Miracle-dz/UniFAR-FTUs huggingface dataset:
Tau proteins: the molecular structure and mode of binding on microtubules

Tau is a family of closely related proteins (55,000-62,000 mol wt) which are contained in the nerve cells and copolymerize with tubulin to induce the formation of microtubules in vitro. All information so far has indicated that tau is closely apposed to the microtubule lattice, and there was no indication of domains projecting from the microtubule polymer lattice. We have studied the molecular structure of the tau factor and its mode of binding on microtubules using the quick-freeze, deep-etch method (QF.DE) and low angle rotary shadowing technique. Phosphocellulose column-purified tubulin from porcine brain was polymerized with tau and the centrifuged pellets were processed by QF.DE. We observed periodic armlike elements (18.7 +/- 4.8 nm long) projecting from the microtubule surface. Most of the projections appeared to cross-link adjacent microtubules. We measured the longitudinal periodicity of tau projections on the microtubules and found it to match the 6-dimer pattern better than the 12-dimer pattern. The stoichiometry of tau versus tubulin in preparations of tau saturated microtubules was 1:approximately 5.0 (molar ratio). Tau molecules adsorbed on mica took on rodlike forms (56.1 +/- 14.1 nm long). Although both tau and MAP1 are contained in axons, competitive binding studies demonstrated that the binding sites of tau and MAP1A on the microtubule surfaces are most distinct, although they may partially overlap.
A Diverse Tetrapod Fauna at the Base of 'Romer's Gap'

The lack of fossil tetrapod bearing deposits in the earliest Carboniferous (‘Romer’s Gap’) has provoked some recent discussions regarding the proximal cause, with three explanations being offered: environmental, taphonomic, and collection failure. One of the few, and earliest, windows into this time is the locality of Blue Beach exposed in the Tournaisian deposits at Horton Bluff lying along the Avon River near Hantsport, Nova Scotia, Canada. This locality has long been known but, because the fossils were deposited in high energy settings they are almost always disarticulated, so the fauna has not been described in detail. Recent intensive collection has revealed a diverse assemblage of material, including for the first time associated elements, which permits an evaluation of the faunal constituents at the locality. Although not diagnosable to a fine taxonomic level, sufficient apomorphies are present to identify representatives from numerous clades known from more complete specimens elsewhere. The evidence suggests a diverse fauna was present, including whatcheeriids and embolomeres. A single humerus previously had been attributed to a colosteid, but there is some uncertainty with this identification. Additional elements suggest the presence of taxa otherwise only known from the late Devonian. Depositional biases at the locality favor tetrapod fossils from larger individuals, but indirect evidence from trackways and tantalizing isolated bones evidences the presence of small taxa that remain to be discovered. The fossils from Blue Beach demonstrate that when windows into the fauna of ‘Romer’s Gap’ are found a rich diversity of tetrapods will be shown to be present, contra arguments that suggested this hiatus in the fossil record was due to extrinsic factors such as atmospheric oxygen levels. They also show that the early tetrapod fauna is not easily divisible into Devonian and Carboniferous faunas, suggesting that some tetrapods passed through the end Devonian extinction event unaffected.
Nanocrystalline/Nanosized Mixed Nickel-Manganese Ferrites Obtained by Mechanical Milling

A sum of mixed nickel-manganese ferrites, NixMn1-xFe2O4 (x=0, 0.3, 0.5, 0.7) were synthesized by classical ceramic route starting from stoichiometric mixtures of commercially MnO2, NiO and Fe2O3. The polycrystalline ferrites obtained by ceramic route were subjected to the mechanical milling procedure in order to reduce the particles size and to refine de crystallites size. A planetary high energy ball mill Fritch Pulverisette 4 was used and the milling time was up to 120 minutes. The ceramic and as-milled ferrites samples were investigated by X-ray diffraction (XRD), scanning electronic microscopy (SEM) and laser particles size analysis (LPSA). After 15 minutes of milling the mean crystallites size for each one of the nickel-manganese ferrites is in nanometric range. After 120 minutes of mechanical milling for all ferrites types the mean crystallites size is at 6-8 nm, depending on Ni/Mn ratio. According to the SEM and LPSA investigations the milled ferrites powders consists in nanometric particles alongside of the micrometric ones. The micrometric particles are formed by multiple nanocrystallites.
Yeast's balancing act between ethanol and glycerol production in low‐alcohol wines

Alcohol is fundamental to the character of wine, yet too much can put a wine off‐balance. A wine is regarded to be well balanced if its alcoholic strength, acidity, sweetness, fruitiness and tannin structure complement each other so that no single component dominates on the palate. Balancing a wine's positive fruit flavours with the optimal absolute and relative concentration of alcohol can be surprisingly difficult. Over the past three decades, consumers have increasingly demanded wine with richer and riper fruit flavour profiles. In response, grape and wine producers have extended harvest times to increase grape maturity and enhance the degree of fruit flavours and colour intensity. However, a higher degree of grape maturity results in increased grape sugar concentration, which in turn results in wines with elevated alcohol concentration. On average, the alcohol strength of red wines from many warm wine‐producing regions globally rose by about 2% (v/v) during this period. Notwithstanding that many of these ‘full‐bodied, fruit‐forward’ wines are well balanced and sought after, there is also a significant consumer market segment that seeks lighter styles with less ethanol‐derived ‘hotness’ on the palate. Consumer‐focussed wine producers are developing and implementing several strategies in the vineyard and winery to reduce the alcohol concentration in wines produced from well‐ripened grapes. In this context, Saccharomyces cerevisiae wine yeasts have proven to be a pivotal strategy to reduce ethanol formation during the fermentation of grape musts with high sugar content (> 240 g l−1). One of the approaches has been to develop ‘low‐alcohol’ yeast strains which work by redirecting their carbon metabolism away from ethanol production to other metabolites, such as glycerol. This article reviews the current challenges of producing glycerol at the expense of ethanol. It also casts new light on yeast strain development programmes which, bolstered by synthetic genomics, could potentially overcome these challenges.
Recent Advances in Dipeptidyl-Peptidase-4 Inhibition Therapy: Lessons from the Bench and Clinical Trials

DPP4 inhibitors (DPP4i) are a class of newly developed antidiabetic drugs which preserve incretin hormones and promote postprandial insulin secretion. Although the cardiovascular effect of DPP4 inhibition has been substantially studied, the exact role of DPP4 in cardiovascular disease especially in humans remains elusive. Previous small studies and meta-analyses have suggested a benefit in both surrogate outcomes and cardiovascular events for these agents. However, there was growing evidence in recent years questioning the cardioprotective effect of DPP4i. Further, a signal of heart failure hospitalization in a recent large scale clinical trial SAVOR-TIMI 53 has called into question the safety of these agents and their utility in the treatment of cardiovascular disease. In this review, we will revisit the physiologic function of DPP4 and discuss its role in cardiometabolic disease based on recent experimental and clinical studies.
A comparative overview of microwave and wireless power-amplifier behavioral modeling approaches

This paper presents a comparative overview of the most important approaches presented to address the behavioral modeling of microwave and wireless power amplifiers (PAs). Starting from a theoretical framework of recursive and nonrecursive nonlinear filters, it proposes a classification of the various PA behavioral models, discussing their abilities to represent the different effects observed in practical circuits. Using that formal procedure, one explains how it was possible to integrate a wide range of behavioral modeling activities and to show that some of them, which at first glance seemed to be quite different, are, indeed, identical in their modeling capabilities.
Stochastic dynamics of electrical membrane with voltage-dependent ion channel fluctuations

A Brownian-ratchet–like stochastic theory for the electrochemical membrane system of Hodgkin-Huxley (HH) is developed. The system is characterized by a continuous variable , representing mobile membrane charge density, and a discrete variable Kt representing ion channel conformational dynamics. A Nernst-Planck-Nyquist-Johnson–type equilibrium is obtained when multiple conducting ions have a common reversal potential. Detailed balance yields a previously unknown relation between the channel switching rates and membrane capacitance, bypassing an Eyring-type explicit treatment of gating charge kinetics. From a molecular structural standpoint, the membrane charge Qm is a more natural dynamic variable than the potential Vm; our formalism treats Qm-dependent conformational transition rates as intrinsic parameters. Therefore, in principle, vs. Vm is experimental-protocol–dependent, e.g., different from voltage or charge clamping measurements. For constant membrane capacitance per unit area Cm and neglecting the membrane potential induced by gating charges, , and HH's formalism is recovered. The presence of two types of ions, with different channels and reversal potentials, gives rise to a nonequilibrium steady state with positive entropy production ep. For rapidly fluctuating channels, an expression for ep is obtained.
Integrated active tracking detector for MRI‐guided interventions

We present a fully integrated detector suitable for active tracking of interventional devices in MR‐guided interventions. The single‐chip microsystem consists of a detection coil, a tuning capacitor, an intermediate frequency downconversion receiver, and a phase‐locked‐loop‐based frequency synthesizer. Thanks to the integrated mixer, the chip output stage delivers an analog frequency‐downconverted NMR signal in the frequency range from 0 to 200 kHz. The microchip, realized in a standard complementary metal oxide semiconductor technology, has a size of 1 × 2 × 0.74 mm3 and operates at a frequency of 63 MHz (i.e., in 1.5 T clinical scanners). Tests in a standard clinical scanner demonstrate the compatibility of the complementary metal oxide semiconductor microchip with clinical MRI systems. Using a solid sample of cis‐polyisoprene having a size of 1 × 1.9 × 0.8 mm3 as internal signal source, the detector achieves a three‐dimensional isotropic spatial resolution of 0.15 mm in a measuring time of 100 ms. Magn Reson Med, 2011. © 2011 Wiley‐Liss, Inc.
Demonstration of Metabolic and Cellular Effects of Portal Vein Ligation Using Multi-Modal PET/MRI Measurements in Healthy Rat Liver

Objectives In the early recognition of portal vein ligation (PVL) induced tumor progression, positron emission tomography and magnetic resonance imaging (PET/MRI) could improve diagnostic accuracy of conventionally used methods. It is unknown how PVL affects metabolic patterns of tumor free hepatic tissues. The aim of this preliminary study is to evaluate the effect of PVL on glucose metabolism, using PET/MRI imaging in healthy rat liver. Materials and Methods Male Wistar rats (n = 30) underwent PVL. 2-deoxy-2-(18F)fluoro-D-glucose (FDG) PET/MRI imaging (nanoScan PET/MRI) and morphological/histological examination were performed before (Day 0) and 1, 2, 3, and 7 days after PVL. Dynamic PET data were collected and the standardized uptake values (SUV) for ligated and non-ligated liver lobes were calculated in relation to cardiac left ventricle (SUVVOI/SUVCLV) and mean liver SUV (SUVVOI/SUVLiver). Results PVL induced atrophy of ligated lobes, while non-ligated liver tissue showed compensatory hypertrophy. Dynamic PET scan revealed altered FDG kinetics in both ligated and non-ligated liver lobes. SUVVOI/SUVCLV significantly increased in both groups of lobes, with a maximal value at the 2nd postoperative day and returned near to the baseline 7 days after the ligation. After PVL, ligated liver lobes showed significantly higher tracer uptake compared to the non-ligated lobes (significantly higher SUVVOI/SUVLiver values were observed at postoperative day 1, 2 and 3). The homogenous tracer biodistribution observed before PVL reappeared by 7th postoperative day. Conclusion The observed alterations in FDG uptake dynamics should be taken into account during the assessment of PET data until the PVL induced atrophic and regenerative processes are completed.
Statistical Analysis for Overdispersed Medical Count Data

: Many researchers have suggested the use of zero inflated Poisson (ZIP) and zero inflated negative binomial (ZINB) models in modeling over-dispersed medical count data with extra variations caused by extra zeros and unobserved heterogeneity. The studies indicate that ZIP and ZINB always provide better fit than using the normal Poisson and negative binomial models in modeling over-dispersed medical count data. In this study, we proposed the use of Zero Inflated Inverse Trinomial (ZIIT), Zero Inflated Poisson Inverse Gaussian (ZIPIG) and zero inflated strict arcsine models in modeling overdispersed medical count data. These proposed models are not widely used by many researchers especially in the medical field. The results show that these three suggested models can serve as alternative models in modeling over-dispersed medical count data. This is supported by the application of these suggested models to a real life medical data set. Inverse trinomial, Poisson inverse Gaussian, and strict arcsine are discrete distributions with cubic variance function of mean. Therefore, ZIIT, ZIPIG and ZISA are able to accommodate data with excess zeros and very heavy tailed. They are recommended to be used in modeling over-dispersed medical count data when ZIP and ZINB are inadequate.
Multiple-Beam Interferometry: Intensity Distribution in the Reflected System

The intensity distribution within the reflected fringe system from a multiple-beam interferometer employing silvered reflecting surfaces is discussed in its dependence upon the reflectivities and phase conditions at the reflecting surfaces. Using the Fizeau fringes of equal thickness localized on the zero order Feussner surface, the reflected intensity distribution is examined experimentally as the reflection coefficients of the interferometer surfaces vary between 4% and 90%. In the range of low reflectivities, when the silverings used showed marked colours, the changes in the reflected system lead to the measurement of a phase quantity related to the optical constants of the silver in the form of the thin film. Also in this range, the reflected fringes have a symmetrical form which is of use in the examination of sources of low intensity. In the range of high reflectivities, the conditions for the use of the reflected fringes in topographical investigation are discussed. The findings apply to fringes of equal chromatic order as well as to Fizeau fringes in reflection.
Pathogen adaptation to seasonal forcing and climate change

Many diverse infectious diseases exhibit seasonal dynamics. Seasonality in disease incidence has been attributed to seasonal changes in pathogen transmission rates, resulting from fluctuations in extrinsic climate factors. Multi-strain infectious diseases with strain-specific seasonal signatures, such as cholera, indicate that a range of seasonal patterns in transmission rates is possible in identical environments. We therefore consider pathogens capable of evolving their ‘seasonal phenotype’, a trait that determines the sensitivity of their transmission rates to environmental variability. We introduce a theoretical framework, based on adaptive dynamics, for predicting the evolution of disease dynamics in seasonal environments. Changes in the seasonality of environmental factors are one important avenue for the effects of climate change on disease. This model also provides a framework for examining these effects on pathogen evolution and associated disease dynamics. An application of this approach gives an explanation for the recent cholera strain replacement in Bangladesh, based on changes in monsoon rainfall patterns.
Bevacizumab Has Differential and Dose-Dependent Effects on Glioma Blood Vessels and Tumor Cells

Purpose: Bevacizumab targets VEGF-A and has proved beneficial in glioma patients, improving clinical symptoms by the reduction of tumor edema. However, it remains controversial whether or not bevacizumab exerts antitumor effects in addition to (and potentially independent of) its effects on tumor vessels, and it is unknown what doses are needed to achieve this. Experimental Design: We established a novel orthotopic glioma mouse model that allowed us to simultaneously study the kinetics of the morphologic and functional vascular changes, tumor growth, and the viability of individual tumor cells during the course of anti-VEGF therapy in the same microscopic tumor region in real-time. Three doses of bevacizumab were compared, a subclinical dose and two clinical doses (medium and high). Results: Low (subclinical) doses of bevacizumab led to a significant reduction of the total vascular volume without affecting tumor cell viability or the overall tumor growth rates. Medium and high doses triggered a similar degree of vascular regression but significantly decreased tumor growth and prolonged survival. Remaining vessels revealed morphologic features of vascular normalization, reduced permeability, and an increase in blood flow velocity; the latter was dose dependent. We observed an uncoupling of the antitumoral and the antivascular effects of bevacizumab with the high dose only, which showed the potential to cause microregional glioma cell regression. In some tumor regions, pronounced glioma cell regression occurred even without vascular regression. In vitro, there was no effect of bevacizumab on glioma cell proliferation. Conclusions: Regression of glioma cells can occur independently from vascular regression, suggesting that high doses of bevacizumab have indirect anticancer cell properties in vivo. Clin Cancer Res; 17(19); 6192–205. ©2011 AACR.
A 130 nm CMOS 6-bit Full Nyquist 3 GS/s DAC

This paper presents a 6-bit very high-speed, low-power digital-to-analog converter (DAC). It is based on a current steering binary weighted architecture and achieves 10-bit static linearity without calibration. Due to the use of a pseudo-segmented structure instead of a thermometer decoder, the operating speed of the converter can be up to 4.5 GS/s. The DAC occupies 0.4 mmtimes0.5 mm in a standard 130 nm CMOS technology. A spurious-free dynamic range (SFDR) of more than 36 dB has been measured over the complete Nyquist interval at sampling frequencies up to 3 GS/s. The power consumption at a 3 GHz clock frequency for a near-Nyquist sinusoidal output signal equals 29 mW .
Denoising quadrature Doppler signals from bi-directional flow using the wavelet frame

A novel approach was proposed to denoise quadrature Doppler signals from bi-directional blood flow using the wavelet frame and a soft-thresholding algorithm. A direction separation step was carried out first to avoid the phase distortion of quadrature Doppler signals, which is induced from the nonlinear, soft-thresholding processing. Then real parts of separated complex signals from the unidirectional flow were denoised independently. The quadrature Doppler signals from the bi-directional flow were reconstructed from the denoised separated signals. The approach has been applied to the simulated Doppler signals from a femoral artery. It is concluded from the experimental results that this method is practical for denoising quadrature Doppler signals.
Significance of prediagnostic thyroid antibodies in women with autoimmune thyroid disease.

INTRODUCTION Antibodies to thyroglobulin (Tg), thyroperoxidase (TPO), and TSH receptor (TSH-R) are prevalent in autoimmune thyroid diseases. We aimed to assess whether females with Graves disease or Hashimoto thyroiditis are more likely than age-matched controls to have thyroid antibodies before clinical diagnosis and to measure the timing of antibody seroconversion. METHODS This was a nested case-control study using the Department of Defense Serum Repository and the Defense Medical Surveillance System, 1998-2007. We assessed thyroid antibodies in the serum of 522 female, active-duty, military personnel including: 87 Graves disease cases, 87 Hashimoto thyroiditis cases, and 348 age matched controls. One serum sample was available at the time of the clinical diagnosis (±6 months); three additional samples were retrieved from the repository up to 7 yr before the clinical diagnosis, for a total of 2088 samples. RESULTS In Hashimoto thyroiditis, TPO antibodies were found in about 66% of the cases at all time points. Tg antibodies showed a similar stationary trend, at a lower prevalence of about 53%at all time points. No TSH-R antibodies were found. In Graves disease, TPO antibodies gradually increased from 31% at 5-7 yr prior to diagnosis to 57% at diagnosis and Tg antibodies from 18 to 47%. TSH-R antibodies were present before diagnosis and showed an increasing prevalence from 2, 7, 20, to 55%. CONCLUSIONS Antibodies to Tg, TPO, and TSH-R precede by years the development of the diagnostic autoimmune thyroid diseases phenotype. Overall, the presence of thyroid antibodies in apparently healthy individuals should not be neglected.
Parse Correction with Specialized Models for Difficult Attachment Types

This paper develops a framework for syntactic dependency parse correction. Dependencies in an input parse tree are revised by selecting, for a given dependent, the best governor from within a small set of candidates. We use a discriminative linear ranking model to select the best governor from a group of candidates for a dependent, and our model includes a rich feature set that encodes syntactic structure in the input parse tree. The parse correction framework is parser-agnostic, and can correct attachments using either a generic model or specialized models tailored to difficult attachment types like coordination and pp-attachment. Our experiments show that parse correction, combining a generic model with specialized models for difficult attachment types, can successfully improve the quality of predicted parse trees output by several representative state-of-the-art dependency parsers for French.
Sensitive Amplified Immunoenzymometric Assays (IEMA) for Human Insulin and Intact Proinsulin

Immunoenzymometric assays (IEMAs) for human insulin and intact proinsulin were developed using the amplification system developed by Johannsson et al. (Clin. Chim. Acta 148 (1985) 119-124) for the detection of the enzyme alkaline phosphatase. The detection limit of the assays was 0.8 pmol/l for proinsulin and 0.8 pmol/l for insulin whereas it was 1.8 pmol/l and 2.3 pmol/l respectively for the homologous immunoradiometric assays (IRMA). These assays are superior to immunoradiometric assays in terms of sensitivity, shelf-life of the labelled antibody and suitability for automation.