gebhart/patrepeval huggingface dataset:
Lack of effect of antiviral therapy in nondividing hepatocyte cultures on the closed circular DNA of woodchuck hepatitis virus (1997)

The template for synthesis of hepadnaviral RNAs is a covalently closed circular (ccc) DNA located in the nucleus of the infected hepatocyte. Hepatocytes are normally long-lived and nondividing, and antiviral therapies in chronically infected individuals face the problem of eliminating not only the replicative forms of viral DNA found in the cytoplasm but also the cccDNA from the nucleus. Because cccDNA does not replicate semiconservatively, it is not an obvious target for antiviral therapy. However, elimination of cccDNA might be facilitated if its half-life were short in comparison to the generation time of hepatocytes and if new cccDNA formation were effectively blocked. We have therefore measured cccDNA levels in woodchuck hepatocyte cultures following in vitro infection with woodchuck hepatitis virus and treatment with inhibitors of viral DNA synthesis. The viral reverse transcriptase inhibitors lamivudine (3TC) [(-)-beta-L-2',3'-dideoxy-3'-thiacytidine), FTC (5-fluoro-2',3'-dideoxy-3'-thiacytidine) and ddC (2',3'-dideoxycytidine) were added to the cultures beginning at 4 days postinfection. Treatment for up to 36 days with 3TC reduced the amount of cccDNA in the cultures not more than twofold compared to that of an untreated control. Treatment with ddC for 36 days and with FTC for 12 days resulted in effects similar to that of treatment with 3TC. Moreover, the declines in cccDNA appeared to reflect the loss of hepatocytes from the cultures rather than of cccDNA from hepatocytes. These results emphasize the important role of the longevity of the infected hepatocytes in the persistence of an infection.
Background Modeling from GMM Likelihood Combined with Spatial and Color Coherency (2006)

This paper proposes to combine spatial and color coherency with the pixel-wise GMM to determine the background model. We first represent each pixel with a hybrid feature vector, which includes its GMM likelihood, color and spatial features, and estimate the density for each video frame by a non-parametric method. Next, we apply a clustering process to segment the video frame into clusters with similar hybrid features. Finally, we replace the background likelihood for each cluster with the GMM likelihood in the cluster mode. Hence, the resulting background model becomes a smoothed GMM in terms of spatial and color coherency. For accurate object detection, we develop an adaptive thresholding scheme using Markov random field. Moreover, in order to reduce the computational load, we also propose a filtering step to skip pixels from the time-consuming clustering process. Our experimental results and comparisons demonstrate that the proposed background model indeed achieves better detection results with accurate object contours even in dynamic scenes.
Hallmarks of the ageing lung (2015)

Ageing is the main risk factor for major non-communicable chronic lung diseases, including chronic obstructive pulmonary disease, most forms of lung cancer and idiopathic pulmonary fibrosis. While the prevalence of these diseases continually increases with age, their respective incidence peaks at different times during the lifespan, suggesting specific effects of ageing on the onset and/or pathogenesis of chronic obstructive pulmonary disease, lung cancer and idiopathic pulmonary fibrosis. Recently, the nine hallmarks of ageing have been defined as cell-autonomous and non-autonomous pathways involved in ageing. Here, we review the available evidence for the involvement of each of these hallmarks in the pathogenesis of chronic obstructive pulmonary disease, lung cancer, or idiopathic pulmonary fibrosis. Importantly, we propose an additional hallmark, "dysregulation of the extracellular matrix", which we argue acts as a crucial modifier of cell-autonomous changes and functions, and as a key feature of the above-mentioned lung diseases.
Development of a Two-Stage Pyrolysis Process for the End-Of-Life Nickel Cobalt Manganese Lithium Battery Recycling from Electric Vehicles (2020)

With the continuous promotion of electric vehicles, the pressure to scrap vehicle batteries is increasing, especially in China, where nickel cobalt manganese lithium (NCM) batteries have gradually come to occupy a dominant position in the battery market. In this study, we propose a two-stage pyrolysis process for vehicle batteries, which aims to effectively deal with the volatilization of organic solvents, the decomposition of lithium salts in the electrolyte and the removal of the separator material and polyvinylidene fluoride (PVDF) during battery recycling. By solving these issues, recycling is more effective, safe. Through thermogravimetric analysis (TGA), the pyrolysis characteristics of the battery’s internal materials are discussed, and 150 °C and 450 °C were determined as the pyrolysis temperatures of the two-stage pyrolysis process. The results show that in the first stage of pyrolysis, organic solvents EC (C4H3O3), DEC (C5H10O3) and EMC (C4H8O3) can be separated from the electrolyte. In the second stage, the pyrolysis can lead to the separator’s thermal decomposition. The gas products are alkane C2-C6, and the tar products are organic hydrocarbons C15-C36. Meanwhile, the solid residue of the battery’s internal material seems to be very homogeneous. Finally, the potential recovery value and pollution control countermeasures of the products and residues from the pyrolysis process are analyzed. Consequently, this method can effectively handle NCM vehicle battery recycling, which provides the basis for the subsequent hydrometallurgical or pyrometallurgical process for element recovery of the battery material.
Functional Disability 5 Years after Acute Respiratory Distress Syndrome (2011)

Exercise limitation, physical and psychological sequelae, decreased physical quality of life, and increased costs and use of health care services are important legacies of severe lung injury.
Real-time streaming video with adaptive bandwidth control and DCT-based error concealment (1999)

This work deals with dropped streaming video packets from the viewpoint of minimizing future dropped packets, as well as restoring data lost in packets already dropped, specifically geared toward real-time transmission of H.263+ bitstream. Minimization of future dropped packets is achieved by an adaptive least mean squares bandwidth (BW) controller predicting the available bandwidth supported by the Internet with relatively little loss. Restoration of lost video data is performed by a combination of error concealment (EC) techniques, including interpolation of border pixels in DCT domain. All algorithms presented are computationally inexpensive and thus suited for real-time video applications.
From Breast Cancer Immunobiology to Her-2 DNA Vaccine and Autoimmune Sequelae (2004)

The heterogeneous nature of breast cancer and the correlation of myeloid cell infiltration with accelerated tumor progression were recognized early in breast cancer immunology research using murine model systems induced by the mouse mammary tumor virus, chemical carcinogens or hormones. Distinct cell lines established from a single mammary tumor attest to the challenges of controlling tumors with such complexity. Here, we test the feasibility of controlling breast cancer by active vaccination targeting a shared tumor-associated antigen, human ErB-2 (Her-2). Her-2 DNA vaccines were constructed and Her-2 transgenic mice were established. DNA vaccination overcomes Her-2 tolerance to induce anti-tumor immunity which is amplified by the removal of regulatory T cells, but is accompanied by a significant risk of autoimmunity. Her-2 vaccines combined with appropriate immune modulation to trigger in vivo priming to other tumor-associated antigens will be the key to improved breast cancer control.
Quantitative Determination of Antibody to Gonococcal Pili. CHANGES IN ANTIBODY LEVELS WITH GONOCOCCAL INFECTION (1973)

Gonococcal pili, pure by the criteria of electron microscopic examination and polyacrylamide gel electrophoresis in sodium dodecyl sulfate, have been prepared by repeated cycles of precipitation with 0.1 M MgCl(2), followed by dissolution in 0.01 M Tris pH 8, 0.01 M NaN(3). Using a fluorescein-conjugated antibody prepared to pili from a single strain, pilar antigen(s) was found to be present in each of 18 strains of gonococci tested, and absent from strains of pilated meningococci, nonpathogenic Neisseria sp., and Escherichia coli. Purified pili, labeled with (125)I were used in an antigen binding assay to quantitatively measure antibody to pili in rabbit sera and in 561 human sera. The range of antibody activity for 133 persons unlikely to have experienced gonorrhea was 0.1-1.6 mug/ml with a geometric mean of 0.5 mug/ml. This geometric mean antibody activity was significantly lower than the geometric mean for asymptomatically infected males (1.0 mug/ml, P < 0.002), males with symptomatic gonococcal anterior urethritis (1.6 mug/ml, P < 0.001), or asymptomatically infected females (4.2 mug/ml, P < 0.001). Antibody appeared in elevated levels (> 1.6 mug/ml) 2-3 wk after infection and returned toward control levels 1 or more months after treatment. Antibody levels higher than 1.6 mug/ml were found in 26 (50%) of 52 males with gonococcal anterior urethritis, in 10 (33%) of 30 males with asymptomatic urethral infection and in 50 (89%) of 56 asymptomatically infected females. In a high-risk group of 103 females for whom culture results and antibody to pili were compared, 58 (57%) had elevated antibody levels to pili and 86% of the infected females were within this seropositive group. The antigen binding assay may provide a means to detect asymptomatic gonococcal infection in women.
High-speed arithmetic coder/decoder architectures (1993)

The design of fast decoders using a novel interval tree search method is presented. The decoder can be modeled as a FSM (finite state machine), enabling the application of the look-ahead technique to achieve higher speeds. The look-ahead approach leads to slight degradation in performance, in terms of the adder/subtractor delay in the coder/decoder due to increased word lengths. The performance of the decoder is improved by using redundant arithmetic. The tree search method combined with redundant arithmetic and look-ahead leads to desired speedups without any degradation in performance.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
A Comparative Analysis of Manual and Computer Constant Comparison Methods: Using Data from a Constructivist Inquiry of Experiences Working with Ethnic Agencies (2012)

A dilemma one may face in analyzing qualitative data is whether to use a manual approach with index cards or a computer data management tool like ATLAS.ti. This paper compares the two approaches in organizing and analyzing data using the same data set. The data were collected and first analyzed in a constructivist inquiry course according to the methods laid out by Rodwell (1998). This process involved unitizing data onto index cards and these cards were then sorted into categories during the constant comparison process. Later, the same data were linked to ATLAS.ti where they were unitized and categorized simultaneously. Constant comparison took place when all the data were coded. A comparison of the two methods allowed the author to determine the strengths and limitations for the various stages of constant comparison.
Four new human germ cell tumor cell lines. (1988)

Four new human tumor cell lines, NCC-EC-1, NCC-EC-2, NCC-EC-3, and NCC-IT, were derived from different germ cell tumors established in vitro. On the basis of morphologic studies of cell cultures and nude mice xenografts, it was concluded that NCC-EC-1, and NCC-EC-2 cell lines are equivalent to developmentally nullipotent embryonal carcinoma; cell line NCC-EC-3 showed trophoblastic differentiation, whereas the NCC-IT cell line was composed of developmentally pluripotent cells capable of somatic and extraembryonic differentiation. Nude mouse-xenografts of NCC-IT contained foci of embryonal carcinoma, yolk sac tumor, immature somatic tissues, and trophoblastic giant cells indicating that this cell line is indeed developmentally pluripotent. We conclude that human embryonal carcinoma cell lines may be developmentally nullipotent, show restricted capacity for differentiation, or be developmentally pluripotent.
On focusing of shock waves (2007)

Both experimental and numerical investigations of converging shock waves have been performed. In the experiments, a shock tube was used to create and study converging shock waves of various geometrical shapes. Two methods were used to create polygonally shaped shocks. In the first method, the geometry of the outer boundary of the test section of the shock tube was varied. Four different exchangeable shapes of the outer boundary were considered: a circle, a smooth pentagon, a heptagon, and an octagon. In the second method, an initially cylindrical shock wave was perturbed by metal cylinders placed in various patterns and positions inside the test section. For three or more regularly spaced cylinders, the resulting diffracted shock fronts formed polygonal shaped patterns near the point of focus. Regular reflection was observed for the case with three cylinders and Mach refection was observed for cases with four or more cylinders. When the shock wave is close to the center of convergence, light emission is observed. An experimental investigation of the light emission was conducted and results show that the shape of the shock wave close to the center of convergence has a large influence on the amount of emitted light. It was found that a symmetrical polygonal shock front produced more light than an asymmetrical shape. The shock wave focusing was also studied numerically using the Euler equations for a gas obeying the ideal gas law with constant specific heats. Two problems were analyzed; an axisymmetric model of the shock tube used in the experiments and a cylindrical shock wave diffracted by cylinders in a two dimensional test section. The results showed good agreement with the experiments. The temperature field from the numerical simulations was investigated and shows that the triple points behind the shock front are hot spots that increase the temperature at the center as they arrive there. As a practical example of shock wave focusing, converging shocks in an electrohydraulic lithotripter were simulated. The maximum radius of a gas bubble subjected to the pressure field obtained from the lithotripter was calculated and compared for various geometrical shapes and materials of the reflector. Results showed that the shape had a large impact while the material did not influence the maximum radius of the gas bubble.
A simple method for enriching the enantiomeric purity of a functional molecule already rich in one enantiomer (1994)

1-Naphth-1-ylethanol 1 of 92% enantiomeric excess (e.e.) can be raised to 99.6% e.e. in an overall yield of 78% by attaching it to oxalyl chloride, separating the lk diester from the ul by crystallisation, and hydrolysing the diester; the method is potentially general for functional molecules that can easily be attached to and then taken off a bifunctional reagent.
OPTICAL COHERENCE TOMOGRAPHY-RASTER SCANNING AND MANUAL SEGMENTATION IN DETERMINING DRUSEN VOLUME IN AGE-RELATED MACULAR DEGENERATION (2010)

Drusen volume as determined by spectral domain-OCT correlates with AREDS-determined drusen area and AREDS grade in nonexudative AMD. The correlation is not perfect, however, because drusen area and volume average 40% and 82% of the variation, respectively. Drusen volume can provide additional information in grading the severity of eyes with dry AMD.
Copula sensitivity in collateralized debt obligations and basket default swaps (2003)

Abstract This article empirically faces the lively debate over the choice of an appropriate copula function to be used to price and risk monitor some credit derivatives products. We consider the explicit pricing of collateralized debt obligations and basket default swaps, and empirically examine these credit derivatives within the copula framework. The results support in particular the choice of the T‐copula because of its greater flexibility in capturing the tail dependence. © 2004 Wiley Periodicals, Inc. Jrl Fut Mark 24:37–70, 2004
Recognition of Medicinal Efficacy of Pepper as an Introduced Species in Traditional Medicine (2012)

The aim of this study is to look at how pepper was used in traditional medicine. In other words, this study aims to take a look at the process by which the medicinal nature & efficacy of pepper in traditional society was perceived and arranged through the aspects of the use of pepper as an exotic crop for treating diseases. This study investigated cases of using pepper for medical treatments by referring to books on traditional medicine in Korea. The old records about pepper are mainly in empirical medical books from the late Chosun dynasty. Nevertheless, the records about pepper tend to decrease in medical text as time goes by. Such a phenomenon can be attributable to the fact that people began to use pepper for daily food life rather than for medicinal purposes. Pepper was used mostly for digestive trouble such as vomiting, diarrhea, and stomachaches, and it was also applied to mental and aching diseases caused by the sound of body fluids remaining in the stomach. In addition, there were many cases where pepper was used externally for surgical disorders. Such symptoms for treatment are linked to, or in a complementary relationship with, research results in modern times. Boiled pepper was generally taken in the traditional herbal decoction method, and in the case of surgical diseases, it was applied externally. The cases of using old pepper, using pepper with seeds or without seeds, and using pepper mixed with sesame oil belong to a sort of herbal medicine processing, which usually aimed at changing the medicinal nature of pepper. In addition, in relation to the eating habits at that time, pepper was used as seasoning and to make red pepper paste with or without vinegar. There are two words used for pepper in the medical textbooks, 苦椒 (gocho) and 烈棗 (yeoljo). These words are translated into Korean as gochu, so we can identify this word as a nickname for pepper.
Evaluating structured I/O methods for parallel file systems (2004)

Modern data-intensive structured datasets constantly undergo manipulation and migration through parallel scientific applications. Directly supporting these time-consuming operations is an important step in providing high-performance I/O solutions for modern large-scale applications. High-level interfaces such as HDF5 and parallel netCDF provide convenient APIs for accessing structured datasets, and the MPI IO interface also supports efficient access to structured data. Parallel file systems do not traditionally support such structured access from these higher level interfaces. In this work, we present two contributions. First, we demonstrate an implementation of structured data access support in the context of the Parallel Virtual File System (PVFS). We call this support 'datatype I/O' because of its similarity to MPI datatypes. This support is built with a reusable datatype-processing component from the MPICH2 MPI implementation. The second contribution of this work is a comparison of I/O characteristics of modern high-performance noncontiguous I/O methods.We use our I/O characteristics comparison to assess all the methods using three test applications. We also point to further optimisations that could be leveraged for even more efficient operation.
Inhibition of mTOR Signaling Enhances Maturation of Cardiomyocytes Derived From Human-Induced Pluripotent Stem Cells via p53-Induced Quiescence (2019)

Transient treatment of human iPSC-derived cardiomyocytes with Torin1 shifts cells to a quiescent state and enhances cardiomyocyte maturity.
Suppression of Immune Responses by CD8 Cells. II. Qa-1 on Activated B Cells Stimulates CD8 Cell Suppression of T Helper 2 Responses (1998)

We have investigated the role of MHC class I products and CD8 T cells in regulating Ab responses using beta2-microglobulin deficient (beta2m-/-) mice. Beta2m-/- mice produced stronger IgM and IgG responses than did control beta2m+/+ mice to both cellular and viral Ags. These Ab responses could be suppressed by infusion of activated B cells from beta2m+/+ mice. Further investigation showed that the beta2m-associated molecule on activated B cells that induced CD8 suppression was Qa-1 and that the Th2 component of CD4 cells was most affected by CD8-suppressive activity. Our findings suggest a novel pathway of Th inhibition in which B cell presentation of Qa-1-associated peptides stimulates CD8 suppressive activity.
Interleukin-13 Stimulates the Transcription of the Human α2(I) Collagen Gene in Human Dermal Fibroblasts (2004)

Interleukin (IL)-13 is a novel lymphokine produced by activated Type 2 helper cells. In this study, we examined the target genes of IL-13 by the cDNA microarray analysis in human dermal fibroblasts. We focused on the human alpha2(I) collagen gene, which was one of the IL-13-induced genes by the microarray analysis. IL-13 induced type I collagen protein as well as mRNA in a dose-dependent manner. Actinomycin D, an RNA synthesis inhibitor, significantly blocked the IL-13-mediated up-regulation of alpha2(I) collagen mRNA expression, whereas cycloheximide, a protein synthesis inhibitor, did not block this up-regulation. In addition, IL-13 treatment induced the promoter activity of alpha2(I) collagen by nuclear run-on transcription assay and chloramphenicol acetyltransferase assay. IL-13-mediated transcriptional activation of alpha2(I) collagen gene or type I collagen protein up-regulation was inhibited by the treatment of fibroblasts with a selective phosphoinositide 3-kinase (PI3K) inhibitor, LY294002, or STAT6 antisense oligonucleotide, but not by PD98059, a specific inhibitor of MEK/ERK, or SB202190 or SB203580, specific inhibitors of p38 MAPK; IL-13 induced the phosphorylation of PI3K p85 regulatory subunit and STAT6. These results suggest that IL-13 may play a role in the regulation of extracellular matrix and indicate the possible therapeutic value of the blockade of IL-13 signaling pathways via PI3K and STAT6 in fibrosis.
Chromatic dispersion measurement of a single-mode fibre by improved optical heterodyne interferometry (1985)

The chromatic dispersion of a single-mode fibre is successfully measured by means of an optical heterodyne detection method with temporal resolution of 0.01 ps. The heterodyne signal is detected at the near end of the fibre of length approximately 1 m using laser diodes operating in the 1.19–1.51 μm wavelength region.