gebhart/patrepeval huggingface dataset:
Simultaneous detection and typing of genital human papillomavirus DNA using the polymerase chain reaction (1991)

A simple method has been developed for detecting a broad range of genital human papillomavirus (HPV) types using the polymerase chain reaction (PCR). We utilized two consensus sequence primer pairs within the E6 and E7 open reading frames to amplify HPV DNA; malignant HPV DNA (from HPV-16, -18, -31, -33, -52b and -58) was amplified using the pU-1M/pU-2R primer pair whereas benign HPV DNA (from HPV-6 and -11) was amplified using the pU-31B/pU-2R primer pair. Identification of the amplification product was confirmed by restriction enzyme digestion. In this study, a pU-1M/pU-2R-mediated PCR was successfully applied to 39 cervical carcinoma specimens; HPV-16 was detected in 19 cases, HPV-18 in five cases, HPV-31 in two cases, HPV-33 in two cases, HPV-52b in one case, HPV-58 in three cases, and an unknown type(s) was detected in four cases. Overall, the prevalence of HPV was 84.6%. The results indicate that this detection system is useful for the detection of HPVs not only of known types but also of new types.
Naegleria: A Research Partner For Cell and Developmental Biology1 (1993)

ABSTRACT. Organisms in the genus Naegleria offer special opportunities for research in contemporary biology. the dramatic cell differentiation from amebae to flagellates is unique among eukaryotes in the rapidity, synchrony, reproducibility, homogeneity, and accessibility of a major phenotypic change. Environmental signals initiate a progressive signal transduction pathway in which genes are turned on, including those for several calcium‐binding proteins, and newly synthesized proteins become localized in newly assembled organelles, including the centriole‐like basal bodies, with the overall consequence that the cell changes its shape, motility, and behavior. This essay reviews research opportunities for which Naegleria excels, as well as interesting aspects of its biology that provide challenges for future investigations. Because these organisms alternate between two major eukaryotic motility forms, their phylogenetic position is also provocative. Although there are hints that Naegleria is capable of sexual reproduction in nature, mating has not yet been observed in the laboratory. In order to fully exploit the opportunities offered by this wonderful experimental system we are working to develop means to do genetic manipulation, in particular via DNA‐mediated transformation.
Protective efficacy of Zika vaccine in AG129 mouse model (2017)

Zika virus (ZIKV) is a mosquito-borne flavivirus that causes asymptomatic infection or presents only mild symptoms in majority of those infected. However, vaccination for ZIKV is a public health priority due to serious congenital and neuropathological abnormalities observed as a sequelae of the virus infection in the recent epidemics. We have developed an inactivated virus vaccine with the African MR 766 strain. Here we show that two doses of the vaccine provided 100% efficacy against mortality and disease following challenge with homotypic MR 766 and the heterotypic FSS 13025 ZIKV strains in the Type I and Type II interferon deficient AG129 mice. Two doses of the vaccine elicited high titer of neutralizing antibodies in Balb/c mice, and the vaccine antisera conferred protection against virus challenge in passively immunized mice. The studies were useful to rationalize vaccine doses for protective efficacy. Furthermore, the vaccine antisera neutralized the homotypic and heterotypic ZIKV strains in vitro with equivalent efficiency. Our study suggests a single ZIKV serotype, and that the development of an effective vaccine may not be limited by the choice of virus strain.
Neonatal Genistein Chemoprevents Mammary Cancer (1995)

We have investigated the potential of genistein, an estrogenic component of soy, when administered neonatally, to manifest a protective effect against chemically induced mammary cancer. Female Sprague-Dawley rats were treated on Day 2, 4, and 6 postpartum with genistein or dimethylsulfoxide (vehicle). To induce mammary carcinogenesis, all animals were subsequently exposed on Day 50 postpartum to dimethylbenz(a)anthracene. Animals treated neonatally with genistein had increased latency and reduced incidence and multiplicity of mammary tumors compared with vehicle-treated animals. Cell differentiation studies in mammary whole mounts revealed that neonatal genistein treatment resulted in decreased numbers of terminal end buds and increased numbers of lobular structures. A precocious maturation of undifferentiated terminal end buds to more differentiated lobules may account for neonatal genistein treatment protecting against chemically induced mammary cancer.
CPAP for Prevention of Cardiovascular Events in Obstructive Sleep Apnea (2016)

Therapy with CPAP plus usual care, as compared with usual care alone, did not prevent cardiovascular events in patients with moderate-to-severe obstructive sleep apnea and established cardiovascular disease. (Funded by the National Health and Medical Research Council of Australia and others; SAVE ClinicalTrials.gov number, NCT00738179 ; Australian New Zealand Clinical Trials Registry number, ACTRN12608000409370 .).
The physiology of seed hydration and dehydration, and the relation between water stress and the control of germination: a review (1978)

Abstract Current interest in seed hydration treatments for the improvement of level, rate and uniformity of germination or field emergence has revealed how little is known of the physiology of germination control under water stress. This review surveys briefly the responses of seeds held at different hydration levels, from normal germination in a free water supply to seed activation without germination under slight moisture stress, seed deterioration at greater moisture stress and the damage that can be caused to seeds in very dry conditions, as well as the responses to subsequent dehydration. Inhibition of germination, though not of seed activation, at certain levels of water stress is likened to various forms of dormancy, and the mechanism governing the initiation of cell elongation is suggested as the possible key to control over germination. Several lines of evidence on cell membrane integrity and action, and their responses to external factors, point to the role that the membrane may play in cell elongation (and hence germination) control, and membrane integrity may also be associated with the transition between seed deterioration at one hydration level and seed activation and repair at slightly higher hydration levels. Seed activation without germination is also considered in an ecological context.
A novel missense mutation in lysosomal sulfamidase is the basis of MPS III A in a spontaneous mouse mutant (2001)

Sanfilippo syndrome type III A (Mucopolysaccharidosis (MPS) III A) is a rare, autosomal recessive, lysosomal storage disease, characterized by the accumulation of heparan sulfate and the loss of function of lysosomal heparan N-sulfatase activity. The disease leads to devastating mental and physical consequences and a mouse model that can be used to explore gene therapy and enzyme or cell replacement therapies is needed. We have previously identified a mouse with low sulfamidase activity and symptoms and pathologies typical of MPS III A (Bhaumik, M., Muller, V. J., Rozaklis, T., Johnson, L., Dobrenis, K., Bhattacharyya, R., Wurzelmann, S., Finamore, P., Hopwood, J. J., Walkley, S. U., and Stanley, P. [1999] A mouse model for mucopolysaccharidosis type III A (Sanfilippo syndrome). Glycobiology 9, 1389--1396). We now show that the sulfamidase gene of the MPS III A mouse carries a novel mutation (G91A) that gives an amino acid change (D31N) likely to interfere with the coordination of a divalent metal ion in the active site of this sulfatase. This spontaneous mouse mutant is an excellent model for MPS III A in humans as this disease often arises due to a missense mutation in lysosomal sulfamidase.
Altered Stoichiometry of FKBP12.6 Versus Ryanodine Receptor as a Cause of Abnormal Ca2+ Leak Through Ryanodine Receptor in Heart Failure (2000)

Background—In the pathogenesis of cardiac dysfunction in heart failure, a decrease in the activity of the sarcoplasmic reticulum (SR) Ca2+-ATPase is believed to be a major determinant. Here, we report a novel mechanism of cardiac dysfunction revealed by assessing the functional interaction of FK506–binding protein (FKBP12.6) with the cardiac ryanodine receptor (RyR) in a canine model of pacing-induced heart failure. Methods and Results—SR vesicles were isolated from left ventricular muscles (normal and heart failure). The stoichiometry of FKBP12.6 per RyR was significantly decreased in failing SR, as assessed by the ratio of the Bmax values for [3H]dihydro-FK506 to those for [3H]ryanodine binding. In normal SR, the molar ratio was 3.6 (≈1 FKBP12.6 for each RyR monomer), whereas it was 1.6 in failing SR. In normal SR, FK506 caused a dose-dependent Ca2+ leak that showed a close parallelism with the conformational change in RyR. In failing SR, a prominent Ca2+ leak was observed even in the absence of FK506, ...
Direct ln Situ Single-Copy (DISC)-PCR (2003)

The physical mapping of functional genes and polymorphic markers is obviously important for understanding genome organization in higher organisms. Fluorescence in situ hybridization of labeled DNA to metaphase chromosome spreads has been a very effective means of accomplishing this goal (1,2), but it is difficult to routinely detect sequences <3–5 kb in length using this technique (3). Since the polymerase chain reaction (PCR) (4) provides a means to amplify a single copy of DNA to literally hundreds of thousands of copies in a short time, in principle it could be utilized to detect very short sequences directly on metaphase chromosomes. It has been demonstrated that PCR can be performed on the surface of a slide containing cells (5) and that the PCR process can incorporate biotin-dUTP into the amplification product (6). On-slide PCR with a single primer has been used to detect low-copy sequences on metaphase chromosomes (3). Oligonucleotide premed in situ synthesis (PRINS) (7), in which an oligonucleotide is annealed to denatured chromosomes and extended by a DNA polymerase, has also proven to be an effective method to detect low-copy sequences.
A 32 nm SoC With Dual Core ATOM Processor and RF WiFi Transceiver (2012)

An × 86 standard operating system compliant System-on-Chip (SoC) with a dual core ATOM processor and a custom interconnect fabric to enable modular design is presented. The 32 nm SoC includes integrated PCI-e Gen 2, DDR3, legacy I/O, voltage regulators, clock generation, power management, memory controller and RF portion of a WiFi transceiver in a 32 nm high-k/metal-gate RF CMOS process with high resistivity substrate. The integrated RF transceiver for 2.4 GHz 802.11g operation achieves a receive sensitivity of -74 dBm, -8 dBm IIP3 and a transmit output power of 20.3 dBm (-25 dB EVM) at 14% TX RF efficiency.
Role of the Insulin-like Growth Factors and Their Binding Proteins in Lactation (1998)

Insulin-like growth factor (IGF)-I is thought to mediate a portion of the effects of bST on lactation in dairy cows. Serum concentrations of IGF-I are increased in lactating cows that were treated with bST, and IGF-I receptors are present in bovine mammary tissue. In addition, close arterial infusion of IGF-I into the mammary gland of goats increases milk yield. Little evidence exists to support a direct galactopoietic effect of IGF-I in ruminants. However, IGF-I is a potent mitogen for mammary epithelial cells and may also influence the inhibition of apoptosis of this cell type. The IGF are found in association with a family of individual binding proteins. The high affinity of the IGF for these proteins relative to the IGF receptor allows them to modulate IGF-I bioactivity in the mammary gland at the cellular level. Mammary epithelial cells synthesize multiple forms of IGF binding proteins, and one of these, IGF binding protein-3, is specifically regulated by the IGF. Stimulation of DNA synthesis by IGF-I is enhanced in bovine mammary epithelial cells that overexpress the IGF binding protein-3. These data indicate that IGF-I can stimulate the synthesis of an IGF binding protein, which enhances its own mitogenic activity. However, whether this mechanism is operative in the lactating mammary gland in vivo is unknown. Given the complexity of the interactions between the IGF and their binding proteins, more information is needed before the role of these growth factors in regulating growth, differentiation, and apoptosis of mammary epithelial cells is delineated.
Computationally efficient face detection (2002)

This paper describes an algorithm for finding faces within an image. The basis of the algorithm is to run an observation window at all possible positions, scales and orientation within the image. A non-linear support vector machine is used to determine whether or not a face is contained within the observation window. The non-linear support vector machine operates by comparing the input patch to a set of support vectors (which can be thought of as face and anti-face templates). Each support vector is scored by some nonlinear function against the observation window and if the resulting sum is over some threshold a face is indicated. Because of the huge search space that is considered, it is imperative to investigate ways to speed up the support vector machine. Within this paper we suggest a method of speeding up the non-linear support vector machine. A set of reduced set vectors (RVs) are calculated from the support vectors. By considering the RV's sequentially, and if at any point a face is deemed too unlikely to cease the sequential evaluation, obviating the need to evaluate the remaining RVs. The idea being that we only need to apply a subset of the RVs to eliminate things that are obviously not a face (thus reducing the computation). The key then is to explore the RVs in the right order and a method for this is proposed.
THE USE OF FIBRIN FILM AS A DURAL SUBSTITUTE (1945)

The need for a material which acts as a substitute for excised or injured dura mater and at the same time prevents meningocerebral adhesions has long been one of the most pressing in neurologic surgery. Numerous dural substitutes have been tried with varying degrees of success. On long-range study not one has proved adequate to fill these requirements.<sup>1</sup>In spite of this, the results secured when no material is employed have been so unsatisfactory that most neurosurgeons prefer to use one or another of the available dural substitutes, whatever their shortcomings may be. In the course of a program devoted to the fractionation of human blood plasma,<sup>2</sup>large quantities of human fibrinogen and thrombin have become available.<sup>3</sup>From these proteins it has been possible to prepare a material, fibrin film,<sup>4</sup>which has been subjected to experimental and clinical trial as a dural substitute.<sup>5</sup> A variety
评Д.马尔科维奇的《社会生态学》 (1997)

评Д．马尔科维奇的《社会生态学》〔俄〕Ｐ．雅诺夫斯基Ｋ．舍林由之译１９９６年在莫斯科出版的丹尼洛马尔科维奇的《社会生态学》（共４４０页），从篇幅和书中涉及问题的范围而言，都是一部有重要意义的著作，它实际上不仅总结了社会生态学，而且从更广泛的角度说，...
Platelet aggregation inhibitors. X. S-substituted 2-thioadenosines and their derivatives. (1977)

A series of S-substituted 2-thioadenosines (IV) were prepared by treatment of 2-thioadenosine (III) with a requisite halide in NaOH-H2O, NaOH-H2O-EtOH, Na/dimeth-ylformamide, NaOMe/dimethylformamide or NaH/dimethylformamide. N-Substituted 2-aminoadenosines (V) were obtained by treatment of 2-chloroadenosine (II) with a requisite amine. Compounds (IV and V) and N-oxide derivatives of them were tested as inhibitors of adenosine 5'-diphosphate- and collagen-induced rabbit platelet aggregation. 2-Cycloalkyl- or 2-polycycloalkylthioadenosines (IV7-9), water-soluble 2-piperazino-ethylthioadenosines (IV16-19) and 2-thioadenosine N-oxide (X2) were found effective. Most of them showed long lasting activity during the incubation with rabbit plasma. Compounds (IV7-9) were also inhibitory against human platelet aggregation.
The pathophysiology of the hemolytic uremic syndrome (1999)

The hemolytic uremic syndrome is an important cause of acute renal failure and leads to substantial morbidity and mortality. In pediatric patients, the hemolytic uremic syndrome usually follows hemorrhagic colitis caused by verocytotoxin-producing Escherichia coli. Several well-publicized outbreaks of hemorrhagic colitis and hemolytic uremic syndrome have highlighted the morbidity and mortality of infection with verocytotoxin-producing Escherichia coli. Recent studies have further demonstrated the role of verocytotoxins in mediating renal cell injury and the mechanisms of verocytotoxin cell injury. Although the endothelial cell appears to be the major target of verocytotoxin-mediated cell injury, studies have also shown that mesangial cells, renal tubular epithelial cells, monocytes and cells derived from the monocytic cell line are also targets of verocytotoxin-mediated biological effects. It has also been shown that inflammatory cytokines are likely to play an important role in hemolytic uremic syndrome. Serum levels of IL-8 and TNF-alpha are elevated in hemolytic uremic syndrome and verocytotoxins promote the generation of inflammatory cytokines from monocytes and monocyte-derived cell lines. These new findings have important implications for current therapy and potential future therapy of hemolytic uremic syndrome.
Structure‐based protein engineering for α‐amylase inhibitory activity of plant defensin (2007)

The structure of a novel plant defensin isolated from the seeds of the mung bean, Vigna radiate, has been determined by (1)H nuclear magnetic resonance spectroscopy. The three-dimensional structure of VrD2, the V. radiate plant defensin 2 protein, comprises an alpha-helix and one triple-stranded anti-parallel beta-sheet stabilized by four disulfide bonds. This protein exhibits neither insecticidal activity nor alpha-amylase inhibitory activity in spite of showing a similar global fold to that of VrD1, an insecticidal plant defensin that has been suggested to function by inhibiting insect alpha-amylase. Our previous study proposed that loop L3 of plant defensins is important for this inhibition. Structural analyses and surface charge comparisons of VrD1 and VrD2 revealed that the charged residues of L3 correlate with the observed difference in inhibitory activities of these proteins. A VrD2 chimera that was produced by transferring the proposed functional loop of VrD1 onto the structurally equivalent loop of VrD2 supported this hypothesis. The VrD2 chimera, which differs by only five residues compared with VrD2, showed obvious activity against Tenebrio molitor alpha-amylase. These results clarify the mode of alpha-amylase inhibition of plant defensins and also represent a possible approach for engineering novel alpha-amylase inhibitors. Plant defensins are important constituents of the innate immune system of plants, and thus the application of protein engineering to this protein family may provide an efficient method for protecting against crop losses.
The chemiluminescence of a firefly luciferin analogue (1968)

F. McCapra, Y. C. Chang and V. P. Francois, Chem. Commun. (London), 1968, 22 DOI: 10.1039/C19680000022
Exosomes: proteomic insights and diagnostic potential (2009)

Exosomes are 40-100-nm diameter membrane vesicles of endocytic origin that are released by most cell types upon fusion of multivesicular bodies with the plasma membrane, presumably as a vehicle for cell-free intercellular communication. While early studies focused on their secretion from diverse cell types in vitro, exosomes have now been identified in body fluids such as urine, amniotic fluid, malignant ascites, bronchoalveolar lavage fluid, synovial fluid, breast milk, saliva and blood. Exosomes have pleiotropic biological functions, including immune response, antigen presentation, intracellular communication and the transfer of RNA and proteins. While they have also been implicated in the transport and propagation of infectious cargo, such as prions, and retroviruses, including HIV, suggesting a role in pathological situations, recent studies suggest that the presence of such infectious cargo may be artefacts of exosome-purification strategies. Improvements in mass spectrometry-based proteomic tools, both hardware and software, coupled with improved purification schemes for exosomes, has allowed more in-depth proteome analyses, contributing immensely to our understanding of the molecular composition of exosomes. Proteomic cataloguing of exosomes from diverse cell types has revealed a common set of membrane and cytosolic proteins, suggesting the evolutionary importance of these membrane particles. Additionally, exosomes express an array of proteins that reflect the originating host cell. Recent findings that exosomes contain inactive forms of both mRNA and microRNA that can be transferred to another cell and be functional in that new environment, have initiated many microRNA profiling studies of exosomes circulating in blood. These studies highlight the potential of exosomal microRNA profiles for use as diagnostic biomarkers of disease through a noninvasive blood test. The exacerbated release of exosomes in tumor cells, as evidenced by their increased levels in blood during the late stage of a disease and their overexpression of certain tumor cell biomarkers, suggests an important role of exosomes in diagnosis and biomarker studies. The aim of this article is to provide a brief overview of exosomes, including methods used to isolate and characterize exosomes. New advances in proteomic methods, and both mass spectrometry hardware and informatics tools will be covered briefly.
Ablation of Atrial Fibrillation Using an Irrigated‐Tip Catheter: Open or Closed? (2012)

Peer Reviewed
Amplified, frequency swept lasers for frequency domain reflectometry and OCT imaging: design and scaling principles (2005)

We demonstrate a high-speed, frequency swept, 1300 nm laser source for frequency domain reflectometry and OCT with Fourier domain/swept-source detection. The laser uses a fiber coupled, semiconductor amplifier and a tunable fiber Fabry-Perot filter. We present scaling principles which predict the maximum frequency sweep speed and trade offs in output power, noise and instantaneous linewidth performance. The use of an amplification stage for increasing output power and for spectral shaping is discussed in detail. The laser generates ~45 mW instantaneous peak power at 20 kHz sweep rates with a tuning range of ~120 nm full width. In frequency domain reflectometry and OCT applications the frequency swept laser achieves 108 dB sensitivity and ~10 mum axial resolution in tissue. We also present a fast algorithm for real time calibration of the fringe signal to equally spaced sampling in frequency for high speed OCT image preview.
On the use of Machine Learning to Defeature CAD Models for Simulation (2013)

Computer-Aided Design and Applications is an international journal on the applications of CAD and CAM. It publishes papers in the general domain of CAD plus in emerging fields like bio-CAD, nano-CAD, soft-CAD, garment-CAD, PLM, PDM, CAD data mining, CAD and the internet, CAD education, genetic algorithms and CAD engines. The journal is aimed at all developers and users of CAD technology to ptovide CAD solutions for various stages of design and manufacturing. The journal publishes all about Computer-Aided Design and Computer-Aided technologies.