Miracle-dz/UniFAR-FTUs huggingface dataset:
Consortium of European Taxonomic Facilities (CETAF) best practices in electronic publishing in taxonomy

In order to consider the effects of online publishing on the career of researchers, as well as to encourage both its recognition and its improved positioning within the field and beyond, the CETAF Membership organized two workshops during which specific questions about scientific publishing in taxonomy were addressed: authorship citation and Open Access. The present opinion paper is the result of those workshops held on 19 October 2016 in Madrid and on 4 October 2017 in Heraklion. The discussions were aimed at reconciling the requirements of the relevant nomenclatural codes with recommendations for best practices that are adapted to the evolving landscape of e-publishing. By evaluating the different policies of a range of journals regarding authorship citation, we were able to recognise the conflicting and incoherent practices related to the citation of taxon authorships; an issue that is important to clarify for scientific (explicit source), practical (findability of source) and reputational (citation index) reasons. A collective policy on authorship citation also fits into the wider challenge faced by researchers and institutions, whereby interoperability and traceability become key priorities, both for facilitating access to scientific resources and for generating metrics that accurately represent the activities and output of the community. Publications resulting from publicly-funded research should be considered as an essential part of the research process and there has been a strong move towards Open Access, which increases visibility, citability, innovation and impact. Diverse models of Open Access have appeared in scientific publishing but while they each promote free access to the end user, they are not always equitable for the authors and funders of the original research. Herein we formulate recommendations for the relevant research communities and outline the advantages behind adopting a collective strategy towards the issues of authorship citation and Open Access.
Sustainable modernity and the architecture of the “well-being society”

In 1914 Graham Wallas – the cofounder of the London School of Economics – published his infl uential Great Society: a study of the ways in which industrial revolution was transforming and distorting human relations. “If I try to make for myself a visual picture of the social system which I should desire for England and America,” Wallas wrote, “it would be a harmonious society like the one in Northern Europe. ” In a rhapsodic exultation, he confi ded:
Sonography in the instability of the long head of the biceps tendon confronted with histopathologic and arthroscopic findings.

BACKGROUND Disorders of the long head of the biceps (LHB) tendon are a common source of shoulder pain and disability. This tendon can be well visualised using ultrasonography; however, little is known if such examination allows clinicians to predict pathological changes of the tendon structure. In the study described below, we compare preoperative sonographic findings with the data from shoulder arthroscopy and microscopic examination of the excised tendon fragments in 19 consecutive patients with LHB tendinopathy and clinical suspicion of its instability. MATERIALS AND METHODS Preoperative ultrasonographic (US) inspection assessed several features of the tendon, whereas its stability was verified arthroscopically. In all cases, tenodesis or tenotomy procedures were performed and excised tendon fragments were harvested for microscopic examination based on the semiquantitative Bonar score. RESULTS The most common US findings were hypoechoic areas, tendon thickening, an increased power Doppler signal and mechanical instability. Just as shoulder arthroscopy confirmed all mechanical instability cases detected in US, microscopic assessment revealed advanced degeneration in all samples. CONCLUSIONS Our study indicates that US is a useful tool in identifying cases of advanced instability and LHB tendinopathy, whereas biceps tendon instability is a biomechanically complex, gradually progressing phenomenon, frequently associated with additional shoulder lesions.
Effect of Hypoxia on Endothelial Nitric Oxide Synthase, NO Production, Intracellular Survival Signaling (p‐ERK1/2 and p‐AKT) and Apoptosis in Human Term Trophoblast

Citation Park M‐H, Galan HL, Arroyo JA. Effect of hypoxia on endothelial nitric oxide synthase, NO production, intracellular survival signaling (p‐ERK1/2 and p‐AKT) and apoptosis in human term trophoblast. Am J Reprod Immunol 2011; 65: 407–414
IFN‐λ gene polymorphisms as predictive factors in chronic hepatitis C treatment‐naive patients without access to protease inhibitors

The single nucleotides polymorphisms analyses in the regions near the IL28B gene in patients chronically infected with genotype 1 hepatitis C virus (HCV) are an important predictive factor for sustained virological response (SVR). The aim was to assess the predictive value of the polymorphisms of the IL28B/IFNL3 gene in patients chronically infected with genotype 1 for the viral clearance obtained after initial treatment including admixed populations. A systematic review was conducted, using a meta‐analysis in the PubMed, Embase, LILACS, and SCIELO using MesH and DECS in 42 studies. The parameters were IL28B polymorphisms, rs12979860, rs8099917, and rs12980275, SVR ratio, and OR (odds ratio). OR and confidence Interval of 95% (95%CI), were calculated by fixed or random effects models. Heterogeneity, sensitivity analysis, and publication bias were also performed. Significant differences were noted between carriers groups with the major versus minor allele at rs12979860 CC versus CT/TT‐genotype (OR = 4.18; 95%CI = 3.37–5.17), rs8099917 TT versus TG/GG‐genotype (OR = 4.07; 95%CI = 2.94–5.63), and rs12980275 AA versus AA/AG‐genotype (OR = 5.34; 95%CI = 1.60–17.82). There was selection bias in the rs8099917 analysis (Egger's regression P = 0.049), which reversed after performing a sensitivity analysis (P = 0.510). The incorporation of SNP analyses in IL28B/IFNL3 gene during the diagnosis process in Brazil should be used as a complementary tool to determine the appropriate treatment for HCV genotype 1. Here, we confirm that the rs12979860 CC, rs8099917 TT, and rs12980275 AA genotype‐carriers have favorable responses to standard therapy, including two studies with Brazilian population, and this information should be considered. J. Med. Virol. 87:1702–1715, 2015. © 2015 Wiley Periodicals, Inc.
Multi-informant assessment of transition-related skills and skill importance in adolescents with autism spectrum disorder

Adolescents with autism spectrum disorder have limited participation in the transition planning process, despite the link between active participation and an improvement in postsecondary education and employment outcomes. The Secondary School Success Checklist was designed to support transition planning for adolescents with autism spectrum disorder by incorporating their own assessments of strengths, skill deficits, and prioritization for instruction along with those of their parents and teachers across multiple skill domains. Findings from more than 500 adolescents with autism spectrum disorder across the United States indicate discrepancies between adolescent, teacher, and parent ratings of skills highlighting the importance of the inclusion of multiple perspectives in transition planning. Although ratings varied, agreement between adolescents with autism spectrum disorder, parents, and teachers across the highest and lowest rated skills suggests the need to broaden the focus on critical transition skills to include problem-solving, planning for life after high school, and self-advocacy.
Audio channel Dynamic Spectrum Access

A prototype Dynamic Spectrum Access (DSA) system is implemented, for ease of implementation, using the audio spectrum. In this setup, laptop PCs behave as two software defined radios (SDR), one a primary user (PU) and the other a secondary user (SU). The radios communicate digital information over the air, using the audio capabilities of standard soundcards. The PU, which is emulating the licensed user of an audio channel centered at 4 kHz, communicates using binary phase shift keying (BPSK) modulated data in periodic bursts. A cognitive radio (CR) based SU wishes to opportunistically occupy the PU channel during the inter-burst times, i.e. during the temporal `spectrum holes,' while not interfering with the PU traffic. The PU link is implemented in MATLAB, while the SU is defined in GNU Radio with a separate Python control module defining its algorithm for spectrum sensing and hopping. The implementation of both communication links is described, as well as the initial performance evaluation of the preliminary system in terms of bit error rate performance of the PU with and without the presence of an active SU. The measured BER achieved for the best of the PU bursts with DSA was on the order of a few percent, just slightly higher than without DSA.
The scientific foundations and associated injury risks of early soccer specialisation

ABSTRACT Early specialisation is characterised by formal participation in a single sport at the exclusion of others. Limited data are available to support this approach in the development of soccer players who attain elite status later in life. Of growing concern is the associated increased risk of injury and suggestions that single sport specialisation is a risk factor independent of age, growth, biological maturation and training volumes. In the United Kingdom, elite soccer organisations have recently adopted an early sport specialisation approach following the introduction of the Elite Player Performance Plan. A key tenet of this programme is increased opportunities for training through a marked rise in the specified on-pitch hours per week. The accumulation of high training hours may be less of a relevant marker for success, and the impact of such a significant increase in training volume for young athletes who are experiencing a range of growth and maturational processes is currently unknown. This critical commentary includes an evidence-based discussion of the effectiveness of early sport specialisation and the potential injury risks associated with such programmes placing a specific focus on elite male youth soccer players. Available data indicate that modifications to the existing Elite Player Performance Plan framework could enhance players’ development and reduce injury risk. Proposed alterations include reduced volume of soccer-specific training at key stages of growth and maturation and guidelines for the provision of a greater variety of physical activities that are integrated within other programme components.
Neuro-Ophthalmic Syndromes and Processing Speed in Multiple Sclerosis

Abstract: The impact of prior neuro-ophthalmic syndromes on the performance on vision-based neuropsychological tasks in patients with multiple sclerosis (MS) is unknown. Two groups of MS participants, one with (Msos+) and the other without (Msos−), a history of neuro-ophthalmic syndromes, underwent neuropsychological assessment and were compared with healthy age- and education-matched controls (HC). Participants with Msos+ performed significantly worse on the symbol digit modalities test than the Msos− (P < 0.03) and the HC groups (P < 0.01) and coding (P < 0.01). A clinical history of neuro-ophthalmic syndromes is associated with reduced performance on visual processing speed tasks.
Efficacy and Tolerability of Once-Daily Therapy with Telithromycin for 5 or 10 Days for the Treatment of Acute Maxillary Sinusitis

Background: The efficacy and tolerability of oral telithromycin 800 mg once daily for 5 vs. 10 days were assessed in patients with acute maxillary sinusitis (AMS). Methods: Adults (n = 341) with confirmed AMS diagnosed on clinical signs and symptoms and sinus X-ray showing total opacity or air-fluid level were randomized to receive oral telithromycin for 5 days (followed by placebo for 5 days; n = 170) or 10 days (n = 171). Causative pathogens were isolated by pretreatment sinus puncture (day 1). Clinical and bacteriologic outcomes, and safety and tolerability endpoints were assessed. Results: Clinical cure rates post-therapy (per-protocol; days 17–21) were comparable (91.1% in the 5-day group, n = 123; 91.0% in the 10-day group, n = 133). Bacteriologic eradication rates (per-protocol) were also similar (90.7 vs. 91.3%). Both regimens were well tolerated. Conclusions: A 5-day course of telithromycin 800 mg once daily is an effective, well-tolerated treatment for adults with AMS, comparable to a 10-day regimen.
Extended Longevity in Mice Lacking the Insulin Receptor in Adipose Tissue

Caloric restriction has been shown to increase longevity in organisms ranging from yeast to mammals. In some organisms, this has been associated with a decreased fat mass and alterations in insulin/insulin-like growth factor 1 (IGF-1) pathways. To further explore these associations with enhanced longevity, we studied mice with a fat-specific insulin receptor knockout (FIRKO). These animals have reduced fat mass and are protected against age-related obesity and its subsequent metabolic abnormalities, although their food intake is normal. Both male and female FIRKO mice were found to have an increase in mean life-span of ∼134 days (18%), with parallel increases in median and maximum life-spans. Thus, a reduction of fat mass without caloric restriction can be associated with increased longevity in mice, possibly through effects on insulin signaling.
Accelerated Conversion of Human Plasminogen Activator Inhibitor-1 to Its Latent Form by Antibody Binding*

The serpin plasminogen activator inhibitor-1 (PAI-1) slowly converts to an inactive latent form by inserting a major part of its reactive center loop (RCL) into its β-sheet A. A murine monoclonal antibody (MA-33B8), raised against the human plasminogen activator (tPA)·PAI-1 complex, rapidly inactivates PAI-1. Results presented here indicate that MA-33B8 induces acceleration of the active-to-latent conversion. The antibody-induced inactivation of PAI-1 labeled with the fluorescent probeN,N′-dimethyl-N-(acetyl)-N′-(7-nitrobenz-2-oxa-1,3-diazol-4-yl) ethylene diamine (NBD) at P9 in the RCL caused a fluorescence enhancement and shift identical to those accompanying the spontaneous conversion of the P9·NBD PAI-1 to the latent form. Like latent PAI-1, antibody-inactivated PAI-1 was protected from cleavage by elastase. The rate constants for MA-33B8 binding, measured by NBD fluorescence or inactivation, were similar (1.3–1.8 × 104 m −1 s−1), resulting in a 4000-fold faster inactivation at 4.2 μm antibody binding sites. The apparent antibody binding rate constant, at least 1000 times slower than one limited by diffusion, indicates that exposure of its epitope depends on an unfavorable equilibrium of PAI-1. Our observations are consistent with this idea and suggest that the equilibrium involves partial insertion of the RCL into sheet A: latent, RCL-cleaved, and tPA-complexed PAI-1, which are inactive loop-inserted forms, bound much faster than active PAI-1 to MA-33B8, whereas two loop-extracted forms of PAI-1, modified to prevent loop insertion, did not bind or bound much more weakly to the antibody.
Biochemistry and Reproductive Endocrinology of Estrogen Sulfotransferase

Abstract: Estrogen sulfotransferase is a cytosolic enzyme that catalyzes the sulfoconjugation and inactivation of estrogens. Significant progress has been made in the last few years regarding the structure, substrate specificity, tissue expression, and regulation of mammalian estrogen sulfotransferases. The enzyme has high affinity for estrogens and is expressed in a number of estrogen target tissues, including the male and female reproductive systems. Expression of the enzyme in the testis has been particularly well characterized. In the testis, estrogen sulfotransferase is localized selectively to Leydig cells and its expression in these cells is dependent on LH and androgen. It was concluded, from both in vitro and in vivo studies, that estrogen sulfotransferase can function as an effective modulator of local estrogen activity in target tissues. The finding that certain hydroxylated polychlorinated biphenyls are potent inhibitors of the human estrogen sulfotransferase enzyme raises the possibility that environmental chemicals can cause endocrine disruption by enhancing endogenous estrogen activity through inhibition of steroid transformation enzymes such as estrogen sulfotransferase. This provides a new paradigm in explaining the endocrine disrupting potential of environmental chemicals that have low or no binding affinities for steroid hormone receptors.
Discovery of a selective inhibitor of oncogenic B-Raf kinase with potent antimelanoma activity

BRAFV600E is the most frequent oncogenic protein kinase mutation known. Furthermore, inhibitors targeting “active” protein kinases have demonstrated significant utility in the therapeutic repertoire against cancer. Therefore, we pursued the development of specific kinase inhibitors targeting B-Raf, and the V600E allele in particular. By using a structure-guided discovery approach, a potent and selective inhibitor of active B-Raf has been discovered. PLX4720, a 7-azaindole derivative that inhibits B-RafV600E with an IC50 of 13 nM, defines a class of kinase inhibitor with marked selectivity in both biochemical and cellular assays. PLX4720 preferentially inhibits the active B-RafV600E kinase compared with a broad spectrum of other kinases, and potent cytotoxic effects are also exclusive to cells bearing the V600E allele. Consistent with the high degree of selectivity, ERK phosphorylation is potently inhibited by PLX4720 in B-RafV600E-bearing tumor cell lines but not in cells lacking oncogenic B-Raf. In melanoma models, PLX4720 induces cell cycle arrest and apoptosis exclusively in B-RafV600E-positive cells. In B-RafV600E-dependent tumor xenograft models, orally dosed PLX4720 causes significant tumor growth delays, including tumor regressions, without evidence of toxicity. The work described here represents the entire discovery process, from initial identification through structural and biological studies in animal models to a promising therapeutic for testing in cancer patients bearing B-RafV600E-driven tumors.
Distinct interactions of the X-linked lymphoproliferative syndrome gene product SAP with cytoplasmic domains of members of the CD2 receptor family.

X-linked lymphoproliferative syndrome (XLP; Duncan's disease) is a primary immunodeficiency disease that manifests as an inability to regulate the immune response to Epstein-Barr virus (EBV) infection. Here we examine the ability of the product of the gene defective in XLP, SAP (DSHP/SH2D1A), to associate with the cytoplasmic domains of several members of the CD2 subfamily of cell surface receptors, including SLAM, 2B4, and CD84. While recruitment of SAP to SLAM occurred in a phosphorylation-independent manner, SAP was found to bind preferentially to tyrosine-phosphorylated cytoplasmic domains within 2B4 and CD84. Missense or nonsense mutations in the SAP open reading frame were identified in five of seven clinically diagnosed XLP patients from different kindreds. Four of these variants retained the ability to bind to the cytoplasmic tails of SLAM and CD84. While ectopic expression of wild-type SAP was observed to block the binding of SHP-2 to SLAM, mutant SAP derivatives that retained the ability to bind SLAM did not inhibit recruitment of SHP-2 to SLAM. In contrast, SAP binding to CD84 had no effect on the ability of CD84 to recruit SHP-2, but instead displaced SHP-1 from the cytoplasmic tail of CD84. These results suggest that mutations in the gene encoding the XLP protein SAP lead to functional defects in the protein that include receptor binding and SHP-1 and SHP-2 displacement and that SAP utilizes different mechanisms to regulate signaling through the CD2 family of receptors.
The housing careers of younger adults and intergenerational support in Germany’s ‘society of renters’

Abstract Through narrative interviews with younger adults and their parents, this paper explores how the housing transitions of younger adults, both within the rental sector and into homeownership, are shaped through intergenerational intra-family support in Germany’s society of renters. Our findings highlight the profound qualitative differences between regular transfers for establishing and retaining residential independence in the rental sector and inter vivos gifts for house purchase. Where the former support type is given and taken unconditionally, transfers for house purchase follow a different logic and carry different meanings. Being a necessary condition for property acquisition at young age, they have the power to completely rebalance family relations and undermine younger adults’ autonomy accordingly. In an aggregate perspective, our study further suggests increasing socio-spatial inequalities within the younger generation which run along both class and spatial origin, sharply dividing the housing market opportunities of ‘original Berliners’ and those who have moved to the city from more affluent regions in Germany.
Tissue-Specific Regulation of Basic Fibroblast Growth Factor mRNA Levels by Diabetes

Because basic fibroblast growth factor (bFGF) is recognized as an angiogenic factor and diabetes is characterized by multiple vascular complications, including diabetic microangiopathy, we examined the regulation of tissue bFGF mRNA levels by diabetes. Diabetes was induced in male Sprague-Dawley rats by injection of 125 mg/kg body wt i.v. streptozocin (STZ), with intensive insulin therapy initiated in half of the diabetic rats. Rats were killed 96 h postinjection of STZ. Tissue bFGF and insulinlike growth factor I (IGF-I) mRNA levels were measured simultaneously with a solution hybridization–RNase protection assay. bFGF mRNA levels increased from 1.7- to 2.7-fold in eye, heart, lung, and brain from diabetic compared with buffer-injected control rats. In skeletal muscle, bFGF mRNA levels decreased to 23% of control levels, whereas bFGF mRNA levels were unchanged in kidneys from diabetic versus control rats. Changes in tissue bFGF mRNA levels were partially reversed by insulin treatment in all tissues. In contrast, IGF-I mRNA levels were significantly decreased from 15 to 50% of control levels in all tissues studied except those in brain, which decreased to only 85% of control levels. These data demonstrate that bFGF mRNA levels are altered by diabetes in a tissue-specific fashion and are consistent with the hypothesis that increased production of bFGF may contribute to the development of diabetic microangiopathy in some tissues.
American Option Pricing Using Particle Filtering Under Stochastic Volatility Correlated Jump Model

Abstract A particle filter based method to price American option under partial observation framework is introduced. Assuming the underlying price process is driven by unobservable latent factors, the pricing methodology should contain inference on latent factors in addition to the original least-squares Monte Carlo approach of Longstaff and Schwartz. Sequential Monte Carlo is a widely applied technique to provide such inference. Applications on stochastic volatility models has been introduced by Rambharat, who assume that volatility is a latent stochastic process, and capture information about it using particle filter based “summary vectors”. This paper investigates this particle filter based pricing methodology, with an extension to a stochastic volatility jump model, stochastic volatility correlated jump model (SVCJ), and auxiliary particle filter (APF) introduced first by Pitt and Shephard. In the APF algorithm of SVCJ model, it also provides a modification version to enhance the performance in the resampling step. A detailed implementation and numerical examples of the algorithm are provided. The algorithm is also applied to empirical data.