Miracle-dz/UniFAR-FTUs huggingface dataset:
Lie Symmetry Classification of the Generalized Nonlinear Beam Equation

In this paper we make a Lie symmetry analysis of a generalized nonlinear beam equation with both second-order and fourth-order wave terms, which is extended from the classical beam equation arising in the historical events of travelling wave behavior in the Golden Gate Bridge in San Francisco. We perform a complete Lie symmetry group classification by using the equivalence transformation group theory for the equation under consideration. Lie symmetry reductions of a nonlinear beam-like equation which are singled out from the classification results are investigated. Some classes of exact solutions, including solitary wave solutions, triangular periodic wave solutions and rational solutions of the nonlinear beam-like equations are constructed by means of the reductions and symbolic computation.
Structure and semi-sequence-specific RNA binding of Nrd1

In Saccharomyces cerevisiae, the Nrd1-dependent termination and processing pathways play an important role in surveillance and processing of non-coding ribonucleic acids (RNAs). The termination and subsequent processing is dependent on the Nrd1 complex consisting of two RNA-binding proteins Nrd1 and Nab3 and Sen1 helicase. It is established that Nrd1 and Nab3 cooperatively recognize specific termination elements within nascent RNA, GUA[A/G] and UCUU[G], respectively. Interestingly, some transcripts do not require GUA[A/G] motif for transcription termination in vivo and binding in vitro, suggesting the existence of alternative Nrd1-binding motifs. Here we studied the structure and RNA-binding properties of Nrd1 using nuclear magnetic resonance (NMR), fluorescence anisotropy and phenotypic analyses in vivo. We determined the solution structure of a two-domain RNA-binding fragment of Nrd1, formed by an RNA-recognition motif and helix–loop bundle. NMR and fluorescence data show that not only GUA[A/G] but also several other G-rich and AU-rich motifs are able to bind Nrd1 with affinity in a low micromolar range. The broad substrate specificity is achieved by adaptable interaction surfaces of the RNA-recognition motif and helix–loop bundle domains that sandwich the RNA substrates. Our findings have implication for the role of Nrd1 in termination and processing of many non-coding RNAs arising from bidirectional pervasive transcription.
Phase transitions in sparse PCA

We study optimal estimation for sparse principal component analysis when the number of non-zero elements is small but on the same order as the dimension of the data. We employ approximate message passing (AMP) algorithm and its state evolution to analyze what is the information theoretically minimal mean-squared error and the one achieved by AMP in the limit of large sizes. For a special case of rank one and large enough density of non-zeros Deshpande and Montanari [1] proved that AMP is asymptotically optimal. We show that both for low density and for large rank the problem undergoes a series of phase transitions suggesting existence of a region of parameters where estimation is information theoretically possible, but AMP (and presumably every other polynomial algorithm) fails. The analysis of the large rank limit is particularly instructive.
Some three–dimensional problems related to dielectric breakdown and polycrystal plasticity

The well–known Sachs and Taylor bounds provide easy inner and outer estimates for the effective yield set of a polycrystal. It is natural to ask whether they can be improved. We examine this question for two model problems, involving three–dimensional gradients and divergence–free vector fields. For three–dimensional gradients, the Taylor bound is far from optimal: we derive an improved estimate that scales differently when the yield set of the basic crystal is highly eccentric. For three–dimensional divergence–free vector fields, the Taylor bound may not be optimal, but it has the optimal scaling law. In both settings, the Sachs bound is optimal.
Effects of Moisture on the Compressive and Interlaminar Shear Strengths of Aramid-Epoxy Composites

The effects of moisture on the compressive and interlaminar shear strengths of aramid fiber reinforced epoxy matrix composites were investigated. The compressive strengths were measured with a Celanese fixture, the interlaminar shear strengths were inferred from the results of three point bend tests. The influence of fiber surface treatment on the compressive and interlaminar shear strengths were also assessed by testing composites containing fibers with their surfaces treated and with fibers without surface treatment.
Two Controlled Experiments Assessing the Usefulness of Design Pattern Documentation in Program Maintenance

Using design patterns is claimed to improve programmer productivity and software quality. Such improvements may manifest both at construction time (in faster and better program design) and at maintenance time (in faster and more accurate program comprehension). The paper focuses on the maintenance context and reports on experimental tests of the following question: does it help the maintainer if the design patterns in the program code are documented explicitly (using source code comments) compared to a well-commented program without explicit reference to design patterns? Subjects performed maintenance tasks on two programs ranging from 360 to 560 LOC including comments. The experiments tested whether pattern comment lines (PCL) help during maintenance if patterns are relevant and sufficient program comments are already present. This question is a challenge for the experimental methodology: A setup leading to relevant results is quite difficult to find. We discuss these issues in detail and suggest a general approach to such situations. A conservative analysis of the results supports the hypothesis that pattern-relevant maintenance tasks were completed faster or with fewer errors if redundant design pattern information was provided. The article provides the first controlled experiment results on design pattern usage and it presents a solution approach to an important class of experiment design problems for experiments regarding documentation.
Divisive suppression explains high-precision firing and contrast adaptation in retinal ganglion cells

Visual processing depends on specific computations implemented by complex neural circuits. Here, we present a circuit-inspired model of retinal ganglion cell computation, targeted to explain their temporal dynamics and adaptation to contrast. To localize the sources of such processing, we used recordings at the levels of synaptic input and spiking output in the in vitro mouse retina. We found that an ON-Alpha ganglion cell’s excitatory synaptic inputs were described by a divisive interaction between excitation and delayed suppression, which explained nonlinear processing already present in ganglion cell inputs. Ganglion cell output was further shaped by spike generation mechanisms. The full model accurately predicted spike responses with unprecedented millisecond precision, and accurately described contrast adaption of the spike train. These results demonstrate how circuit and cell-intrinsic mechanisms interact for ganglion cell function and, more generally, illustrate the power of circuit-inspired modeling of sensory processing.
Permutation Patterns: A survey of simple permutations

We survey the known results about simple permutations. In particular, we present a number of recent enumerative and structural results pertaining to simple permutations, and show how simple permutations play an important role in the study of permutation classes. We demonstrate how classes containing only finitely many simple permutations satisfy a number of special properties relating to enumeration, partial well-order and the property of being finitely based.
On high-bandwidth data cache design for multi-issue processors

Highly aggressive multi-issue processor designs of the past few years and projections for the next decade require that we redesign the operation of the cache memory system. The number of instructions that must be processed (including correctly predicted ones) will approach 16 or more per cycle. Since memory operations account for about a third of all instructions executed these systems will have to support multiple data references per cycle. We explore reference stream characteristics to determine how best to meet the need for ever increasing access rates. We identify limitations of existing multi-ported cache designs and propose a new structure, the locality-based interleaved cache (LBIC), to exploit the characteristics of the data reference stream while approaching the economy of traditional multi-bank cache design. Experimental results show that the LBIC structure is capable of outperforming current multi-ported approaches.
Manipulation of dipeptidylpeptidase 10 in mouse and human in vivo and in vitro models indicates a protective role in asthma

ABSTRACT We previously identified dipeptidylpeptidase 10 (DPP10) on chromosome 2 as a human asthma susceptibility gene, through positional cloning. Initial association results were confirmed in many subsequent association studies but the functional role of DPP10 in asthma remains unclear. Using the MRC Harwell N-ethyl-N-nitrosourea (ENU) DNA archive, we identified a point mutation in Dpp10 that caused an amino acid change from valine to aspartic acid in the β-propeller region of the protein. Mice carrying this point mutation were recovered and a congenic line was established (Dpp10145D). Macroscopic examination and lung histology revealed no significant differences between wild-type and Dpp10145D/145D mice. However, after house dust mite (HDM) treatment, Dpp10 mutant mice showed significantly increased airway resistance in response to 100 mg/ml methacholine. Total serum IgE levels and bronchoalveolar lavage (BAL) eosinophil counts were significantly higher in homozygotes than in control mice after HDM treatment. DPP10 protein is present in airway epithelial cells and altered expression is observed in both tissue from asthmatic patients and in mice following HDM challenge. Moreover, knockdown of DPP10 in human airway epithelial cells results in altered cytokine responses. These results show that a Dpp10 point mutation leads to increased airway responsiveness following allergen challenge and provide biological evidence to support previous findings from human genetic studies. This article has an associated First Person interview with the first author of the paper. Summary: Here, we show a novel mouse model carrying a point mutation in dipeptidylpeptidase 10 (Dpp10). Our data provide evidence that DPP10 might play a protective role in asthma.
Ask Me Anything: Dynamic Memory Networks for Natural Language Processing

Most tasks in natural language processing can be cast into question answering (QA) problems over language input. We introduce the dynamic memory network (DMN), a neural network architecture which processes input sequences and questions, forms episodic memories, and generates relevant answers. Questions trigger an iterative attention process which allows the model to condition its attention on the inputs and the result of previous iterations. These results are then reasoned over in a hierarchical recurrent sequence model to generate answers. The DMN can be trained end-to-end and obtains state-of-the-art results on several types of tasks and datasets: question answering (Facebook's bAbI dataset), text classification for sentiment analysis (Stanford Sentiment Treebank) and sequence modeling for part-of-speech tagging (WSJ-PTB). The training for these different tasks relies exclusively on trained word vector representations and input-question-answer triplets.
Design of 3D FFTs with FPGA clusters

The three dimensional Fast Fourier Transform (3D FFT) is widely applied in various scientific applications. Distributed 3D FFTs require global communication: this becomes a serious concern when strong scaling is required as in long timescale molecular dynamics simulations. In this paper, we propose a parameterized 3D FFT design that targets at a 3D-torus FPGA-based network of various sizes. Characteristics include direct FPGA-FPGA communication links, support for various internal switch designs, and use of table-based routing which saves chip area and routing cycles. We find that even assuming extremely conservative parameters, we are able to run the 163 FFT in 3. 9μs, 323 FFT in 5. 46μs, 643 FFT in 9. 52μs, and 1283 FFT in 25. 72μs. These results indicate that clusters based on commodity FPGAs are likely to be appropriate when strong scaling is needed in applications limited by the 3D FFT.
Propriedades de barreira e solubilidade de filmes de amido de ervilha associado com goma xantana e glicerol

The aim of this work was to evaluate the barrier properties and solubility of biofilms made from wrinkled pea starch with high amylose content in association with xanthan gum and glycerol. Filmogenic solution (FS) with different levels of pea starch (3, 4 and 5%), xanthan gum (0, 0.05 and 0.1%) and glycerol (glycerol-starch 1:5 W/W) were tested. FS was obtained by boiling (5 minutes), autoclaving for 1 hour at 120 oC and the films were prepared by casting. The increased concentration of starch and glycerol in the composition caused increases in thickness of the films and in their solubility in water. The plasticizer also generated higher coefficients of water vapor and oxygen permeabilities to water vapor and to oxygen. The increasing concentration of xanthan gum did not interfere in the properties studied. Biofilms produced with wrinkled pea starch, with or without xanthan gum and glycerol, showed better barrier to oxygen and water vapor and low solubility in water, in comparison with films of yellow pea starch and other starch sources.
Cost-Sensitive Test Strategies

In medical diagnosis doctors must often determine what medical tests (e.g., X-ray, blood tests) should be ordered for a patient to minimize the total cost of medical tests and misdiagnosis. In this paper, we design cost-sensitive machine learning algorithms to model this learning and diagnosis process. Medical tests are like attributes in machine learning whose values may be obtained at cost (attribute cost), and misdiagnoses are like misclassifications which may also incur a cost (misclassification cost). We first propose an improved decision tree learning algorithm that minimizes the sum of attribute costs and misclassification costs. Then we design several novel "test strategies" that may request to obtain values of unknown attributes at cost (similar to doctors' ordering of medical tests at cost) in order to minimize the total cost for test examples (new patients). We empirically evaluate and compare these test strategies, and show that they are effective and that they outperform previous methods. A case study on heart disease is given.
Acoustic performance of woven fabrics in relation to structural parameters and air permeability

This work deals with the study of the acoustic characteristics of woven fabrics in relation to fabric structural parameters and air permeability. In order to achieve the objectives of the research, sound absorption coefficient of woven fabric samples was determined via impedance tube method. Samples with various pick densities and yarn twist were used. The effect of fabric thickness was analyzed using three and six layered test samples. Results showed that, while for all samples the minimum values of sound absorption were observed at frequency bands of 250 and 2000 Hz, the maximum sound absorption occurred at the frequency of 1000 Hz. Results also indicated that fabrics woven at pick density of 30 thread/cm exhibited higher sound absorption than fabrics woven at other pick densities. It was found that, noise reduction coefficient of three and six layered samples, woven at low pick densities showed significant increases in comparison to those woven at high pick densities. It was also established that samples woven with lower weft yarn twist absorb sound wave more efficiently. It was concluded that fabric air permeability can be used as a criterion of sound absorption behavior of woven fabrics.
Discrete choice experiments in health care

NICE should consider using them for patient centred evaluations of technologies In many publicly provided healthcare systems, limited resources coupled with unlimited demand result in decisions having to be made about the efficient allocation of scarce resources. This raises questions of how services should be provided (for example, how should patients with cancer be treated? should central clinics, which reduce waiting time but increase travel time for patients, be introduced? ) through to the optimal provision and the financing of health care (for example, how should we pay doctors to encourage them to work in remote and rural areas? what would encourage nurses to return to the labour market? ). Given the lack of a market for health care, economics techniques inform such decisions.1 One approach adopted by and further developed in health economics over the past decade is discrete choice experiments.2 3 In this issue Sculpher et al use this approach to consider patients' preferences in the treatment of prostate cancer (p 382). 4 …
Relative Flux Calibration of Keck HIRES Echelle Spectra

We describe a method to calibrate the relative flux levels in spectra from the High‐Resolution Echelle Spectrograph (HIRES) on the Keck I telescope. Standard data reduction techniques that transfer the instrument response between HIRES integrations leave errors in the flux of 5%–10% because the effective response varies during the night. The flux errors are most severe near the ends of each spectral order, where there can be discontinuous jumps. The source of these errors is uncertain but may include changes in the vignetting connected to the optical alignment. Our flux calibration method uses a calibrated reference spectrum of each target to calibrate individual HIRES integrations. We determine the instrument response independently for each integration, and hence we avoid the need to transfer the instrument response between HIRES integrations. The procedure can be applied to any HIRES spectrum or any other spectrum. While the accuracy of the method depends upon many factors, we have been able to flux‐calibrate a HIRES spectrum to 1% over scales of 200 Å that include order joins. We illustrate the method with spectra of QSO 1243+3047, toward which we have measured the deuterium‐to‐hydrogen abundance ratio.
Isospectral deformations of closed Riemannian manifolds with different scalar curvature

We construct the first examples of continuous families of isospectral Riemannian metrics that are not locally isometric on closed manifolds, more precisely, on $S^n\times T^m$, where $T^m$ is a torus of dimension $m\ge 2$ and $S^n$ is a sphere of dimension $n\ge 4$. These metrics are not locally homogeneous; in particular, the scalar curvature of each metric is nonconstant. For some of the deformations, the maximum scalar curvature changes during the deformation.
Baroclinic Motions and Energetics as Measured by Altimeters

AbstractSmall surface displacements appearing in tide gauge and altimetric records are used to detect hydrostatic baroclinic modes in the ocean. Those deflections are a small fraction of the interior isopycnal vertical displacements and are dependent directly upon the in situ stratification. Conversion of surface height to interior amplitudes and energies encounters significant spatial and seasonal shifts that need to be accounted for in quantitative use. This technical article analyzes the global-scale spatial variations in the relationship between surface deflections and interior motions. Similar considerations make it possible to use altimetric data to estimate the deep interior temperature variability as a function of position, calculations having a strong influence on abyssal trend determination in the presence of eddies.
Prevalence of Human Papillomavirus Genotypes among African Women with Normal Cervical Cytology and Neoplasia: A Systematic Review and Meta-Analysis

Background Several meta-analyses confirmed the five most prevalent human papillomavirus (HPV) strains in women with and without cervical neoplastic diseases are HPV16, 18, 31, 52, and 58. HPV16/18 are the predominant oncogenic genotypes, causing approximately 70% of global cervical cancer cases. The vast majority of the women studied in previous analyses were from Europe, North America, Asia, and most recently Latin America and the Caribbean. Despite the high burden of cervical cancer morbidity and mortality in Africa, a robust meta-analysis of HPV genotype prevalence and distribution in African women is lacking. Methods and Findings We systematically searched 14 major databases from inception to August 2013 without language restriction, following the Meta-Analysis of Observational Studies in Epidemiology and the Preferred Reporting Items for Systematic Reviews and Meta-Analyses guidelines. Seventy-one studies from 23 African countries were identified after screening 1162 citations and data abstracted and study quality appraised from 195 articles. HPV type-specific prevalence and distribution was estimated from 17,273 cases of women with normal cervical cytology; 1019 women with atypical squamous cells of undetermined significance (ASCUS); 1444 women with low-grade squamous intraepithelial lesion (LSIL); 1571 women with high-grade squamous intraepithelial lesion (HSIL); and 4,067 cases of invasive cervical carcinoma (ICC). Overall prevalence of HPV16/18 were 4.4% and 2.8% of women with normal cytology, 12.0% and 4.4% with ASCUS, 14.5% and 10.0% with LSIL, 31.2% and 13.9% with HSIL, and 49.7% and 18.0% with ICC, respectively. Study limitations include the lack of adequate data from Middle and Northern African regions, and variations in the HPV type-specific sensitivity of different genotyping protocols. Conclusions To our knowledge, this study is the most comprehensive assessment of the overall prevalence and distribution of HPV genotypes in African women with and without different cervical neoplasias. We have established that HPV16/18 account for 67.7% of ICC cases among African women. Based on our findings, we highly recommend the administration of existing prophylactic vaccines to younger women not infected with HPV16/18 and an increase in HPV screening efforts for high-risk genotypes to prevent cervical cancer. Review registration: International Prospective Register of Systematic Reviews CRD42013006558.
Solar Photovoltaic Water Pumping System for Pressurised Irrigation

Solar powered drip irrigation in the marriage of two systems that have enormous independent impact. Solar powered pumps save potentially hours of labor daily in rural off-grid areas where water routing in traditionally done by hand by woman. They are durable and immune to fuel shortage and in the mediumto-long-term costs less than traditional diesel powered generators (e.g. Kohle et al. 2002). Automated Drip Irrigation System provides a sustainable solution to workmanship that is needed for flooding irrigation. The use of this photo-irrigation system will be able to contribute to the socio-economic development. It is the proposed solution for the energy crisis for the Indian farmers. This system conserves electricity by reducing the usage of grid power and easy to implement and environment friendly solution for irrigation fields.