Miracle-dz/UniFAR-FTUs huggingface dataset:
Cascade word embedding to sentence embedding: A class label enhanced approach to phenotype extraction

In molecular biology, phenotypes are often described using complex semantics and diverse biomedical expressions, thereby facilitating the development of named entity recognition (NER). Here, we propose a novel approach of recognizing plant phenotypes by cascading word embedding to sentence embedding with a class label enhancement. We utilized a word embedding method to find high-frequency phenotypes with original sentences used as input in a sentence embedding method. Using this cascaded approach, we identified author-specific phenotypic expressions. In addition, we integrated a negative class label enhanced (NCLE) algorithm into our method to further optimize the training model of Sen2Vec. We used 56,748 PubMed abstracts of model organism Arabidopsis thaliana to test the effectiveness of our approach, which results in a 135% increase in the number of new phenotypic descriptions compared with the original phenotype ontology.
Stresses in implant-supported overdentures with bone resorption

bone resorption of the distal ridge. Acknowledgments Supported by CAPES/Brazilian Ministry of Education. We would like to thank Mr. Maico Thiessen Souza for his technical assistance in the development of all solid models. The geometric models of implants and abutments were mounted at the canine region to build the reference model 1 with absence of bone resorption or bone loss. To build the test models the mandible geometric solid was modified to simulate 2mm vertical bone loss surrounding the implants (model 2) and model 2 + resorption of the distal ridge (model 3).
Associations between interpersonal relationships and negative affect in adolescents: An Experience Sampling Study on the Role of Trait Coping

Abstract. Previous studies focused mostly on predicting the adjustment of adolescents based on distinct coping strategies. However, people generally do not use only one coping strategy, but rather select from a repertoire of coping strategies. This study aimed to identify these repertoires by categorizing adolescents by the coping strategies they use and by examining whether these typologies moderate the well-established relationship between negative affect and interpersonal relationships (e.g., close, acquaintances, alone). The experience sampling method (ESM) was used to assess negative affect and the interpersonal relationships of 280 adolescents (Mage = 14.19, SDage = .54; 59% girls) at nine randomly chosen times on six consecutive days. Coping strategies were measured with a questionnaire prior to ESM. Latent profile analysis revealed two profiles: passive copers and active copers. Furthermore, all participants reported less negative affect when they were with people with whom they had close interper.
A Synthon Approach to Artificial Chemistry

A coevolutionary model is discussed that incorporates the logical structure of constitutional chemistry and its kinetics on the one hand and the topological evolution of the chemical reaction network on the other hand. The motivation for designing this model is twofold. First, experiments that are to provide insight into chemical problems should be expressed in a syntax that remains as close as possible to real chemistry. Second, the study of physical properties of the complex chemical reaction networks requires growing models that incorporate features realistic from a biochemical perspective. In this article the theory and algorithms underlying the coevolutionary model are explained, and two illustrative examples are provided. These examples show that one needs to be careful in making general claims concerning the structure of chemical reaction networks.
Drive for muscularity and help-seeking: The mediational role of gender role conflict, self-stigma, and attitudes.

Men with greater gender role conflict (GRC) tend to exhibit a variety of body image concerns, including a drive for muscularity (DM). In accordance with the theory of planned behavior (TPB), men with higher levels of GRC also report negative attitudes and a lack of intentions to seek help for problems. Additionally, prior research regarding other individual and contextual help-seeking related variables has shown that men with higher GRC report increased stigma of both seeking help and having mental health problems, as well as greater concrete barriers to help-seeking. In this study, 176 undergraduate men were assessed for GRC, DM, and help-seeking-related variables including attitudes, intention to seek help, self-stigma of seeking help, self-stigma regarding mental health problems, and concrete barriers to seeking help. Results indicate that GRC is positively correlated with DM and negatively correlated with help-seeking variables. Mediation analyses suggest a relationship between DM, GRC, and help-seeking. Specifically, results demonstrate that GRC mediates the relationship between DM and intentions to seek help, thus explaining why men with body image concerns may be less likely to utilize treatment. In addition, self-stigma of seeking help and attitudes toward seeking help emerged as mediating factors between GRC and intentions to seek help. Intervention strategies aimed at increasing help-seeking behavior for men who suffer from body image concerns, and disordered eating and exercise behaviors, may benefit from targeting stigmatization and attitudes toward seeking help.
Automatic HAL generation for embedded multiprocessor systems

Automated hardware design flows considerably speed up the development of embedded systems and are a useful asset during architecture exploration phase. However, any existing software has to be adapted for every new system. In this work we will demonstrate, how a Hardware Abstraction Layer (HAL) for device addresses and properties can be automatically generated from a formal system description while providing sufficient abstraction from hardware details. Comparison to earlier projects show that this saves between 40-50 person-weeks of work per IP. Necessary device specific information is stored using a novel approach that allows the compiler to remove unused data. We will show with a real imaging application that this can reduce the amount of memory used by the HAL from ≈ 9.5% to ≈ 5.1% of the available scratchpad memory. It will also be shown that the overhead of this HAL only depends on the level of abstraction that is used by the application and that performance and memory usage will equal a hard-coded solution in the case that an application uses compile-time constant device identifiers.
Distinct DNA methylomes of newborns and centenarians

Human aging cannot be fully understood in terms of the constrained genetic setting. Epigenetic drift is an alternative means of explaining age-associated alterations. To address this issue, we performed whole-genome bisulfite sequencing (WGBS) of newborn and centenarian genomes. The centenarian DNA had a lower DNA methylation content and a reduced correlation in the methylation status of neighboring cytosine—phosphate—guanine (CpGs) throughout the genome in comparison with the more homogeneously methylated newborn DNA. The more hypomethylated CpGs observed in the centenarian DNA compared with the neonate covered all genomic compartments, such as promoters, exonic, intronic, and intergenic regions. For regulatory regions, the most hypomethylated sequences in the centenarian DNA were present mainly at CpG-poor promoters and in tissue-specific genes, whereas a greater level of DNA methylation was observed in CpG island promoters. We extended the study to a larger cohort of newborn and nonagenarian samples using a 450,000 CpG-site DNA methylation microarray that reinforced the observation of more hypomethylated DNA sequences in the advanced age group. WGBS and 450,000 analyses of middle-age individuals demonstrated DNA methylomes in the crossroad between the newborn and the nonagenarian/centenarian groups. Our study constitutes a unique DNA methylation analysis of the extreme points of human life at a single-nucleotide resolution level.
d-imbalance WOM codes for reduced inter-cell interference in multi-level NVMs

In recent years, due to the spread of multi-level nonvolatile memories (NVM), q-ary write-once memories (WOM) codes have been extensively studied. By using WOM codes, it is possible to rewrite NVMs t times before erasing the cells. The use of WOM codes enables to improve the performance of the storage device, however, it may also increase errors caused by inter-cell interference (ICI). This work presents WOM codes that restrict the imbalance between code symbols throughout the write sequence, hence decreasing ICI. We first specify the imbalance model as a bound d on the difference between codeword levels. Then a 2-cell code construction for general q and input size is proposed. An upper bound on the write count is also derived, showing the optimality of the proposed construction. The new codes are also shown to be competitive with known codes not adhering to the bounded imbalance constraint.
ARTIFACT: An Experimental Real-Time Window System

Multimedia and advanced real-time systems integrate a variety of applications and media types in one environment, many of which have timing properties which are not supported by current window systems running in multitasking environments. This paper discusses several key aspects to designing window systems which support continuous media and other real-time applications. These design considerations were used to construct ARTIFACT, a window system designed to investigate issues in building real-time window systems. Several of the behaviors of a prototype implementation of ARTIFACT are described, along with preliminary scheduling models and avenues for further research.
Targeting Human Glioblastoma Cells: Comparison of Nine Viruses with Oncolytic Potential

ABSTRACT Brain tumors classified as glioblastomas have proven refractory to treatment and generally result in death within a year of diagnosis. We used seven in vitro tests and one in vivo trial to compare the efficacy of nine different viruses for targeting human glioblastoma. Green fluorescent protein (GFP)-expressing vesicular stomatitis (VSV), Sindbis virus, pseudorabies virus (PRV), adeno-associated virus (AAV), and minute virus of mice i-strain (MVMi) and MVMp all infected glioblastoma cells. Mouse and human cytomegalovirus, and simian virus 40 showed only low levels of infection or GFP expression. VSV and Sindbis virus showed strong cytolytic actions and high rates of replication and spread, leading to an elimination of glioblastoma. PRV and both MVM strains generated more modest lytic effects and replication capacity. VSV showed a similar oncolytic profile on U-87 MG and M059J glioblastoma. In contrast, Sindbis virus showed strong preference for U-87 MG, whereas MVMi and MVMp preferred M059J. Sindbis virus and both MVM strains showed highly tumor-selective actions in glioblastoma plus fibroblast coculture. VSV and Sindbis virus were serially passaged on glioblastoma cells; we isolated a variant, VSV-rp30, that had increased selectivity and lytic capacity in glioblastoma cells. VSV and Sindbis virus were very effective at replicating, spreading within, and selectively killing human glioblastoma in an in vivo mouse model, whereas PRV and AAV remained at the injection site with minimal spread. Together, these data suggest that four (VSV, Sindbis virus, MVMi, and MVMp) of the nine viruses studied merit further analysis for potential therapeutic actions on glioblastoma.
Curcumin, An Atoxic Antioxidant and Natural NFκB, Cyclooxygenase-2, Lipooxygenase, and Inducible Nitric Oxide Synthase Inhibitor: A Shield Against Acute and Chronic Diseases.

BACKGROUND The world suffers a tsunami of chronic diseases, and a typhoon of acute illnesses, many of which are associated with the inappropriate or exaggerated activation of genes involved in inflammation. Finding therapeutic agents which can modulate the inflammatory reaction is the highest priority in medical research today. Drugs developed by the pharmaceutical industry have thus far been associated with toxicity and side effects, which is why natural substances are of increasing interest. METHODS A literature search (PubMed) showed almost 1500 papers dealing with curcumin, most from recent years. All available abstracts were read. Approximately 300 full papers were reviewed. RESULTS Curcumin, a component of turmeric, has been shown to be non-toxic, to have antioxidant activity, and to inhibit such mediators of inflammation as NFκB, cyclooxygenase-2 (COX-2), lipooxygenase (LOX), and inducible nitric oxide synthase (iNOS). Significant preventive and/or curative effects have been observed in experimental animal models of a number of diseases, including arteriosclerosis, cancer, diabetes, respiratory, hepatic, pancreatic, intestinal and gastric diseases, neurodegenerative and eye diseases. CONCLUSIONS Turmeric, an approved food additive, or its component curcumin, has shown surprisingly beneficial effects in experimental studies of acute and chronic diseases characterized by an exaggerated inflammatory reaction. There is ample evidence to support its clinical use, both as a prevention and a treatment. Several natural substances have greater antioxidant effects than conventional vitamins, including various polyphenols, flavonoids and curcumenoids. Natural substances are worth further exploration both experimentally and clinically.
Relevance of blood pressure variation in the circadian onset of cardiovascular events

Ambulatory blood pressure monitoring (ABPM) is a highly useful diagnostic tool as it can detect non-dipping and can distinguish masked hypertension, white-coat hypertension and sustained hypertension. Furthermore, measurement of blood pressure using ABPM has greater prognostic strength than single clinic blood pressure measurements. The Systolic Hypertension in Europe study, for example, found that elevation of ambulatory systolic blood pressure, but not conventional single cuff systolic blood pressure, by 10 mmHg was associated with adverse cardiovascular outcomes. Blood pressure follows a circadian rhythm, with peak levels during the morning hours. The morning period has also been associated with a greater risk for cardiovascular events compared with the rest of the 24 h. The morning surge in blood pressure, along with haemostatic changes that promote thrombosis, is believed to contribute to this heightened risk. Long-acting antihypertensive agents that provide blood pressure control throughout the 24-h dosing interval, including the morning hours, are the most appropriate therapeutic approach to hypertension. Direct comparative studies with telmisartan and other angiotensin-II receptor blockers and with amlodipine have shown that telmisartan has a long duration of action and controls blood pressure over the 24-h dosing period.
17&bgr;-estradiol-induced ACSL4 protein expression promotes an invasive phenotype in estrogen receptor positive mammary carcinoma cells

Long chain acyl-CoA synthase-4 (ACSL4) expression has been associated with an aggressive phenotype in breast carcinoma cells, whereas its role in ERα-positive breast cancer has not been studied. ACSL4 prefers 20-carbon polyunsaturated fatty acid (PUFA) substrates, and along with other ACSLs has been associated with cellular uptake of exogenous fatty acids. 17β-estradiol induces proliferation and invasive capacities in ERα+ve breast carcinoma that is associated with modifications of cellular lipid metabolism. In this study, treatment of steroid-starved ERα-positive MCF-7 and T47D mammary carcinoma cells with 17β-estradiol resulted in increased cellular uptake of the PUFA arachidonic acid (AA) and eicosapentaenoic acid (EPA), important building blocks for cellular membranes, and increased ACSL4 protein levels. There was no change in the expression of the ACSL1, ACSL3 and ACSL6 protein isotypes. Increased ACSL4 protein expression was not accompanied by changes in ACSL4 mRNA expression, but was associated with a significant increase in the protein half-life compared to untreated cells. ERα silencing reversed the impact of 17β-estradiol on ACSL4 protein levels and half-life. Silencing of ACSL4 eliminated the 17β-estradiol-induced increase in AA and EPA uptake, as well as the 17β-estradiol-induced cell migration, proliferation and invasion capacities. ASCL4 silencing also prevented the 17β-estradiol induced increases in p-Akt and p-GSK3β, and decrease in E-cadherin expression, important events in epithelial to mesenchymal transition. Taken together, these results demonstrate that ACSL4 is a target of 17β-estradiol-stimulated ERα and is required for the cellular uptake of exogenous PUFA and the manifestation of a more malignant phenotype in ERα+ve breast carcinoma cells.
Iterative Detection and Decoding for MIMO Systems with Knowledge-Aided Message Passing Algorithms

In this paper, we consider the problem of iterative detection and decoding (IDD) for multi-antenna systems using low-density parity-check (LDPC) codes. The proposed IDD system consists of a soft-input soft-output parallel interference (PIC) cancellation scheme with linear minimum mean-square error (MMSE) receive filters and two novel belief propagation (BP) decoding algorithms. The proposed BP algorithms exploit the knowledge of short cycles in the graph structure and the reweighting factors derived from the hypergraph's expansion. Simulation results show that when used to perform IDD for multi-antenna systems both proposed BP decoding algorithms can consistently outperform existing BP techniques with a small number of decoding iterations.
On secure communication in integrated heterogeneous wireless networks

The next generation of mobile wireless systems targets to obtain ubiquitous connectivity services for mobile users through heterogeneous wireless networks (HWNs), which integrate cellular network, WLAN, WiMAX, and MANET. It is essential to consider the security issue as one of the main objectives in developing HWNs. In this article, we discuss the security characteristics unique to HWNs and show how attacks against single or multi-hop wireless networks can be translated into powerful attacks against HWNs. We investigate various types of attacks against HWNs and provide an overview of existing solutions for security protection. We also identify underlying challenges in securing HWNs infrastructure and protecting the transmitted information.
A Descriptive and Correlational Study Between Employees' Level of Workplace Engagement and Generational Consideration

The purpose of the present quantitative descriptive, correlational study was to determine whether and to what degree a relationship existed between generational shifting at the workplace and the level of work engagement. Generations included in the study were Baby Boomers, Generation X, and Generation Y. The study also served to determine the relationship, between the employee motivations towards work and generational cohort, and the relationship between motivation sources and employee engagement. The study findings revealed that work engagement levels did not relate to generational cohorts. Similarly, the most prevalent motivation sources did not differ among the three generations. In terms of the relationship between motivation sources and employee engagement, the study added to the body of knowledge about employee engagement and work motivation. Positive correlations were found between work engagement and the following motivation sources: intrinsic process, internal self-concept, external selfconcept, and goal internalization. These findings imply that individuals are motivated by the work itself, not necessarily by the rewards expected for the job. Individuals prefer jobs that allow them to have fun and provide a sense of achievement. Individuals will be motivated by tasks that help them to maintain or increase their reputation, and jobs that match their internal values. By focusing on addressing workforce motivation sources, employers will probably increase work engagement. Future research could expand on the suggestions and findings of the present study.
Assembly of normal actomyosin rings in the absence of Mid1p and cortical nodes in fission yeast

Cytokinesis in many eukaryotes depends on the function of an actomyosin contractile ring. The mechanisms regulating assembly and positioning of this ring are not fully understood. The fission yeast Schizosaccharomyces pombe divides using an actomyosin ring and is an attractive organism for the study of cytokinesis. Recent studies in S. pombe (Wu, J.Q., V. Sirotkin, D.R. Kovar, M. Lord, C.C. Beltzner, J.R. Kuhn, and T.D. Pollard. 2006. J. Cell Biol. 174:391–402; Vavylonis, D., J.Q. Wu, S. Hao, B. O'Shaughnessy, and T.D. Pollard. 2008. Science. 319:97–100) have suggested that the assembly of the actomyosin ring is initiated from a series of cortical nodes containing several components of this ring. These studies have proposed that actomyosin interactions bring together the cortical nodes to form a compacted ring structure. In this study, we test this model in cells that are unable to assemble cortical nodes. Although the cortical nodes play a role in the timing of ring assembly, we find that they are dispensable for the assembly of orthogonal actomyosin rings. Thus, a mechanism that is independent of cortical nodes is sufficient for the assembly of normal actomyosin rings.
Reprogramming Cellular Behavior with RNA Controllers Responsive to Endogenous Proteins

Cellular Devices Cellular control mechanisms might offer opportunities to build genetic devices capable of sensing aberrant cells and activate a regulatory signal that directs the cell to alter its biological state. Culler et al. (p. 1251; see the Perspective by Liu and Arkin) present a proof of principle for a synthetic gene network in which cells were engineered to make an RNA-based device that detected molecules associated with disease states such as inflammation and cancer. Detection then triggered expression of a gene that made the cells more sensitive to a drug causing cell death. Cells engineered to detect a cancer-associated marker produce a protein that sensitizes them to an anticancer drug. Synthetic genetic devices that interface with native cellular pathways can be used to change natural networks to implement new forms of control and behavior. The engineering of gene networks has been limited by an inability to interface with native components. We describe a class of RNA control devices that overcome these limitations by coupling increased abundance of particular proteins to targeted gene expression events through the regulation of alternative RNA splicing. We engineered RNA devices that detect signaling through the nuclear factor κB and Wnt signaling pathways in human cells and rewire these pathways to produce new behaviors, thereby linking disease markers to noninvasive sensing and reprogrammed cellular fates. Our work provides a genetic platform that can build programmable sensing-actuation devices enabling autonomous control over cellular behavior.
The ins and outs of objects

Aggregation and containment are important concepts in object-oriented modeling. In component-based approaches to software development, aggregation and containment are touted as one of the primary mechanisms for component reuse. Containment relationships are typically implemented with object references in most object-oriented programming languages. This encourages the sharing of component objects between aggregates, but does not yield faithful representations of the containment relationships. We investigate structural relationships which are inherent in object graphs defined by inter-object references. For an arbitrary object graph, we construct an ownership tree determined by separability properties within the object graph. This tree provides a simple, yet clear definition of the interior and exterior for individual objects, capturing an appropriate notion of object containment. To be useful in dynamic systems, such structural properties need to be invariant across the behaviour of the system. We discuss connections between such structural invariants for object graphs with our related work on flexible aliasing protection.