Miracle-dz/UniFAR-FTUs huggingface dataset:
Multi-objective optimization in rule-based design space exploration

Design space exploration (DSE) aims to find optimal design candidates of a domain with respect to different objectives where design candidates are constrained by complex structural and numerical restrictions. Rule-based DSE aims to find such candidates that are reachable from an initial model by applying a sequence of exploration rules. Solving a rule-based DSE problem is a difficult challenge due to the inherently dynamic nature of the problem. In the current paper, we propose to integrate multi-objective optimization techniques by using Non-dominated Sorting Genetic Algorithms (NSGA) to drive rule-based design space exploration. For this purpose, finite populations of the most promising design candidates are maintained wrt. different optimization criteria. In our context, individuals of a generation are defined as a sequence of rule applications leading from an initial model to a candidate model. Populations evolve by mutation and crossover operations which manipulate (change, extend or combine) rule execution sequences to yield new individuals. Our multi-objective optimization approach for rule-based DSE is domain independent and it is automated by tooling built on the Eclipse framework. The main added value is to seamlessly lift multi-objective optimization techniques to the exploration process preserving both domain independence and a high-level of abstraction. Design candidates will still be represented as models and the evolution of these models as rule execution sequences. Constraints are captured by model queries while objectives can be derived both from models or rule applications.
Mitis Group Streptococci Express Variable Pilus Islet 2 Pili

Background Streptococcus oralis, Streptococcus mitis, and Streptococcus sanguinis are members of the Mitis group of streptococci and agents of oral biofilm, dental plaque and infective endocarditis, disease processes that involve bacteria-bacteria and bacteria-host interactions. Their close relative, the human pathogen S. pneumoniae uses pilus-islet 2 (PI-2)-encoded pili to facilitate adhesion to eukaryotic cells. Methodology/Principal Findings PI-2 pilus-encoding genetic islets were identified in S. oralis, S. mitis, and S. sanguinis, but were absent from other isolates of these species. The PI-2 islets resembled the genetic organization of the PI-2 islet of S. pneumoniae, but differed in the genes encoding the structural pilus proteins PitA and PitB. Two and three variants of pitA (a pseudogene in S. pneumoniae) and pitB, respectively, were identified that showed ≈20% difference in nucleotide as well as corresponding protein sequence. Species-independent combinations of pitA and pitB variants indicated prior intra- and interspecies horizontal gene transfer events. Polyclonal antisera developed against PitA and PitB of S. oralis type strain ATCC35037 revealed that PI-2 pili in oral streptococci were composed of PitA and PitB. Electronmicrographs showed pilus structures radiating >700 nm from the bacterial surface in the wild type strain, but not in an isogenic PI-2 deletion mutant. Anti-PitB-antiserum only reacted with pili containing the same PitB variant, whereas anti-PitA antiserum was cross-reactive with the other PitA variant. Electronic multilocus sequence analysis revealed that all PI-2-encoding oral streptococci were closely-related and cluster with non-PI-2-encoding S. oralis strains. Conclusions/Significance This is the first identification of PI-2 pili in Mitis group oral streptococci. The findings provide a striking example of intra- and interspecies horizontal gene transfer. The PI-2 pilus diversity provides a possible key to link strain-specific bacterial interactions and/or tissue tropisms with pathogenic traits in the Mitis group streptococci.
Crystal structure of the middle and C‐terminal domains of the flagellar rotor protein FliG

The FliG protein is essential for assembly, rotation and clockwise/counter‐clockwise (CW/CCW) switching of the bacterial flagellum. About 25 copies of FliG are present in a large rotor‐mounted assembly termed the ‘switch complex’, which also contains the proteins FliM and FliN. Mutational studies have identified the segments of FliG most crucial for flagellar assembly, rotation and switching. The structure of the C‐terminal domain, which functions specifically in rotation, was reported previously. Here, we describe the crystal structure of a larger fragment of the FliG protein from Thermotoga maritima, which encompasses the middle and C‐terminal parts of the protein (termed FliG‐MC). The FliG‐MC molecule consists of two compact globular domains, linked by an α‐helix and an extended segment that contains a well‐conserved Gly–Gly motif. Mutational studies indicate that FliM binds to both of the globular domains, and given the flexibility of the linking segment, FliM is likely to determine the relative orientation of the domains in the flagellum. We propose a model for the organization of FliG‐MC molecules in the flagellum, and suggest that CW/CCW switching might occur by movement of the C‐terminal domain relative to other parts of FliG, under the control of FliM.
Frequency analysis of EEG signal during watching 2D & 3D movies based on PLSR classifier: A comparison of methods

The method of time-frequency analysis are the ways that mainly are used to analyze electroencephalography (EEG) signals. In our previous studies, we proved that watching 2D and 3D of a movie causes different effects in EEG signals. In this paper, we used dataset of previous study and mean of five EEG frequency bands as features. To obtain these frequency bands, a frequency analysis and two time-frequency analysis are used. Aim of this paper is that which one of these methods can be provide better features. These methods are Fast Fourier Transform (FFT), Discrete Wavelet Transform (DWT) and Wigner-Ville Distribution (WVD). To compare these methods Partial Least Squares Regression (PLSR) as a powerful classifier was implemented. The results show that PLSR could be classified Wigner-Ville Distribution's features better than other method's features.
Energy Sharing for Multiple Sensor Nodes With Finite Buffers

We consider the problem of finding optimal energy sharing policies that maximize the network performance of a system comprising of multiple sensor nodes and a single energy harvesting (EH) source. Sensor nodes periodically sense the random field and generate data, which is stored in the corresponding data queues. The EH source harnesses energy from ambient energy sources and the generated energy is stored in an energy buffer. Sensor nodes receive energy for data transmission from the EH source. The EH source has to efficiently share the stored energy among the nodes to minimize the long-run average delay in data transmission. We formulate the problem of energy sharing between the nodes in the framework of average cost infinite-horizon Markov decision processes (MDPs). We develop efficient energy sharing algorithms, namely Q-learning algorithm with exploration mechanisms based on the ε-greedy method as well as upper confidence bound (UCB) . We extend these algorithms by incorporating state and action space aggregation to tackle state-action space explosion in the MDP. We also develop a cross entropy based method that incorporates policy parameterization to find near optimal energy sharing policies. Through simulations, we show that our algorithms yield energy sharing policies that outperform the heuristic greedy method.
In Vivo Genotoxicity Assessment of Sertraline by Using Alkaline Comet Assay and the Cytokinesis‐Block Micronucleus Assay

Sertraline, a leading antidepressant in the selective serotonin reuptake inhibitor (SSRI) group of medicine, is the most frequently prescribed drug. In this study, the alkaline comet assay and the cytokinesis‐block micronucleus (CBMN) assay were used to investigate genotoxicity potential of sertraline in the peripheral blood lymphocytes (PBLs) of acute and chronic sertraline‐treated Wistar albino rats. Male Wistar albino rats (n = 48) were administered low, medium and high doses of sertraline (10, 40, 80 mg/kg) for acute and chronic treatment by employing the gavage method to investigate genotoxicity of the administered drug. The data (tail length, tail intensity and tail moment) were analysed and indicated that there was no statistically significant difference between sertraline‐treated groups and the negative control group with respect to DNA damage (p > 0.05). However, it was observed that acute sertraline administration had caused much more DNA damage in comparison with chronic treatment (p < 0.05). According to the data obtained from the CBMN test, an increase in the micronucleus (MN) frequency was detected at chronic and high‐dose acute sertraline treatment. Based on the outcome of comet assay, detection of statistically insignificant DNA damage may be due to the fact that sertraline did not cause damage on DNA. Also, increase in frequency of MN in chronic sertraline treatment suggests that chronic sertraline administration might influence some mechanisms of cell division. Therefore, dose adjustment in depressed patients seems significant as it may help prevent further prognosis of the diseases.
Experiment Segmentation in Scientific Discourse as Clause-level Structured Prediction using Recurrent Neural Networks

We propose a deep learning model for identifying structure within experiment narratives in scientific literature. We take a sequence labeling approach to this problem, and label clauses within experiment narratives to identify the different parts of the experiment. Our dataset consists of paragraphs taken from open access PubMed papers labeled with rhetorical information as a result of our pilot annotation. Our model is a Recurrent Neural Network (RNN) with Long Short-Term Memory (LSTM) cells that labels clauses. The clause representations are computed by combining word representations using a novel attention mechanism that involves a separate RNN. We compare this model against LSTMs where the input layer has simple or no attention and a feature rich CRF model. Furthermore, we describe how our work could be useful for information extraction from scientific literature.
Multifunctional metal composite textile shields against electromagnetic radiation—effect of various parameters on electromagnetic shielding effectiveness

Over the last few years, there has been mounting concern about the possibility of adverse health effects resulting from exposure to radiofrequency electromagnetic fields, such as those emitted by wireless communication devices. For the reason given above, a demand for protection of human beings against influence of electromagnetic signals and troublesome charges, has been increasing. Therefore textile structures with increased electromagnetic shielding ability, which satisfy the requirements for casual dress or preserve air circulation at workplace, is suitable. This article presents the present state of fabrication and characterization of multifunctional light weight flexible fabrics with increased resistance to electromagnetic radiation while preserving basic properties of textile structures designated for clothing or technical purposes. In this article, an effect of metal content, a placement of conductive yarn, geometry, moisture content and correlation with frequencies is studied. In addition, percolation thresholds are identified and a form of relation between conductive component and total shielding effectiveness is proposed. POLYM. COMPOS. , 2015. © 2015 Society of Plastics Engineers
A comparison of lactate indices during ramp exercise using modelling techniques and conventional methods

Abstract The aim of this study was to compare the lactate indices provided by single- and double-breakpoint models with lactate thresholds obtained with conventional methods. Arterial samples for the determination of lactate concentrations were drawn from eight participants at rest and every minute during a ramp test (15 W · min−1) on a cycle ergometer. Lactate thresholds were determined from a blood lactate concentration equal to 4 mM (LT4), from an increase of 1 mM above the resting level (Δ1 mM), and from indirect methods using ventilatory parameters. Other indices were computed from the modelling of the lactate curve using an exponential function (LSI), a polynomial function (Dmax), a semi-log model (SLog), a parabola plus delay model (Mod P), and a two-breakpoint model (Mod M). Mod P and Mod M showed poor agreement with the other methods. LT4, Dmax, LSI, and respiratory exchange ratio equal to 1 were correlated with each other (0.81 ≤ R ≤ 0.92) and their mean differences ranged from 2.8 to 15 W, with limits of agreement within the range ± 24.6 to ± 42.4 W. These results question the interest in breakpoints models to detect lactate thresholds, knowing that LT4, LSI, Dmax, and respiratory exchange ratio equal to 1 provide indices that occur at similar power outputs.
The Human Side of Enterprise

"What are your assumptions (implicit as well as explicit) about the most effective way to manage people? " So began Douglas McGregor in this 1960 management classic. It was a seemingly simple question he asked, yet it led to a fundamental revolution in management. Today, with the rise of the global economy, the information revolution, and the growth of knowledge-driven work, McGregor's simple but provocative question continues to resonate-perhaps more powerfully than ever before. Heralded as one of the most important pieces of management literature ever written, a touchstone for scholars and a handbook for practitioners, The Human Side of Enterprise continues to receive the highest accolades nearly half a century after its initial publication. Influencing such major management gurus such as Peter Drucker and Warren Bennis, McGregor's revolutionary Theory Y-which contends that individuals are self-motivated and self-directed-and Theory X-in which employees must be commanded and controlled-has been widely taught in business schools, industrial relations schools, psychology departments, and professional development seminars for over four decades. In this special annotated edition of the worldwide management classic, Joel Cutcher-Gershenfeld, Senior Research Scientist in MIT's Sloan School of Management and Engineering Systems Division, shows us how today's leaders have successfully incorporated McGregor's methods into modern management styles and practices. The added quotes and commentary bring the content right into today's debates and business models. Now more than ever, the timeless wisdom of Douglas McGregor can light the path towards a management style that nurtures leadership capability, creates effective teams, ensures internal alignment, achieves high performance, and cultivates an authentic, value-driven workplace--lessons we all need to learn as we make our way in this brave new world of the 21st century.
Do stigma and its psychosocial impact differ between Asian-born Chinese immigrants and Western-born Caucasians with head and neck cancer?

Abstract Stigma appears to influence emotional distress and well-being in cancer survivors, but cross-cultural differences have been ignored. Previous studies suggest that stigma may be especially relevant for survivors of Asian origin. However, their study designs (e.g. focused on female cancers, qualitative designs, and an absence of comparison groups) limit the strength of this conclusion. We hypothesized that (1) Asian-born Chinese immigrants (AI) would report more perceived cancer-related stigma than Western-born Caucasians (WBC); and (2) the impact of stigma on emotional distress and well-being would be greater in AI as compared to WBC. Head and neck cancer survivors (n = 118 AI and n = 404 WBC) completed measures of well-being, emotional distress, and a three-item indicator of stigma in structured interviews. The majority of respondents (59%) reported one or more indicators of stigma. Stigma correlated significantly with emotional distress (r = .13, p = .004) and well-being (r = −.09, p = .032). Contrary to our hypotheses, WBCs and AIs did not differ in reported stigma nor did we detect differences in its psychosocial impact. Stigma exerts a deleterious psychosocial impact on head and neck cancer survivors. It did not differ significantly between AI and WBC survivors.
Asymptotically Optimal Data Dissemination in Multichannel Wireless Sensor Networks: Single Radios Suffice

We analyze the performance limits of data dissemination with multichannel, single radio sensors under random packet loss. We formulate the problem of minimizing the average delay of data dissemination as a stochastic shortest path problem and show that, for an arbitrary topology network, an optimal control policy can be found in a finite number of steps, using value iteration or Dijkstra's algorithm. However, the computational complexity of this solution is generally prohibitive. We thus focus on two special classes of network topologies of practical interest, namely single-hop clusters and multihop cluster chains. For these topologies, we derive the structure of policies that achieve an asymptotically optimal average delay, in networks with large number of nodes. Our analysis reveals that a single radio in each node suffices to achieve performance gain directly proportional to the total number of channels available. Through simulation, we show that the derived policies perform close to optimal even for networks with small and moderate numbers of nodes and can be implemented with limited overhead.
Reduction versus remodeling in pediatric distal forearm fractures: a preliminary cost analysis

The inherent ability of pediatric metaphyseal radius fractures to heal and remodel made us question the need for immediate anatomic reduction under conscious sedation. We believe that isolated closed distal radius fractures with 15° of angulation and 1 cm of shortening will heal well and remodel completely without clinical or functional sequelae. Time and expense can be decreased by splinting and follow-up without the need for immediate anatomic reduction in the emergency room. In order to answer this question, we retrospectively evaluated 34 pediatric metaphyseal wrist fractures that lost position after attempted reduction and healed in their angulated or shortened position. We looked at the time to healing, time to remodeling and any residual clinical or functional deficits. We then did a comparison cost analysis with time matched patients who had complete but minimally displaced fractures of the distal radius that were treated by immediate splinting with orthopaedic follow-up. Our results showed that skeletally immature patients with open physes, isolated injuries, dorsovolar and radioulnar angulations less than 15° and less than 1 cm of shortening will heal and be out of cast within an average of 6 weeks and completely remodel within an average of 7.5 months. The average time in the emergency room was 2 h less with no reduction. The cost of the emergency room visit with attempted reduction was 50% more than splinting with early referral (US$536 versus US$270). None of our patients had significant clinical deformities or residual functional deficits.
Acute Hematogenous Osteomyelitis: A Model with Trauma as an Etiology

The etiology of acute hematogenous osteomyelitis (AHO) remains unknown, and the disease has no laboratory model. We describe an AHO model in the rabbit which resembles the human disease. The model was developed on the premise that previous attempts had omitted an essential etiologic factor other than the bacteria. Six-week-old white New Zealand rabbits were divided into three different groups. Group I received an injury to the proximal tibial physeal plate, group II received a standardized bacteremia with Staphylococcus aureus, and group III received both the fracture and the bacteremia. The physeal plate injuries healed within 7 days. The animals with bacteremia only had occasional small foci of osteomyelitis identified histologically. The animals with fracture and bacteremia developed significant osteomyelitis in almost all cases.
Can We Use Antibodies to Chlamydia trachomatis as a Surveillance Tool for National Trachoma Control Programs? Results from a District Survey

Background Trachoma is targeted for elimination by 2020. World Health Organization advises districts to undertake surveillance when follicular trachoma (TF) <5% in children 1–9 years and mass antibiotic administration has ceased. There is a question if other tools could be used for surveillance as well. We report data from a test for antibodies to C. trachomatis antigen pgp3 as a possible tool. Methodology We randomly sampled 30 hamlets in Kilosa district, Tanzania, and randomly selected 50 children ages 1–9 per hamlet. The tarsal conjunctivae were graded for trachoma (TF), tested for C. trachomatis infection (Aptima Combo2 assay: Hologic, San Diego, CA), and a dried blood spot processed for antibodies to C. trachomatis pgp3 using a multiplex bead assay on a Luminex 100 platform. Principal findings The prevalence of trachoma (TF) was 0.4%, well below the <5% indicator for re-starting a program. Infection was also low, 1.1%. Of the 30 hamlets, 22 had neither infection nor TF. Antibody positivity overall was low, 7.5% and increased with age from 5.2% in 1–3 year olds, to 9.3% in 7–9 year olds (p = 0.015). In 16 of the 30 hamlets, no children ages 1–3 years had antibodies to pgp3. Conclusions The antibody status of the 1–3 year olds indicates low cumulative exposure to infection during the surveillance period. Four years post MDA, there is no evidence for re-emergence of follicular trachoma.
Polymyxin B Consumption and Incidence of Gram-Negative Bacteria Intrinsically Resistant to Polymyxins

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