Miracle-dz/UniFAR-FTUs huggingface dataset:
Proteomic profiling and characterization of differential allergens in the nematodes Anisakis simplex sensu stricto and A. pegreffii

The parasite species complex Anisakis simplex sensu lato (Anisakis simplex sensu stricto; (A. simplex s.s.), A. pegreffii, A. simplex C) is the main cause of severe anisakiasis (allergy) worldwide and is now an important health matter. In this study, the relationship of this Anisakis species complex and their allergenic capacities is assessed by studying the differences between the two most frequent species (A. simplex s.s., A. pegreffii) and their hybrid haplotype by studying active L3 larvae parasiting Merluccius merluccius. They were compared by 2D gel electrophoresis and parallel Western blot (2DE gels were hybridized with pools of sera from Anisakis allergenic patients). Unambiguous spot differences were detected and protein assignation was made by MALDI‐TOF/TOF analysis or de novo sequencing. Seventy‐five gel spots were detected and the corresponding proteins were identified. Differentially expressed proteins for A. simplex s.s. , A. pegreffii, and their hybrid are described and results are statistically supported. Twenty‐eight different allergenic proteins are classified according to different families belonging to different biological functions. These proteins are described for the first time as antigenic and potentially new allergens in Anisakis. Comparative proteomic analyses of allergenic capacities are useful for diagnosis, epidemiological surveys, and clinical research. All MS data have been deposited in the ProteomeXchange with identifier PXD000662 (http://proteomecentral.proteomexchange.org/dataset/PXD000662).
Estimating the Interest Rate Term Structure of Corporate Debt With a Semiparametric Penalized Spline Model

This article provides a new methodology for estimating the term structure of corporate debt using a semiparametric penalized spline model. The method is applied to a case study of AT&T bonds. Typically, very few data are available on individual corporate bond prices, too little to find a nonparametric estimate of term structure from these bonds alone. This problem is solved by “borrowing strength” from Treasury bond data. More specifically, we combine a nonparametric model for the term structure of Treasury bonds with a parametric component for the credit spread. Our methodology generalizes the work of Fisher, Nychka, and Zervos in several ways. First, their model was developed for Treasury bonds only and cannot be applied directly to corporate bonds. Second, we more fully investigate the problem of choosing the smoothing parameter, a problem that is complicated because the forward rate is the derivative-log{D(t)}, where the discount function D is the function fit to the data. In our case study, estimation of the derivative requires substantially more smoothing than selected by generalized cross-validation (GCV). Another problem for smoothing parameter selection is possible correlation of the errors. We compare three methods of choosing the penalty parameter: generalized cross-validation (GCV), the residual spatial autocorrelation (RSA) method of Ellner and Seifu, and an extension of Ruppert's empirical bias bandwidth selection (EBBS) to splines. Third, we provide approximate sampling distributions based on asymptotics for the Treasury forward rate and the bootstrap for corporate bonds. Confidence bands and tests of interesting hypotheses, for example, about the functional form of the credit spreads, are also discussed.
Homogenized boundary conditions and resonance effects in Faraday cages

We present a mathematical study of two-dimensional electrostatic and electromagnetic shielding by a cage of conducting wires (the so-called ‘Faraday cage effect’). Taking the limit as the number of wires in the cage tends to infinity, we use the asymptotic method of multiple scales to derive continuum models for the shielding, involving homogenized boundary conditions on an effective cage boundary. We show how the resulting models depend on key cage parameters such as the size and shape of the wires, and, in the electromagnetic case, on the frequency and polarization of the incident field. In the electromagnetic case, there are resonance effects, whereby at frequencies close to the natural frequencies of the equivalent solid shell, the presence of the cage actually amplifies the incident field, rather than shielding it. By appropriately modifying the continuum model, we calculate the modified resonant frequencies, and their associated peak amplitudes. We discuss applications to radiation containment in microwave ovens and acoustic scattering by perforated shells.
MDPs with Unawareness in Robotics

We formalize decision-making problems in robotics and automated control using continuous MDPs and actions that take place over continuous time intervals. We then approximate the continuous MDP using finer and finer discretizations. Doing this results in a family of systems, each of which has an extremely large action space, although only a few actions are "interesting". We can view the decision maker as being unaware of which actions are "interesting". We an model this using MDPUs, MDPs with unawareness, where the action space is much smaller. As we show, MDPUs can be used as a general framework for learning tasks in robotic problems. We prove results on the difficulty of learning a near-optimal policy in an an MDPU for a continuous task. We apply these ideas to the problem of having a humanoid robot learn on its own how to walk.
Writing well: health and the power to make images

There is increasing interest in connections between writing and wellbeing, but a perceived tension between writing well and writing to improve health. This paper gives a brief outline of some dominant literary thinking in this area, explores views of this orthodoxy among two groups of writers, examines the writing process and evidence of how it affects wellbeing, and goes on to relate how such evidence relates to recent psychological/clinical findings. Eighty-four per cent of those interviewed testified to therapeutic effects, but tensions existed around quality and catharsis. Bucci's multiple code account of the referential cycle is related to the creative writing process, and the paper concludes there are indications that the process of writing well is linked to the benefits for wellbeing. It therefore suggests that the importance of literary quality, and the re-writing process involved, as well as the value of disclosure, needs to be examined further as writing is increasingly used therapeutically.
Composition, isotopic fingerprint and source attribution of nitrate deposition from rain and fog at a Sub-Arctic Mountain site in Central Sweden (Mt Åreskutan)

Abstract While dry and rain deposition of nitrate (NO3−) and ammonium (NH4+) are regularly assessed, fog deposition is often overlooked. This work assesses summer fog events contribution to nitrogen deposition and availability for forest ecosystems. Rain and fog samples were collected at Mt Åreskutan, Sweden, during CAEsAR (Cloud and Aerosol Characterization Experiment), in 2014. NH4+ + NO3− represent (31 ± 25) % of total rain ion amount, and (31 ± 42) % in fog. Based on ion concentrations and the nitrate stable isotope signatures δ(15N) and δ(18O), it was possible to detect the plume generated by the Västmanland forest fire; NOx emissions from oil rigs and Kola Peninsula; and the plume of Bardarbunga volcano, Iceland. Scavenging of ions by fog was more efficient than by rain. Rain NH4+ and NO3− deposition was (26 ± 36) μmol m−2 d−1 and (23 ± 27) μmol m−2 d−1, respectively. Fog NH4+ and NO3− contributed (77 ± 80) % to total wet deposition of these species. Upscaling rain deposition fluxes to 1 year gave an inorganic nitrogen deposition of (18 ± 16) mmol m−2 a−1 ((252 ± 224) mg m−2 a−1 N equivalents), whereas fog deposition was estimated as (59 ± 47) mmol m−2 a−1 ((826 ± 658) mg m−2 a−1 N equivalents). Annual fog deposition was four times higher than previously reported for the area which only considered rain deposition. However, great uncertainty on the calculation of fog deposition need to be bear in mind. These findings suggest that fog should be considered in deposition estimates of inorganic nitrogen and major ions. If fog deposition is not accounted for, ion wet deposition may be greatly underestimated. Further sampling of wet and dry deposition is important for understanding the influence of nitrogen deposition on forest and vegetation development, as well as soil major ion loads.
Beneficial acute antidepressant effects of aripiprazole as an adjunctive treatment or monotherapy in bipolar patients unresponsive to mood stabilizers: results from a 16-week open-label trial

Objective: Several lines of research suggested that aripiprazole might be a useful treatment for acute bipolar depression. The aim of this open-label trial is to give more evidence of the clinical effectiveness and tolerability of aripiprazole in acute bipolar depression. Research design and methods: Aripiprazole response was prospectively assessed for 16 weeks using the Montgomery-Asberg Depression Rating Scale (MADRS), the Clinical Global Impression Severity Scale (CGI-S), and the Young Mania Rating Scale in 85 bipolar patients with acute depression inadequately responsive to one mood stabilizer. Main outcome measures: Aripiprazole was well tolerated. Only three (3.5%) patients discontinued the study for side effects. The most common side effect was akathisia, occurring in 17/80 (21.2%) patients. Patients showed statistically insignificant weight gain (0.9 ± 2.64 kg) over the 16-week trial. Results: Patients showed a significant decrease in mean MADRS and CGI-S, and 80 (94.1%) patients completed the 16-week trial. Thirty-nine (45.8%) patients received aripiprazole as monotherapy and 46 received the drug adjunctively (54.1%). Fifty-two (65%) patients met criteria for response (≥ 50% reduction in MADRS total score), 30 (37.5%) patients met criteria for remission (final MADRS total score ≤ 12). Conclusions: Aripiprazole was associated with beneficial effects on mood in patients with bipolar depression, and appears well tolerated with very small changes in mean body weight. These results highlight the potential benefits of aripiprazole for bipolar disorder patients. However, double-blind, placebo-controlled studies are necessary to confirm aripiprazole's efficacy, tolerability and safety in bipolar depression.
The Impact of High-Performance Human Resource Practices on Employees’ Attitudes and Behaviors

Although strategic human resource (HR) management research has established a significant relationship between high-performance HR practices and firm-level financial and market outcomes, few studies have considered the important role of employees’ perceptions of HR practice use or examined the more proximal outcomes of high-performance HR practices that may play mediating roles in the HR practice–performance relationship. To address recent calls in the literature for an investigation of this nature, this study examined the relationships between employees’ perceptions of high-performance HR practice use in their job groups and employee absenteeism, intent to remain with the organization, and organizational citizenship behavior, dedicating a focus to the possible mediating role of affective organizational commitment in these relationships. Data in this study were collected from surveys of employees at a large multiunit food service organization. The model was tested with CWC(M) mediation analysis (i.e., centered within context with reintroduction of the subtracted means at Level 2), which accounted for the multilevel structure of the data. Results indicate that employees’ perceptions of high-performance HR practice use at the job group level positively related to all dependent variables and that affective organizational commitment partially mediated the relationship between HR practice perceptions and organizational citizenship behavior and fully mediated the relationship between HR practice perceptions and intent to remain with the organization. The discussion reviews the implications of these results and suggests future directions for research in this vein.
Osteopetrosis in obese female rats is site‐specifically inhibited by physical training

What is the central question of this study? Clinical studies suggest that obesity ‘protects’ against osteoporosis. However, these studies used only bone densitometry and assessed only one bone site, which is insufficient to enable conclusions to be drawn about the response of the whole skeleton. Furthermore, the effects of exercise on bone responses in obesity have not been explored previously. What is the main finding and what is its importance? We show that obesity causes osteopetrosis. Therefore, the classical perspective of ‘protective effects of obesity’ needs to be reviewed, and exercise is an important tool to avoid these alterations and to maintain the homeostasis of bone.
The Designability of Protein Structures: A Lattice-Model Study using the Miyazawa-Jernigan Matrix

We study the designability of all compact 3x3x3 and 6x6 lattice-protein structures using the Miyazawa-Jernigan (MJ) matrix. The designability of a structure is the number of sequences that design the structure, i.e. sequences that have that structure as their unique lowest-energy state. Previous studies of hydrophobic-polar (HP) models showed a wide distribution of structure designabilities. Recently, questions were raised concerning the use of a 2-letter (HP) code in such studies. Here we calculate designabilities using all 20 amino acids, with empirically determined interaction potentials (MJ matrix), and compare with HP model results. We find good qualitative agreement between the two models. In particular, highly designable structures in the HP model are also highly designable in the MJ model--and vice versa--with the associated sequences having enhanced thermodynamic stability.
Global Features for the Off-Line Signature Verification Problem

Global features based on the boundary of a signature and its projections are described for enhancing the process of automated signature verification. The first global feature is derived from the total ’energy’ a writer uses to create their signature. The second feature employs information from the vertical and horizontal projections of a signature, focusing on the proportion of the distance between key strokes in the image, and the height/width of the signature. The combination of these features with the Modified Direction Feature (MDF) and the ratio feature showed promising results for the off-line signature verification problem. When being trained using 12 genuine specimens and 400 random forgeries taken from a publicly available database, the Support Vector Machine (SVM) classifier obtained an average error rate (AER) of 17.25%. The false acceptance rate (FAR) for random forgeries was also kept as low as 0.08%.
Hydroxyapatite coating does not improve uncemented stem survival after total hip arthroplasty!

Background and purpose — It is still being debated whether HA coating of uncemented stems used in total hip arthroplasty (THA) improves implant survival. We therefore investigated different uncemented stem brands, with and without HA coating, regarding early and long-term survival. Patients and methods — We identified 152,410 THA procedures using uncemented stems that were performed between 1995 and 2011 and registered in the Nordic Arthroplasty Register Association (NARA) database. We excluded 19,446 procedures that used stem brands less than 500 times in each country, procedures performed due to diagnoses other than osteoarthritis or pediatric hip disease, and procedures with missing information on the type of coating. 22 stem brands remained (which were used in 116,069 procedures) for analysis of revision of any component. 79,192 procedures from Denmark, Norway, and Sweden were analyzed for the endpoint stem revision. Unadjusted survival rates were calculated according to Kaplan-Meier, and Cox proportional hazards models were fitted in order to calculate hazard ratios (HRs) for the risk of revision with 95% confidence intervals (CIs). Results — Unadjusted 10-year survival with the endpoint revision of any component for any reason was 92.1% (CI: 91.8–92.4). Unadjusted 10-year survival with the endpoint stem revision due to aseptic loosening varied between the stem brands investigated and ranged from 96.7% (CI: 94.4–99.0) to 99.9% (CI: 99.6–100). Of the stem brands with the best survival, stems with and without HA coating were found. The presence of HA coating was not associated with statistically significant effects on the adjusted risk of stem revision due to aseptic loosening, with an HR of 0.8 (CI: 0.5–1.3; p = 0.4). The adjusted risk of revision due to infection was similar in the groups of THAs using HA-coated and non-HA-coated stems, with an HR of 0.9 (CI: 0.8–1.1; p = 0.6) for the presence of HA coating. The commonly used Bimetric stem (n = 25,329) was available both with and without HA coating, and the adjusted risk of stem revision due to aseptic loosening was similar for the 2 variants, with an HR of 0.9 (CI: 0.5–1.4; p = 0.5) for the HA-coated Bimetric stem. Interpretation — Uncemented HA-coated stems had similar results to those of uncemented stems with porous coating or rough sand-blasted stems. The use of HA coating on stems available both with and without this surface treatment had no clinically relevant effect on their outcome, and we thus question whether HA coating adds any value to well-functioning stem designs.
The British Academy Brian Barry Prize Essay: An Exit, Voice and Loyalty Model of Politics

Political scientists typically develop different models to examine distinct political phenomena such as lobbying, protests, elections and conflict. These specific models can provide important insights into a particular event, process or outcome of interest. This article takes a different tack. Rather than focus on the specificities of a given political phenomenon, this study constructs a model that captures the key elements common to most political situations. This model represents a reformulation and extension of Albert Hirschman’s famous Exit, Voice and Loyalty framework. To highlight the value that comes from focusing on the commonalities that exist across apparently disparate political phenomena, the article applies the model to several issues in the democratization literature related to modernization theory, the political resource curse, inequality, foreign aid and economic performance.
hOGG1 Ser326Cys Polymorphism and Risk of Hepatocellular Carcinoma among East Asians: A Meta-Analysis

Background The hOGG1 gene encodes a DNA glycosylase enzyme responsible for DNA repair. The Ser326Cys polymorphism in this gene may influence its repair ability and thus plays a role in carcinogenesis. Several case-control studies have been conducted on this polymorphism and its relationship with the risk of hepatocellular carcinoma (HCC) among East Asians. However, their results are inconsistent. Methods We performed a meta-analysis of published case-control studies assessing the association of the hOGG1 Ser326Cys polymorphism with HCC risk among East Asians. PubMed, EMBASE, SCI, BIOSIS, CNKI and WanFang databases were searched. A random-effect model was used to calculate odds ratios (ORs) and 95% confidence intervals (95% CIs). Analyses were conducted for additive, dominant and recessive genetic models. Results Eight studies were identified involving 2369 cases and 2442 controls assessing the association of the hOGG1 Ser326Cys polymorphism with HCC risk among East Asians. Applying a dominant genetic model, only in the Chinese population, the Cys allele was significantly associated with increased risk of HCC (OR 1.56, 95% CI 1.12–2.17). However, two studies influenced this finding according to sensitivity analysis. Furthermore, considerable heterogeneity and bias existed among Chinese studies. Conclusion There is limited evidence to support that the hOGG1 Ser326Cys polymorphism is associated with HCC risk among East Asians. Well-designed and large-sized studies are required to determine this relationship.
Population Dynamics of Western Flower Thrips (Thysanoptera: Thripidae) in Nectarine Orchards in British Columbia

Abstract Development of a control strategy for thrips attacking nectarine trees depends on an understanding of their phenology, distribution, and life history as related to characteristics of nectarine orchards. To this end, we compared the overwintering behavior, distribution, and abundance of western flower thrips, Frankliniella occidentalis (Pergande), among 11 nectarine orchards located in the dry central interior of British Columbia, Canada, during 1993 and 1994. Western flower thrips emerged from areas not previously used for agriculture (wild areas) and from within orchards before trees were out of dormancy. Flight of thrips within and around orchards peaked during early bud development, with a second major peak several weeks later after husk fall as the next generation emerged. Orchards protected from wild areas by other orchards had the lowest densities of thrips in buds. Density estimates of western flower thrips on trees were not affected by location of trees within orchards or buds within trees, but most thrips were found in the most developed buds on a tree at any one time. Thrips were not found within buds until petal was first visible on the buds. Larval feeding on buds at early petal fall resulted in serious surface russetting of fruit.
End-to-End Congestion Control for Content-Based Networks

Publish/subscribe or "push" communication has been proposed as a new network service. In particular, in a content-based network, messages sent by publishers are delivered to subscribers based on the message content and on subscribers' long-term interests (subscriptions). In most systems that implement this form of communication, messages are treated as datagrams transmitted without end-to-end or in-network acknowledgments or without any form of flow control. In such systems, publishers do not avoid or even detect congestion, and brokers/routers respond to congestion by simply dropping overflowing messages. These systems are therefore unable to provide fair resource allocation and to properly handle traffic anomalies, and therefore are not suitable for large-scale deployments. With this motivation, we propose an end-to-end congestion control for content-based networks. In particular, we propose a practical and effective congestion-control protocol that is also content-aware, meaning that it modulates specific content-based traffic flows along a congested path. Inspired by an existing rate-control scheme for IP multicast, this protocol uses an equation-based flow-control algorithm that reacts to congestion in a manner similar to and compatible with TCP. We demonstrate experimentally that the protocol improves fairness among concurrent data flows and also reduces message loss significantly.
A 2.4 GHz integrated CMOS power amplifier with micromachined inductors

This paper reports the development of the first 2.4 GHz monolithic-integrated CMOS power amplifier with micromachined inductors. The amplifier is implemented in a 0.24-/spl mu/m CMOS technology. The high-Q (quality factor) micromachined solenoid inductors are fabricated on the surface of the CMOS chip. For 2.5-V operation, the amplifier delivers 20-dBm output power with 31% PAE (power added efficiency) to 50-/spl Omega/ load.