve significantly.
Artificial light at night causes reproductive failure in clownfish

The Earth is getting brighter at night, as artificial light at night (ALAN) continues to increase and extend its reach. Despite recent recognition of the damaging impacts of ALAN on terrestrial ecosystems, research on ALAN in marine systems is comparatively lacking. To further our understanding of the impacts of ALAN on marine organisms, this study examines how the reproductive fitness of the common clownfish Amphiprion ocellaris is influenced by the presence of ALAN. We assessed how exposure to low levels of ALAN affects (i) frequency of spawning, (ii) egg fertilization success, and (iii) hatching success of A. ocellaris under control (12 : 12 day–night) and treatment (12 : 12 day–ALAN) light regimes. While we found exposure to ALAN had no impact on the frequency of spawning or fertilization success, ALAN had dramatic effects on hatching. Amphiprion ocellaris eggs incubated in the presence of ALAN simply did not hatch, resulting in zero survivorship of offspring. These findings suggest ALAN can significantly reduce reproductive fitness in a benthic-spawning reef fish. Further research in this field is necessary to fully understand the extent of this impact on population and community dynamics in the wild.
On the diverse and opposing effects of nutrition on pathogen virulence

Climate change and anthropogenic activity are currently driving large changes in nutritional availability across ecosystems, with consequences for infectious disease. An increase in host nutrition could lead to more resources for hosts to expend on the immune system or for pathogens to exploit. In this paper, we report a meta-analysis of studies on host–pathogen systems across the tree of life, to examine the impact of host nutritional quality and quantity on pathogen virulence. We did not find broad support across studies for a one-way effect of nutrient availability on pathogen virulence. We thus discuss a hypothesis that there is a balance between the effect of host nutrition on the immune system and on pathogen resources, with the pivot point of the balance differing for vertebrate and invertebrate hosts. Our results suggest that variation in nutrition, caused by natural or anthropogenic factors, can have diverse effects on infectious disease outcomes across species.
A multi-sensory code for emotional arousal

People express emotion using their voice, face and movement, as well as through abstract forms as in art, architecture and music. The structure of these expressions often seems intuitively linked to its meaning: romantic poetry is written in flowery curlicues, while the logos of death metal bands use spiky script. Here, we show that these associations are universally understood because they are signalled using a multi-sensory code for emotional arousal. Specifically, variation in the central tendency of the frequency spectrum of a stimulus—its spectral centroid—is used by signal senders to express emotional arousal, and by signal receivers to make emotional arousal judgements. We show that this code is used across sounds, shapes, speech and human body movements, providing a strong multi-sensory signal that can be used to efficiently estimate an agent's level of emotional arousal.
Premeiotic and meiotic failures lead to hybrid male sterility in the Anopheles gambiae complex

Hybrid male sterility (HMS) contributes to speciation by restricting gene flow between related taxa. Detailed cytological characterization of reproductive organs in hybrid males is important for identifying phenotypes that can help guide searches of speciation genes. To investigate possible cellular causes of HMS, we performed crosses between closely related species of the Anopheles gambiae complex: An. merus with An. gambiae or An. coluzzii. We demonstrate that HMS in African malaria mosquitoes involves two defects in the reciprocal crosses: a premeiotic arrest of germline stem cells in degenerate testes and a failure of the reductional meiotic division of primary spermatocytes in normal-like testes. The premeiotic arrest in degenerate testes of hybrids is accompanied by a strong suppression of meiotic and postmeiotic genes. Unlike pure species, sex chromosomes in normal-like testes of F1 hybrids are largely unpaired during meiotic prophase I and all chromosomes show various degrees of insufficient condensation. Instead of entering reductional division in meiosis I, primary spermatocytes prematurely undergo an equational mitotic division producing non-motile diploid sperm. Thus, our study identified cytogenetic errors in interspecies hybrids that arise during the early stages of postzygotic isolation.
Urovysion FISH Could Be Effective and Useful Method to Confirm the Identity of Cultured Circulating Tumor Cells from Bladder Cancer Patients

Objective: To explore whether cultured CTC from bladder-cancer patients originate from bladder cancer and share chromosomal abnormalities, by means of a fluorescence in situ hybridization (FISH) test. Methods: A total of 15 ml of blood was collected from the patients with bladder cancer before treatment began. Isolated CTCs were divided into 5 ml for CTC enumeration and 10 ml for CTC culture. CTCs were counted by immunofluorescent staining with vimentin, cytokeratin, CD45, and DAPI antibody. CTCs were cultured using isolated CTCs in 96-well plates of Mesenchymal Stem Cell Growth Medium for 16~18 days. The resulting cultured CTCs from 20 men with bladder cancer were analyzed by Urovysion FISH. Results: Common gains were on chromosome 3, 7, and 17 in 20 (74.1%), 14 (51.9%), and 20 (74.1%) of 27 patients, respectively. Polysomy was detected on chromosomes 3 and 7 in 9 patients (33.3%). Polysomy involving two chromosomes was observed in 16 (59.3%, chromosome 3 and 17) and 9 patients (33.3%, chromosome 7 and 17) in the same cell. Among the patients with isolated gain, 17 (63.0%) met the positive criteria for Urovysion FISH. Homozygous deletion of 9p21, 5 (18.5%) involved more than 12 cells. Among the different patient cohorts, positive results based on the Urovysion criteria were obtained in cultured CTCs derived from 19 (70.4%) patients. Conclusion: Application of FISH Urovysion to cultured CTCs from bladder cancer could be an effective first step to confirm their origin and sharing of chromosomal abnormalities
A Nomogram for Prediction of Overall Survival in Patients with Node-negative Gallbladder Cancer

Background & Aims: According to the stage of tumor, it's hard suitable to predict the prognosis for gallbladder cancer, especially for node-negative gallbladder cancer. Therefore, we aimed to create a nomogram based on demographic and clinicopathologic characteristics to estimate individualized potential impacts on postoperative overall survival. Methods: 789 patients with node-negative gallbladder cancer were selected from the Surveillance, Epidemiology, and End Results and randomly divided into training and internal validation group. Univariate and multivariate survival analysis were used to identify prognostic factors. The nomogram was constructed using Cox proportional hazards models. We evaluated the performance of the nomogram with Harrell's concordance index and calibration curve. The nomogram was externally validated in 115 patients with node-negative gallbladder cancer from the Sir Run Run Shaw hospital. Results: The nomogram for overall survival was built on the basis of five independent factors, such as age, sex, histology, T-stage, and number of examined lymph nodes. The C-index of nomogram for overall survival in the internal and external validation group was up to 0.724 and 0.716, respectively. Both of those calibration curves showed good agreement between predicted and observed outcomes in the 1-, 3-, 5-year overall survival. Compared to the 7th edition AJCC stage, the nomogram had a better difference in predicting overall survival, even could further classify patients into four risk subgroups in each stage. Conclusion: This nomogram can be used as a decision model to predict the outcomes of postoperative overall survival for node-negative gallbladder cancer, and may give useful guidance to clinicians for next treatment.
Data Mining by Pluralistic Approach on CRISPR Gene Editing in Plants

Genome engineering by site-specific nucleases enables reverse genetics and targeted editing of genomes in an efficacious manner. Contemporary revolutionized progress in targeted-genome engineering technologies based on Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-related RNA-guided endonucleases facilitate coherent interrogation of crop genome function. Evolved as an innate component of the adaptive immune response in bacterial and archaeal systems, CRISPR/Cas system is now identified as a versatile molecular tool that ensures specific and targeted genome modification in plants. Applications of this genome redaction tool-kit include somatic genome editing, rectification of genetic disorders or gene therapy, treatment of infectious diseases, generation of animal models, and crop improvement. We review the utilization of these synthetic nucleases as precision, targeted-genome editing platforms with the inherent potential to accentuate basic science “strengths and shortcomings” of gene function, complement plant breeding techniques for crop improvement, and charter a knowledge base for effective use of editing technology for ever-increasing agricultural demands. Furthermore, the emerging importance of Cpf1, Cas9 nickase, C2c2, as well as other innovative candidates that may prove more effective in driving novel applications in crops are also discussed. The mined data has been prepared as a library and opened for public use at www.lipre. org.
The GW Compendium: A Practical Guide to Theoretical Photoemission Spectroscopy

The GW approximation in electronic structure theory has become a widespread tool for predicting electronic excitations in chemical compounds and materials. In the realm of theoretical spectroscopy, the GW method provides access to charged excitations as measured in direct or inverse photoemission spectroscopy. The number of GW calculations in the past two decades has exploded with increased computing power and modern codes. The success of GW can be attributed to many factors: favorable scaling with respect to system size, a formal interpretation for charged excitation energies, the importance of dynamical screening in real systems, and its practical combination with other theories. In this review, we provide an overview of these formal and practical considerations. We expand, in detail, on the choices presented to the scientist performing GW calculations for the first time. We also give an introduction to the many-body theory behind GW, a review of modern applications like molecules and surfaces, and a perspective on methods which go beyond conventional GW calculations. This review addresses chemists, physicists and material scientists with an interest in theoretical spectroscopy. It is intended for newcomers to GW calculations but can also serve as an alternative perspective for experts and an up-to-date source of computational techniques.
Impaired Attention Orienting in Young Children With Fragile X Syndrome

Fragile X syndrome (FXS) is a genetic disorder caused by a trinucleotide CGG expansion within the FMR1 gene located on the X chromosome. Children with FXS have been shown to be impaired in dynamic visual attention processing. A key component of dynamic processing is orienting—a perceptual ability that requires disengagement and engagement of attention from one stimulus to fixate on a second. Orienting, specifically the disengagement and engagement of attention, has previously not been studied in young children with FXS. Using an eye tracking gap-overlap task, the present study investigated visual disengagement and engagement in young children with FXS, compared to mental age (MA)- and chronological age (CA)-matched typically developing children. On gap trials, the central stimulus elicited fixation, but then disappeared before the peripheral target appeared, imposing a visual gap between stimuli. On overlap trials, the central stimulus elicited fixation, and remained present when the peripheral target appeared, creating visual competition. A gap effect emerges when latencies to shift to the peripheral target are longer in overlap versus gap conditions, reflecting the recruitment of cortical and subcortical disengagement and engagement mechanisms. The gap effect was measured as the latency to orient attention to the peripheral target during gap versus overlap conditions. Both MA and CA groups showed the expected gap effect, where children were slower to orient to peripheral targets on overlap trials than on gap trials. In contrast, in the FXS group, saccadic latencies between gap and overlap trials were not significantly different, indicating no significant gap effect. These findings suggest disrupted attentional engagement patterns in FXS that may be underlying impairments in attention orienting, and suggest potential targets for attention training in this population.
Carbonic Anhydrase 1-Mediated Calcification Is Associated With Atherosclerosis, and Methazolamide Alleviates Its Pathogenesis

Vascular calcification is an important pathogenic process in atherosclerosis (AS); however, its immediate cause is unknown. Our previous study demonstrated that carbonic anhydrase 1 (CA1) stimulates ossification and calcification in ankylosing spondylitis and breast cancer. The current study investigated whether CA1 plays an important role in AS calcification and whether the CA inhibitor methazolamide (MTZ) has a therapeutic effect on AS. We successfully established an AS model by administration of a high-fat diet to apolipoprotein E (ApoE−/−) mice. The treated animals had significantly increased serum levels of high-density lipoprotein cholesterol (HDL-c) and nitric oxide (NO) and decreased serum concentrations of total cholesterol (TC), triglycerides (TG), low-density lipoprotein cholesterol (LDL-c), interleukin (IL-6), interferon (IFN)-γ, granulocyte-macrophage colony-stimulating factor (GM-CSF), tumor necrosis factor-α (TNF-α), chemokine (C-X-C motif) ligand 1/keratinocyte-derived chemokine (CXCL1/KC), and C-C motif chemokine ligand 2 (CCL2)/monocyte chemoattractant protein 1 (MCP-1). The treated mice also had reduced AS plaque areas and fat accumulation, with no clear calcium deposition in the intima of the blood vessels. CA1 expression was significantly increased in the aortic lesions, particularly in calcified regions, but the expression was dramatically lower in the mice that received MTZ treatment or MTZ preventive treatment. CA1 was also highly expressed in human AS tissues and in rat vascular smooth muscle cells (VSMCs) with β-glycerophosphate (㒐β-GP)-induced calcification. Acetazolamide (AZ), a CA inhibitor with a chemical structure similar to MTZ, markedly suppressed calcification and reduced CA1, IL-6, IFN-γ, GM-CSF, and TNF-α expression in cultured VSMCs. Anti-CA1 small interfering ribonucleic acid (siRNA) significantly suppressed calcification, cell proliferation, and migration, promoted apoptosis, and reduced IL-6, IFN-γ, GM-CSF, and TNF-α secretion in cultured VSMCs. These results demonstrated that CA1 expression and CA1-mediated calcification are significantly associated with AS progression. MTZ significantly alleviated AS and suppressed CA1 expression and proinflammatory cytokine secretion, indicating the potential use of this drug for AS treatment.
CpATG8, a Homolog of Yeast Autophagy Protein ATG8, Is Required for Pathogenesis and Hypovirus Accumulation in the Chest Blight Fungus

Autophagy is a degradation system in the cell, involved in the turnover of cellular components, development, differentiation, immune responses, protection against pathogens, and cell death. Autophagy is induced by nutrient starvation, in which cytoplasmic components and organelles are digested via vacuoles/lysosomes. In this study, by using electron microscopy, we observed that hypovirus CHV1-EP713 infection of Cryphonectria parasitica, the causative agent of chestnut blight disease, caused proliferation of autophagic-like vesicles. This phenomenon could be mimicked by treating the wild-type strain of the fungus EP155 with the autophagy induction drug rapamycin. Some of the hypovirulence-associated traits, including reduced pigmentation and conidiation, were also observed in the rapamycin-treated EP155. Quantitative reverse transcriptase polymerase chain reaction (qRT-PCR) revealed that genes involved in autophagy were up-regulated in expression. Deletion of cpatg8, a gene encoding a homolog of ATG8 in Saccharomyces cerevisiae, resulted in attenuation of virulence and reduction in sporulation, as well as accumulation of the double-stranded viral RNA. Furthermore, virus-encoded p29 protein was found to co-localize with CpATG8, implying that the viral protein may interfere with the function of CpATG8. Taken together, these findings show that cpatg8 can be regulated by the hypovirus and is required for virulence and development of the fungus and accumulation of viral dsRNA in chestnut blight fungus.