Miracle-dz/UniFAR-FTUs huggingface dataset:
The SRS 3D module: integrating structures, sequences and features

UNLABELLED In this paper we present SRS 3D, a new service that allows users to easily and rapidly find all related structures for a given target sequence; structures can then be viewed together with sequences, alignments and sequence features (currently from UniProt, InterPro and PDB). Extensive user feedback confirms that SRS 3D is intuitive and useful especially for those not expert in structures. AVAILABILITY An SRS 3D server is provided at http://srs3d.ebi. ac.uk/.
Poly-co: a multilayer perceptron approach for coreference detection

This paper presents the coreference resolution system Poly-co submitted to the closed track of the CoNLL-2011 Shared Task. Our system integrates a multilayer perceptron classifier in a pipeline approach. We describe the heuristic used to select the pairs of coreference candidates that are feeded to the network for training, and our feature selection method. The features used in our approach are based on similarity and identity measures, filtering informations, like gender and number, and other syntactic information.
Raising a Red Flag on Dating Violence: Evaluation of a Low-Resource, College-Based Bystander Behavior Intervention Program

Encouraging bystanders to intervene safely and effectively in situations that could escalate to violence—known as bystander behavior programs—is a growing yet largely untested strategy to prevent dating violence. Using a quasi-experimental design, we evaluate a low-resource, low-intensity intervention aimed at preventing dating violence among college students. The integrated behavioral model (IBM) was used to guide the evaluation. We also assess which IBM variables were most strongly associated with bystander behaviors. Participants were drawn from two Virginia colleges that predominantly train females in the health profession sciences. The intervention group (n = 329) participated in a university-wide bystander behavior intervention consisting of a 30-min presentation on dating violence at new-student orientation and a week-long “red flag” social marketing campaign on campus to raise awareness of dating violence. Controlling for changes at the comparison university, results showed an increase in bystander behaviors, such as encouraging a friend who may be in an abusive relationship to get help, after the intervention and adjusting for potential confounders (increase of 1.41 bystander behaviors, p = .04). However, no significant changes were found for bystander intentions, self-efficacy, social norms, or attitudes related to dating violence from pre- to post-intervention. Self-efficacy had a direct relationship with bystander behaviors. Results suggest that low-resource interventions have a modest effect on increasing bystander behaviors. However, higher resource interventions likely are needed for a larger impact, especially among students who already demonstrate strong baseline intentions to intervene and prevent dating violence.
The EEG measurement technique under exercising

Our purpose of the research is a development of the detecting method of EEG under exercising. Usually, measuring EEG is done in the quiet state. In case of the measuring EEG under exercising, a movement of the body causes vibration of electrodes and artifact for the EEG. Therefore, generally detection of the EEG under exercising is said to be difficult. So, we developed the measuring method of EEG under exercising by using algorithm that we designed. Five normal subjects were tested with our method, and EEG without artifact was able to be measured in all cases
The emergence of job satisfaction in organizational behavior

Purpose – Based more on practical (and contextual), rather than theoretical grounds, over time, job satisfaction came to be the work attitude of choice for many early researchers interested in studying the relationship between employee attitudes and efficiency. Surprisingly, research examining the basis for why this belief is practically nonexistent. This paper addresses this apparent void in the organizational literature.Design/methodology/approach – First, a historical overview of the development of job attitudes is introduced. Second, incorporating important early, but now mostly forgotten, research on employee boredom, fatigue and customer satisfaction, a “missing link” explanation is presented for job satisfaction eventually becoming the “job attitude of choice” in organizational research.Findings – Integrating early research from two long‐forgotten streams of organizational research, this paper provides a practical (and contextual) framework for why job satisfaction became the most widely used measu.
Stress, drugs and the evolution of reproductive restraint in malaria parasites

Life-history theory predicts that sexually reproducing organisms have evolved to resolve resource-allocation trade-offs between growth/survival versus reproduction, and current versus future reproduction. Malaria parasites replicate asexually in their vertebrate hosts, but must reproduce sexually to infect vectors and be transmitted to new hosts. As different specialized stages are required for these functions, the division of resources between these life-history components is a fundamental evolutionary problem. Here, we test how drug-sensitive and drug-resistant isolates of the human malaria parasite Plasmodium falciparum resolve the trade-off between in-host replication and between-host transmission when exposed to treatment with anti-malarial drugs. Previous studies have shown that parasites increase their investment in sexual stages when exposed to stressful conditions, such as drugs. However, we demonstrate that sensitive parasites facultatively decrease their investment in sexual stages when exposed to drugs. In contrast to previous studies, we tested parasites from a region where treatment with anti-malarial drugs is common and transmission is seasonal. We hypothesize that when exposed to drugs, parasites invest in their survival and future transmission by diverting resources from reproduction to replication. Furthermore, as drug-resistant parasites did not adjust their investment when exposed to drugs, we suggest that parasites respond to changes in their proliferation (state) rather the presence of drugs.
PARADIGMA: Uma Ferramenta de Apoio à Elicitação e Modelagem de Requisitos Baseada em Processamento de Linguagem Natural

The requirements engineers use several techniques to assist them on the elicitation, analysis, specification, validation and requirements management process, but the number of those tools in this segment is still reduced. The requirements are the base for the software development, which, most of time is described in natural language. In this paper a tool called PARADIGMA is presented, it was developed to assist the requirements engineers to identify in a easier way classes, attributes, operations and relationships from the described requirements in natural language, and using the Natural Language Processing (more specifically the morphosyntatics taggers), generating a conceptual classes model of UML (Unified Modeling Language). Besides the mentioned characteristics above, the tool uses the concept of linguistic standards that facilitate the creation of diagrams closer to those created by human. The experimentation of the tool was made by professionals and professors who act in the area of Requirements Engineering. On the basis of the results, we come to the conclusion of the relevance of the tool PARADIGMA in the context of the Requirements Engineering.
Accurate techniques for 2 D electromagnetic scattering

This thesis consists of three parts. The first part is an introduction and references some recent work on 2D electromagnetic scattering problems at high frequencies. It also presents the basic integral equation types for impenetrable objects. A brief discussion of the standard elements of the method of moments is followed by summaries of the papers. Paper I presents an accurate implementation of the method of moments for a perfectly conducting cylinder. A scaling for the rapid variation of the solution improves accuracy. At high frequencies, the method of moments leads to a large dense system of equations. Sparsity in this system is obtained by modifying the integration path in the integral equation. The modified path reduces the accuracy in the deep shadow. In paper II, a hybrid method is used to handle the standing waves that are prominent in the shadow for the TE case. The shadow region is treated separately, in a hybrid scheme based on a priori knowledge about the solution. An accurate method to combine solutions in this hybrid scheme is presented.
Microbial Co-occurrence Relationships in the Human Microbiome

The healthy microbiota show remarkable variability within and among individuals. In addition to external exposures, ecological relationships (both oppositional and symbiotic) between microbial inhabitants are important contributors to this variation. It is thus of interest to assess what relationships might exist among microbes and determine their underlying reasons. The initial Human Microbiome Project (HMP) cohort, comprising 239 individuals and 18 different microbial habitats, provides an unprecedented resource to detect, catalog, and analyze such relationships. Here, we applied an ensemble method based on multiple similarity measures in combination with generalized boosted linear models (GBLMs) to taxonomic marker (16S rRNA gene) profiles of this cohort, resulting in a global network of 3,005 significant co-occurrence and co-exclusion relationships between 197 clades occurring throughout the human microbiome. This network revealed strong niche specialization, with most microbial associations occurring within body sites and a number of accompanying inter-body site relationships. Microbial communities within the oropharynx grouped into three distinct habitats, which themselves showed no direct influence on the composition of the gut microbiota. Conversely, niches such as the vagina demonstrated little to no decomposition into region-specific interactions. Diverse mechanisms underlay individual interactions, with some such as the co-exclusion of Porphyromonaceae family members and Streptococcus in the subgingival plaque supported by known biochemical dependencies. These differences varied among broad phylogenetic groups as well, with the Bacilli and Fusobacteria, for example, both enriched for exclusion of taxa from other clades. Comparing phylogenetic versus functional similarities among bacteria, we show that dominant commensal taxa (such as Prevotellaceae and Bacteroides in the gut) often compete, while potential pathogens (e.g. Treponema and Prevotella in the dental plaque) are more likely to co-occur in complementary niches. This approach thus serves to open new opportunities for future targeted mechanistic studies of the microbial ecology of the human microbiome.
Escherichia coli surface display for the selection of nanobodies

Nanobodies (Nbs) are the smallest functional antibody fragments known in nature and have multiple applications in biomedicine or environmental monitoring. Nbs are derived from the variable segment of camelid heavy chain‐only antibodies, known as VHH. For selection, libraries of VHH gene segments from naïve, immunized animals or of synthetic origin have been traditionally cloned in E. coli phage display or yeast display systems, and clones binding the target antigen recovered, usually from plastic surfaces with the immobilized antigen (phage display) or using fluorescence‐activated cell sorting (FACS; yeast display). This review briefly describes these conventional approaches and focuses on the distinct properties of an E. coli display system developed in our laboratory, which combines the benefits of both phage display and yeast display systems. We demonstrate that E. coli display using an N‐terminal domain of intimin is an effective platform for the surface display of VHH libraries enabling selection of high‐affinity Nbs by magnetic cell sorting and direct selection on live mammalian cells displaying the target antigen on their surface. Flow cytometry analysis of E. coli bacteria displaying the Nbs on their surface allows monitoring of the selection process, facilitates screening, characterization of antigen‐binding clones, specificity, ligand competition and estimation of the equilibrium dissociation constant (KD).
Optimization of a Robot for Handling Glass Plates

The paper discusses the optimization of a structure connected to a set of pneumatic holdfasts. This equipment is mounted on an articulated robot arm with 6 degrees of freedom and is used to handle float-glass plates on a production line. The robot transfers float-glass plates from a horizontal to a vertical position, rotating them 90° around the robot’s principal axis. The structure’s actual geometry was analyzed and redesigned to reduce weight, investigating stress and strain on the old and new systems using an FEM code in both static and dynamic operating conditions. Results are presented in diagrams showing bending moment, shear stress and structure strain-stress whereby a new lightweight geometry can be selected which reduces inertial forces during robot operation. Results are highly satisfactory and show excellent potential for improving robot performance and geometry.
Cómo ven su identidad los docentes chilenos

El articulo se centra en la discusion sobre identidad de los docentes sobre la base de un estudio realizado en Chile con una muestra representativa nacional de alrededor de 1990 docentes y un conjunto de entrevistas y grupos focales realizados con profesores de educacion basica y media. La identidad docente se entiende compuesta de una vertiente personal (las propias definicionesde los docentes) y una vertiente social (el encargo y la vision social de la docencia). Desde esta perspectiva el articulo se centra en las visiones que entregan los docentes sobre por que eligieron la docencia y siguen en ella, su grado de motivacion y compromiso con las tareas docentes, la percepcion que tienen acerca de su eficacia,el rol de la formacion docente y la experiencia en su configracion identitaria, y finalmente,las tensiones vividas entre la identidad percibida y las definicionesexternas sociales sobre lo que se considera central en la tarea docente.
Adaptive Backstepping-Based Composite Nonlinear Feedback Water Level Control for the Nuclear U-Tube Steam Generator

As an important process parameter of the U-tube steam generator (UTSG) in a nuclear power unit, the water level must be maintained in a safe range when the unit is working under fixed or variable conditions. Because the dynamic responses vary significantly when the load changes, traditional control methods cannot effectively maintain the UTSG water level, especially with a low load. In this brief, an adaptive backstepping-based composite nonlinear feedback control scheme is proposed. The adaptive backstepping approach is used to design the water level controller and the feedwater flow controller separately, forming a cascade control structure to overcome the load disturbance and feedwater flow fluctuation. Furthermore, the composite nonlinear feedback control action is integrated into the feedwater flow controller to accommodate the opening constraint of the feedwater valve. Case studies, based on a practical nuclear UTSG model, show the effectiveness of this control scheme.
Therapeutic potential of nanocarrier for overcoming to P-glycoprotein

Abstract Enhancement of targeted therapeutic effect in the body and achievement of high bioavailability are major concern for the researchers due to the complex physiology of human body. There are so many barriers that hinder the absorption and permeation of drugs from the body, thus influencing the bioavailability of therapeutics. P-glycoprotein (P-gp) is one of such barrier present on the apical membranes of various organs such as small intestine, brain, kidney and liver. This protein interacts with vast variety of therapeutics and efflux out them preventing their entrance to the desired site, thus modulating their pharmacokinetic properties. To address this, a concerned number of approaches have been used such as the use of chemo sensitizers along with the therapeutics and various novel techniques. In this review, we are going to discuss the basic introduction to this protein and overview of various strategies used earlier to tackle the problem of P-gp efflux as well as the role of nanocarriers in confronting this issue. Nanocarriers have played great role in the enhancement of the bioavailability of many antineoplastic agents as well as other P-gp substrates. Encapsulation of P-gp inhibitors in the nanocarrier system prevents toxicity and gives site-specific action.
A 25Gbps, 2x-oversampling CDR using a zero-crossing linearizing phase detector

A 2x-oversampling 25Gbps clock and data recovery (CDR) circuit is proposed that employs a charge-based, zero-crossing linearizing phase detector (ZCL-PD). This technique linearizes the conventional bang-bang CDR system, resulting in low quantization jitter, improved loop bandwidth, and improved input sensitivity. To minimize the power consumption, an injection-locked inverter-based 1:2 divider reduces CML clocking power while maintaining low jitter. The 65nm-CMOS test-chip measurements demonstrate error-free operation for PRBS-7 and PRBS-31, an 120mV differential input sensitivity, a 9MHz jitter transfer bandwidth, 1.08ps/9.63ps (rms/pk-pk) of recovered clock jitter, and 65mW of power consumption.
Investigation of high-speed wavelength routing and bit-error-rate performance of an optical packet switch with an optical digital-to-analog conversion-based header processor

Wavelength routing and bit-error-rate (BER) performance of an optical packet switch called a wavelength label switch consisting of an optical digital-to-analog conversion-based header processor, wavelength selection portion with an electrically tunable laser, a wavelength converter based on a semiconductor optical amplifier, and wavelength routing by use of an arrayed waveguide grating was realized. Wavelength selection for an electrically tunable laser was successfully achieved within a few tens of nanoseconds by using 2-b optical header processor and a field programmable gate array-based wavelength table. High-speed transfer performance of less than a few tens of nanoseconds and BER of less than 10/sup -10/ were verified in wavelength routing operation between three assigned wavelength.
Antecedents of attitudes toward eWOM communication: differences across channels

Purpose Despite the extensive academic interest in electronic word of mouth (eWOM) communication, consumer attitudes toward eWOM communication have been neglected. The purpose of this paper is to propose a conceptual framework for attitudes toward eWOM communication across digital channels. Design/methodology/approach Data were collected through a web-based survey on seven major digital communication channels. ANOVA was applied in order to analyze their differences. In addition, structural equation modeling was used to test the eWOM attitude model, using a sample of 864 participants who have had prior experience with the channels under study. Findings Findings indicate that both attitude toward eWOM and its antecedents significantly differ across channels. Additionally, a path analysis model reveals that the original integrated model applies to eWOM communications. Yet, in the case of eWOM, irritating messages may be positively related to attitude toward the channel, and credibility serves as a mediator of message value. Research limitations/implications This paper supports the notion that attitude toward eWOM communication significantly differs across media channels. Future research should examine additional implications of attitude toward eWOM, and explore new and evolving channels. Practical implications Practitioners should adjust their eWOM media strategy to their objectives; blogs and social networks are more effective for brand attitude formation, whereas web forums enhance message credibility. Originality/value To the best of the authors’ knowledge, this is the first research study that tests attitudinal differences toward eWOM across digital channels. As such, it contributes to the understanding of people’s perception of these platforms.
The Role of Paracrine and Autocrine Signaling in the Early Phase of Adipogenic Differentiation of Adipose-derived Stem Cells

Introduction High cell density is known to enhance adipogenic differentiation of mesenchymal stem cells, suggesting secretion of signaling factors or cell-contact-mediated signaling. By employing microfluidic biochip technology, we have been able to separate these two processes and study the secretion pathways. Methods and results Adipogenic differentiation of human adipose-derived stem cells (ASCs) cultured in a microfluidic system was investigated under perfusion conditions with an adipogenic medium or an adipogenic medium supplemented with supernatant from differentiating ASCs (conditioned medium). Conditioned medium increased adipogenic differentiation compared to adipogenic medium with respect to accumulation of lipid-filled vacuoles and gene expression of key adipogenic markers (C/EBPα, C/EBPβ, C/EBPδ, PPARγ, LPL and adiponectin). The positive effects of conditioned medium were observed early in the differentiation process. Conclusions Using different cell densities and microfluidic perfusion cell cultures to suppress the effects of cell-released factors, we have demonstrated the significant role played by auto- or paracrine signaling in adipocyte differentiation. The cell-released factor(s) were shown to act in the recruitment phase of the differentiation process.
Consumer taste tests and milk preference in low-income, urban supermarkets

Abstract Objective To explore shoppers’ responses to the taste of different types of cow’s milk in a blind taste test and to examine their willingness to purchase lower-fat milk as part of an in-store marketing intervention. Design Participants were recruited on-site in the supermarket to participate in a blind taste test of three varieties of cow’s milk and asked to guess what type they sampled. Setting The taste testing was conducted as part of the Healthy Retail Solution (HRS) intervention that took place in four large supermarkets in Philadelphia, PA, USA over the course of six months. Subjects Adults (n 444) at participating Philadelphia supermarkets. Results The majority of participants at all stores reported typically purchasing higher-fat milk. Forty per cent of participants reported buying whole milk, 38 % purchased milk with 2 % fat. Very few participants correctly identified all three milk samples during the taste test (6·9 %) and a majority of participants were unable to identify the type of milk they self-reported typically purchased. Conclusions Most consumers could not accurately distinguish between various types of milk. Taste testing is a promising strategy to introduce lower-fat milks to consumers who have not tried them before. Campaigns to purchase skimmed, 1 % or 2 % milk may result in significant energy reduction over time and can serve as a simple way to combat overweight and obesity.