Miracle-dz/UniFAR-FTUs huggingface dataset:
Dynamic Mechanical Properties of Resilin

Resilin is an almost perfect elastic protein found in many insects. It can be stretched up to 300% of its resting length and is not affected by creep or stress relaxation. While much is known about the static mechanical properties of resilin, it is most often used dynamically by insects. Unfortunately, the dynamic mechanical properties of resilin over the biologically relevant frequency range are unknown. Here, nearly pure samples of resilin were obtained from the dragonfly, Libellua luctuosa, and dynamic mechanical analysis was performed with a combination of time-temperature and time-concentration superposition to push resilin through its glass transition. The tensile properties for resilin were found over five different ethanol concentrations (65, 70, 82, 86 and 90% by volume in water) between temperatures of -5°C and 60°C, allowing for the quantification of resilin’s dynamic mechanical properties over the entire master curve. The glass transition frequency of resilin in water at 22°C was found to be 10 6.3 Hz. The rubber storage modulus was 1.6 MPa, increasing to 30 MPa in the glassy state. At 50 Hz and 35% strain over 98% of the elastic strain energy can returned each cycle, decreasing to 81% at the highest frequencies used by insects (13 kHz). However, despite its remarkable ability to store and return energy, the resilin tendon in dragonflies does not act to improve the energetic efficiency of flight or as a power amplifying spring. Rather, it likely functions to passively control and stabilize the trailing edge of each wing during flight.
Translation of Pronominal Anaphora between English and Spanish: Discrepancies and Evaluation

This paper evaluates the different tasks carried out in the translation of pronominal anaphora in a machine translation (MT) system. The MT interlingua approach named AGIR (Anaphora Generation with an Interlingua Representation) improves upon other proposals presented to date because it is able to translate intersentential anaphors, detect co-reference chains, and translate Spanish zero pronouns into English—issues hardly considered by other systems. The paper presents the resolution and evaluation of these anaphora problems in AGIR with the use of different kinds of knowledge (lexical, morphological, syntactic, and semantic). The translation of English and Spanish anaphoric third-person personal pronouns (including Spanish zero pronouns) into the target language has been evaluated on unrestricted corpora. We have obtained a precision of 80.4% and 84.8% in the translation of Spanish and English pronouns, respectively. Although we have only studied the Spanish and English languages, our approach can be easily extended to other languages such as Portuguese, Italian, or Japanese.
Crystal structure of xenotropic murine leukaemia virus-related virus (XMRV) ribonuclease H

RNase H (retroviral ribonuclease H) cleaves the phosphate backbone of the RNA template within an RNA/DNA hybrid to complete the synthesis of double-stranded viral DNA. In the present study we have determined the complete structure of the RNase H domain from XMRV (xenotropic murine leukaemia virus-related virus) RT (reverse transcriptase). The basic protrusion motif of the XMRV RNase H domain is folded as a short helix and an adjacent highly bent loop. Structural superposition and subsequent mutagenesis experiments suggest that the basic protrusion motif plays a role in direct binding to the major groove in RNA/DNA hybrid, as well as in establishing the co-ordination among modules in RT necessary for proper function.
Patients with Borderline Personality Disorder in Emergency Departments

Borderline personality disorder (BPD) patients, when in crisis, are frequent visitors of emergency departments (EDs). When these patients exhibit symptoms such as aggressiveness, impulsivity, intense anxiety, severe depression, self-harm, and suicidal attempts or gestures, diagnosis, and treatment of the BPD becomes challenging for ED doctors. This review will, therefore, outline advice to physicians and health-care providers who face this challenging patient population in the EDs. Crisis intervention should be the first objective of clinicians when dealing with BPD in the emergency. For the patients with agitation, symptom-specific pharmacotherapy is usually recommended, while for non-agitated patients, short but intensive psychotherapy especially dialectical behavior therapy (DBT) has a positive effect. Although various psychotherapies, either alone or integrated, are preferred modes of treatment for this group of patients, the effects of psychotherapies on BPD outcomes are small to medium. Proper risk management along with developing a positive attitude and empathy toward these patients will help them in normalizing in an emergency setting after which treatment course can be decided.
Collaboration to Increase Colorectal Cancer Screening Among Low-Income Uninsured Patients

Background Colorectal cancer (CRC) is the second leading cause of cancer-related deaths in the United States. CRC screening allows for prevention through the removal of precancerous lesions and early detection of cancer. Community Context Ride for Life Alaska (RFL), a nonprofit organization that raises funds to fight cancer, and the Anchorage Neighborhood Health Center (ANHC), which is Alaska's largest community health center, joined efforts to provide CRC screening and outreach to an ethnically diverse group of low-income underinsured or uninsured patients residing in and around Anchorage, Alaska. Methods RFL and ANHC worked with gastroenterologists, medical practices, and pathology services to contribute pro bono and reduced-fee services for CRC screening. Information to patients was distributed through signs in the clinic, flyers, and the ANHC website. Outcomes CRC screening was increased in this population. During 2007-2009, there were 2,561 immunochemical fecal occult blood tests given to patients, and 1,558 were completed (61%); 24% were positive. Sixteen gastroenterologists, 4 medical practices, and 2 laboratories provided 111 follow-up colonoscopies and pathology services to patients identified through the CRC screening program who did not have other funding resources available for follow-up care. Interpretation This program provides a model for leveraging scarce screening resources by drawing on multiple partners to increase CRC screening. Recommendations for those seeking to initiate similar programs are to have memoranda of agreement in place and a clear scope of work for all participating people and organizations to avoid delays in program implementation; hire a screening care coordinator to manage patient care and collaborate with medical practices; and identify program champions who have the energy and persistence to craft such partnerships.
Cartesian stiffness matrix of manipulators with passive joints: Analytical approach

The paper focuses on stiffness matrix computation for manipulators with passive joints. It proposes both explicit analytical expressions and an efficient recursive procedure that are applicable in general case and allow obtaining the desired matrix either in analytical or numerical form. Advantages of the developed technique and its ability to produce both singular and non-singular stiffness matrices are illustrated by application examples that deal with stiffness modeling of two Stewart-Gough platforms.
Fine-Grained Tree-to-String Translation Rule Extraction

Tree-to-string translation rules are widely used in linguistically syntax-based statistical machine translation systems. In this paper, we propose to use deep syntactic information for obtaining fine-grained translation rules. A head-driven phrase structure grammar (HPSG) parser is used to obtain the deep syntactic information, which includes a fine-grained description of the syntactic property and a semantic representation of a sentence. We extract fine-grained rules from aligned HPSG tree/forest-string pairs and use them in our tree-to-string and string-to-tree systems. Extensive experiments on large-scale bidirectional Japanese-English translations testified the effectiveness of our approach.
Generation of Murine Sympathoadrenergic Progenitor-Like Cells from Embryonic Stem Cells and Postnatal Adrenal Glands

Sympathoadrenergic progenitor cells (SAPs) of the peripheral nervous system (PNS) are important for normal development of the sympathetic PNS and for the genesis of neuroblastoma, the most common and often lethal extracranial solid tumor in childhood. However, it remains difficult to isolate sufficient numbers of SAPs for investigations. We therefore set out to improve generation of SAPs by using two complementary approaches, differentiation from murine embryonic stem cells (ESCs) and isolation from postnatal murine adrenal glands. We provide evidence that selecting for GD2 expression enriches for ESC-derived SAP-like cells and that proliferating SAP-like cells can be isolated from postnatal adrenal glands of mice. These advances may facilitate investigations about the development and malignant transformation of the sympathetic PNS.
Schumpeter and the idea of social science : a metatheoretical study

List of figures Preface 1. Introduction 2. Schumpeter and his surroundings: an overview 3. The scope and methods of Schumpeter's research program 4. The sociology of science and Schumpeter's ideology 5. The economic methodology of instrumentalism 6. Static economics as an exact science 7. The theory of economic development as a midpoint 8. A methodology of economic sociology 9. Economic sociology as an evolutionary science 10. The historical world of economics 11. Value judgements and political economy 12. Conclusion: Schumpeterian synthesis Notes List of references Index.
Living with defined contribution pensions : remaking responsibility for retirement

Preface 1. Defined Contribution Pensions: New Opportunities, New Risks -Olivia S. Mitchell, Sylvester J. Schieber 2. Pension Coverage Initiatives: Why Don't Workers Participate? -Richard P. Hinz, John A. Turner 3. Financial Illiteracy, Education, and Retirement Saving -B. Douglas Bernheim 4. Factors Affecting Participation Rates and Contribution Levels in 401(k) Plans -Robert L. Clark, Sylvester J. Schieber 5. Employee Decisions with Respect to 401(k) Plans -Andrea L. Kusko, James M. Poterba, David W. Wilcox 6. Implications of the Shift to Defined Contribution Plans for Retirement Wealth Accumulation -William G. Gale, Joseph M. Milano 7. Responses of Mutual Fund Investors to Adverse Market Disruptions -John D. Rea, Richard G. Marcis 8. Trends in Retirement Income Plan Administrative Expenses -Edwin C. Hustead 9. Emerging Problems of Fiduciary Liability -Brian T. Ortelere 10. The Changing Paradigm of 401(k) Plan Servicing -Ronald D. Hurt 11. The Importance of Variable Annuities in a Defined Contribution Pension System -P. Brett Hammond 12. Disparate Savings Propensities and National Retirement Policy -Richard A. Ippolito 13. The Future of the Defined Contribution Revolution -Sylvester J. Schieber, Richard Dunn, David L. Wray Contributors Index
Cost-effectiveness of hepatitis A vaccination in Indonesia

Objective This study aims to assess the cost-effectiveness of hepatitis A immunization in Indonesia, including an explicit comparison between one-dose and two-dose vaccines. Methods An age-structured cohort model based on a decision tree was developed for the 2012 Indonesia birth cohort. Using the model, we made a comparison on the use of two-dose and one-dose vaccines. The model involved a 70-year time horizon with 1-month cycles for children less than 2 years old and annually thereafter. Monte Carlo simulations were used to examine the economic acceptability and affordability of the hepatitis A vaccination. Results Vaccination would save US$ 3 795 148 and US$ 2 892 920 from the societal perspective, for the two-dose and one-dose vaccine schedules, respectively, in the context of hepatitis A treatment. It also would save 8917 and 6614 discounted quality-adjusted-life-years (QALYs), respectively. With the vaccine price of US$ 3.21 per dose, the implementation of single dose vaccine would yield an incremental cost-effectiveness ratio (ICER) of US$ 4933 per QALY gained versus no vaccination, whereas the two-dose versus one-dose schedule would cost US$ 14 568 per QALY gained. Considering the 2012 gross-domestic-product (GDP) per capita in Indonesia of US$ 3557, the results indicate that hepatitis A vaccination would be a cost-effective intervention, both for the two-dose and one-dose vaccine schedules in isolation, but two-dose vaccination would no longer be cost-effective if one-dose vaccination is a feasible option. Vaccination would be 100% affordable at budgets of US$ 71 408 000 and US$ 37 690 000 for the implementation of the two-dose and one-dose vaccine schedules, respectively. Conclusions The implementation of hepatitis A vaccination in Indonesia would be a cost-effective health intervention under the market vaccine price. Given the budget limitations, the use of a one-dose-vaccine schedule would be more realistic to be applied than a two-dose schedule. The vaccine price, mortality rate and discount rate were the most influential parameters impacting the ICERs.
Massive transcriptional start site analysis of human genes in hypoxia cells

Combining our full-length cDNA method and the massively parallel sequencing technology, we developed a simple method to collect precise positional information of transcriptional start sites (TSSs) together with digital information of the gene-expression levels in a high throughput manner. We applied this method to observe gene-expression changes in a colon cancer cell line cultured in normoxic and hypoxic conditions. We generated more than 100 million 36-base TSS-tag sequences and revealed comprehensive features of hypoxia responsive alterations in the transcriptional landscape of the human genome. The features include presence of inducible ‘hot regions’ in 54 genomic regions, 220 novel hypoxia inducible promoters that may drive non-protein-coding transcripts, 191 hypoxia responsive alternative promoters and detailed views of 120 novel as well as known hypoxia responsive genes. We further analyzed hypoxic response of different cells using additional 60 million TSS-tags and found that the degree of the gene-expression changes were different among cell lines, possibly reflecting cellular robustness against hypoxia. The novel dynamic figure of the human gene transcriptome will deepen our understanding of the transcriptional program of the human genome as well as bringing new insights into the biology of cancer cells in hypoxia.
In-situ Effects of Eutrophication and Overfishing on Physiology and Bacterial Diversity of the Red Sea Coral Acropora hemprichii

Coral reefs of the Central Red Sea display a high degree of endemism, and are increasingly threatened by anthropogenic effects due to intense local coastal development measures. Overfishing and eutrophication are among the most significant local pressures on these reefs, but there is no information available about their potential effects on the associated microbial community. Therefore, we compared holobiont physiology and 16S-based bacterial communities of tissue and mucus of the hard coral Acropora hemprichii after 1 and 16 weeks of in-situ inorganic nutrient enrichment (via fertilizer diffusion) and/or herbivore exclusion (via caging) in an offshore reef of the Central Red Sea. Simulated eutrophication and/or overfishing treatments did not affect coral physiology with respect to coral respiration rates, chlorophyll a content, zooxanthellae abundance, or δ 15N isotopic signatures. The bacterial community of A. hemprichii was rich and uneven, and diversity increased over time in all treatments. While distinct bacterial species were identified as a consequence of eutrophication, overfishing, or both, two bacterial species that could be classified to the genus Endozoicomonas were consistently abundant and constituted two thirds of bacteria in the coral. Several nitrogen-fixing and denitrifying bacteria were found in the coral specimens that were exposed to experimentally increased nutrients. However, no particular bacterial species was consistently associated with the coral under a given treatment and the single effects of manipulated eutrophication and overfishing could not predict the combined effect. Our data underlines the importance of conducting field studies in a holobiont framework, taking both, physiological and molecular measures into account.
CFHTLenS: combined probe cosmological model comparison using 2D weak gravitational lensing

We present cosmological constraints from 2D weak gravitational lensing by the large-scale structure in the Canada–France–Hawaii Telescope Lensing Survey (CFHTLenS) which spans 154 deg^2 in five optical bands. Using accurate photometric redshifts and measured shapes for 4.2 million galaxies between redshifts of 0.2 and 1.3, we compute the 2D cosmic shear correlation function over angular scales ranging between 0.8 and 350 arcmin. Using non-linear models of the dark-matter power spectrum, we constrain cosmological parameters by exploring the parameter space with Population Monte Carlo sampling. The best constraints from lensing alone are obtained for the small-scale density-fluctuations amplitude σ_8 scaled with the total matter density Ωm. For a flat Λcold dark matter (ΛCDM) model we obtain σ_8(Ω_m/0.27)0.6 = 0.79 ± 0.03. We combine the CFHTLenS data with 7-year Wilkinson Microwave Anisotropy Probe (WMAP7), baryonic acoustic oscillations (BAO): SDSS-III (BOSS) and a Hubble Space Telescope distance-ladder prior on the Hubble constant to get joint constraints. For a flat ΛCDM model, we find Ω_m = 0.283 ± 0.010 and σ_8 = 0.813 ± 0.014. In the case of a curved wCDM universe, we obtain Ω_m = 0.27 ± 0.03, σ_8 = 0.83 ± 0.04, w0 = −1.10 ± 0.15 and Ω_K = 0.006^(+0.006)_(− 0.004). We calculate the Bayesian evidence to compare flat and curved ΛCDM and dark-energy CDM models. From the combination of all four probes, we find models with curvature to be at moderately disfavoured with respect to the flat case. A simple dark-energy model is indistinguishable from ΛCDM. Our results therefore do not necessitate any deviations from the standard cosmological model.
A review of gluten- and casein-free diets for treatment of autism: 2005-2015.

BACKGROUND The gluten free, casein free (GFCF) diet is heralded by strong anecdotal parental reports to greatly improve and even "cure" symptoms of Autism Spectrum Disorders (ASD). Yet to date, little conclusive empirical evidence exists supporting its use. OBJECTIVE The purpose of this paper is to provide an overview of the state of the recent evidence regarding use of GFCF diet for treatment of individuals with ASD. METHODS Five database providers (PubMed, Web of Knowledge, EBSCO, ProQuest, and WorldCat) were used to search 19 databases yielding a total of 491 articles that were published through February 2015. Peer reviewed articles published between 2005 and February 2015 were included for review if study participants were identified as having ASD and investigated the effects of the GFCF diet on ASD behaviors or the relationship between the diet and these behaviors. RESULTS Evaluation of search results yielded 11 reviews, 7 group experimental studies including 5 randomized controlled trials, 5 case reports, and 4 group observational studies published during the last 10 years. These studies represent a marked increase in number of reported studies as well as increased scientific rigor in investigation of GFCF diets in ASD. CONCLUSIONS While strong empirical support for the GFCF diet in ASD is currently lacking, studies point to the need for identifying subsets of individuals (e.g., those with documented gastrointestinal abnormalities) who may be the best responders to the GFCF diet. Identifying these subsets is critically needed to enhance rigor in this research area. Until rigorous research supporting use of GFCF diet is reported, clinicians should continue use caution and consider several factors when advising regarding implementation of the GFCF diet for individuals with ASD.
Revisiting the origin and diversification of vascular plants through a comprehensive Bayesian analysis of the fossil record

Summary Plants have a long evolutionary history, during which mass extinction events dramatically affected Earth's ecosystems and its biodiversity. The fossil record can shed light on the diversification dynamics of plant life and reveal how changes in the origination–extinction balance have contributed to shaping the current flora. We use a novel Bayesian approach to estimate origination and extinction rates in plants throughout their history. We focus on the effect of the ‘Big Five’ mass extinctions and on estimating the timing of origin of vascular plants, seed plants and angiosperms. Our analyses show that plant diversification is characterized by several shifts in origination and extinction rates, often matching the most important geological boundaries. The estimated origin of major plant clades predates the oldest macrofossils when considering the uncertainties associated with the fossil record and the preservation process. Our findings show that the commonly recognized mass extinctions have affected each plant group differently and that phases of high extinction often coincided with major floral turnovers. For instance, after the Cretaceous–Paleogene boundary we infer negligible shifts in diversification of nonflowering seed plants, but find significantly decreased extinction in spore‐bearing plants and increased origination rates in angiosperms, contributing to their current ecological and evolutionary dominance.
Cerebral Correlates of Emotional and Action Appraisals During Visual Processing of Emotional Scenes Depending on Spatial Frequency: A Pilot Study

Visual processing of emotional stimuli critically depends on the type of cognitive appraisal involved. The present fMRI pilot study aimed to investigate the cerebral correlates involved in the visual processing of emotional scenes in two tasks, one emotional, based on the appraisal of personal emotional experience, and the other motivational, based on the appraisal of the tendency to action. Given that the use of spatial frequency information is relatively flexible during the visual processing of emotional stimuli depending on the task’s demands, we also explored the effect of the type of spatial frequency in visual stimuli in each task by using emotional scenes filtered in low spatial frequency (LSF) and high spatial frequencies (HSF). Activation was observed in the visual areas of the fusiform gyrus for all emotional scenes in both tasks, and in the amygdala for unpleasant scenes only. The motivational task induced additional activation in frontal motor-related areas (e.g. premotor cortex, SMA) and parietal regions (e.g. superior and inferior parietal lobules). Parietal regions were recruited particularly during the motivational appraisal of approach in response to pleasant scenes. These frontal and parietal activations, respectively, suggest that motor and navigation processes play a specific role in the identification of the tendency to action in the motivational task. Furthermore, activity observed in the motivational task, in response to both pleasant and unpleasant scenes, was significantly greater for HSF than for LSF scenes, suggesting that the tendency to action is driven mainly by the detailed information contained in scenes. Results for the emotional task suggest that spatial frequencies play only a small role in the evaluation of unpleasant and pleasant emotions. Our preliminary study revealed a partial distinction between visual processing of emotional scenes during identification of the tendency to action, and during identification of personal emotional experiences. It also illustrates flexible use of the spatial frequencies contained in scenes depending on their emotional valence and on task demands.