gebhart/patrepeval huggingface dataset:
The cloned genome of ground squirrel hepatitis virus is infectious in the animal. (1984)

The lack of an in vitro infectivity assay for hepatitis B viruses has impeded the analysis of their genetic organization. To examine the feasibility of generating mutant and recombinant viruses after manipulation of cloned viral DNA in vitro, we have tested the infectivity of the cloned genome of ground squirrel hepatitis virus (GSHV) in virus-free Beechey ground squirrels. We demonstrate that cloned GSHV DNA is infectious when injected directly into the liver in the form of trimeric, head-to-tail recombinant clones and recircularized monomeric molecules but not when injected into the portal vein. Infections established in all four recipients of intrahepatic injections of cloned GSHV DNA exhibited the characteristics observed after administration of virus: GSHV surface antigen and viral DNA appeared in the serum 14-22 weeks after inoculation, and both circular and heterogeneous protein-linked forms of viral DNA were found in liver biopsy samples. Furthermore, virus present in the sera of these animals can be transmitted to other ground squirrels. These findings imply that any function of virion proteins in the initiation of infection by hepatitis B viruses can be bypassed with the use of cloned viral DNA and that this animal model is suitable for testing mutant genomes.
Drug Therapy in Stroke: From Preclinical to Clinical Studies (2013)

New advancing investigational drugs for the prevention and treatment of stroke are on the way and may someday give hope to neuroscientists and clinicians. A novel approach should adopt preclinical testing, advance the understanding of the pathophysiology of stroke and make it possible to translate it from bench to bedside. We should learn from the past failures and move on with more enthusiasm.
Fluorescence lifetime imaging: multi-point calibration, minimum resolvable differences, and artifact suppression (2001)

The multi-point calibration method is applicable to any system consisting of single-component lifetimes. Applying the method in our FLIM microscope allowed us to demonstrate a previously unreported degree of lifetime resolution in a FLIM microscope. Cytometry 43:248-260;2001.
Identification of a Charging Mechanism Using Infrared Spectroscopy (1979)

The working medium in an electrophoretic image display (EPID) is a colloidal dispersion of charged organic pigment particles in a dyed organic medium. This suspension is sandwiched between two transparent electrodes. The display utilizes the movement of these charged particles in an electric field. Displacement of the negatively charged particles toward the front electrode allows the viewer to see the color of the particles, whereas the dyed medium is seen when the particles are moved to the rear electrode. The particles are charged through the addition of an organic dispersant, which serves the additional function of providing steric stabilization for the particles. Creating a stable charge on the pigment particles is essential to the operation of the display. With the use of infrared spectroscopy, the mechanism through which the dispersant reacts with surface of the pigment particles to generate a charge was identified. One of the charged species resulting from an acid/base type interaction between pigment and dispersant was identified with a Perkin-Elmer infrared spectrophotometer. Simpler models of both the acidic pigment and the basic dispersant were also reacted in the same manner in the same solvent system and analyzed using infrared spectroscopy. Results from the model systems support the analysis of the data on the more complicated pigment/dispersant system.
Measurement and Reconstruction of Impulse Train by Parallel Exponential Filters (2008)

In many areas of science and technology, the measurement of impulse trains is an important sampling scheme. For example, wireless data transmission has grown enormously due to the recent developments in ultra wide band technology, where the information is represented as impulse trains. In this letter, we present a new approach for sampling of the impulse train using parallel exponential filters (EFs), whose outputs are measured simultaneously. We show that with parallel EFs, it is possible to reconstruct impulses with different amplitudes and appearance times within one sampling period. The reconstruction algorithm is manageable on microprocessor and VLSI circuits. Several applications of the parallel EF network are outlined.
Variation of gonococcal lipooligosaccharide structure is due to alterations in poly-G tracts in lgt genes encoding glycosyl transferases. (1996)

The lipooligosaccharide (LOS) expressed by gonococci spontaneously varies its structure at high frequency, but the underlying genetic mechanism has not been described. We have previously reported that the genes encoding the glycosyl transferases responsible for the biosynthesis of the variable alpha chain of the LOS of Neisseria gonorrhoeae are located in a locus containing five genes, lgtA, lgtB, lgtC, lgtD, and lgtE. Sequence analysis showed that lgtA, lgtC, and lgtD contained poly-G tracts within the coding frames, leading to the hypothesis that shifts in the number of guanosine residues in the poly-G tracts might be responsible for the high frequency variation in structure of gonococcal LOS. We now provide experimental evidence confirming this hypothesis.
Funding of energy regulatory commissions (2004)

In the last ten years more than 200 infrastructure regulators have been established around the world. Generally, the new regulators were created to encourage private investment in infrastructure sectors that previously were almost entirely state-owned. In almost every instance, the stated goal was to create a new regulatory entity that was independent and accountable and which regulated in a way that was transparent both to the enterprises that were being regulated and to their customers.1 It was hoped that new regulatory entities with these characteristics would lead to a depoliticized regulatory system-one that would give confidence to investors while providing protection to consumers. With the benefit of 20-20 hindsight, it has become clear that creating new regulatory institutions with these institutional and political characteristics is easier said than done.
A Prototype Electrical Actuator for Aircraft Flaps (2010)

This paper considers the electrical actuation of aircraft wing surfaces, with particular emphasis on flap systems. It discusses existing hydraulic and electrohydraulic systems and proposes an electrical alternative, examining the potential system benefits in terms of increased functionality, maintenance, and life-cycle costs. This paper then progresses to describe a full-scale actuation demonstrator of the flap system, including the high-speed electrical drive, step-down gearbox, and flaps. Detailed descriptions of the fault-tolerant motor, power electronics, control architecture, and position sensor systems are given, along with a range of test results, demonstrating the system in operation.
Intracellular P-glycoprotein expression is associated with the intrinsic multidrug resistance phenotype in human colon adenocarcinoma cells (2000)

The 2 clones, LoVo 5 and LoVo 7, derived from untreated LoVo WT human colon adenocarcinoma cells and exhibiting different sensitivity to doxorubicin (DOX), were compared in order to identify possible determinants of intrinsic drug resistance. A multidrug resistant variant cell line, selected from LoVo WT cells by continuous exposure to DOX (LoVo DX), was also included in the study. Analysis of the expression and organization of cytoskeletal elements by flow cytometry and fluorescence microscopy evidenced a positive correlation between vimentin expression and DOX resistance in LoVo 7 and LoVo DX cells, whereas differences in actin, tubulin or cytokeratin did not seem to relate to drug response. The expression and localization of different drug transporters commonly implicated in drug resistance, i.e., the MDR1 gene product P-glycoprotein (P-gp), the multidrug resistance-related protein MRP and the lung resistance-related protein LRP were also investigated by means of flow cytometry and fluorescence microscopy, following labeling with specific monoclonal antibodies. Surface expression of P-gp was only detected in LoVo DX cells, which also exhibited increased MRP and LRP protein levels. However, significant amounts of P-gp were found at intracellular sites in the intrinsically resistant LoVo 7 clone. Modulation of P-gp function by cyclosporin A was found to alter DOX accumulation and efflux in LoVo 7 cells, indicating that intracellular P-gp plays a functional role in drug trafficking and suggesting possible implications in determining the intrinsic resistance displayed by this clone.
Nanostructure fabrication via laser-focused atomic deposition (invited) (1996)

Nanostructured materials and devices will play an important role in a variety of future technologies, including magnetics. We describe a method for nanostructure fabrication based on the use of laser light to focus neutral atoms. The method uses neither a mask nor a resist, but relies on the direct deposition of atoms to form permanent structures. Since the atomic de Broglie wavelength is of picometer order, the size of structures produced is not significantly limited by diffraction, as in optical lithography. Lines as narrow as 38 nm full width at half maximum spaced by 213 nm have been produced and we have demonstrated the production of a two-dimensional array of dots. The highly parallel process of nanostructure formation and the intrinsic accuracy of the optical wavelength that determines structure spacing suggest a number of interesting applications, including calibration standards for various types of microscopy, lithography, and micromeasurement systems. Possible magnetic applications include the production of arrays of magnetic elements, laterally structured giant magnetoresistive devices, and the patterning of magnetic media.
Structure and mechanisms of action of HMG-CoA reductase inhibitors (2002)

An elevated low density lipoprotein (LDL) cholesterol concentration is a major risk factor for the development of coronary heart disease (CHD) [], which remains the leading cause of death in our society []. The efficacy of LDL reduction in the prevention of CHD has clearly been demonstrated in a number of primary and secondary intervention trials (reviewed in reference []). Inhibitors of 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase, the rate-limiting enzyme in cholesterol biosynthesis, constitute the most powerful class of hypolipidemic drugs currently available. Treatment with HMG-CoA reductase inhibitors, or statins, has been shown to reduce plasma LDL cholesterol, apolipoprotein (apo) B, and triglyceride concentrations in a variety of hypercholesterolemic subjects [, , , , , , , ], while modestly increasing levels of high density lipoprotein (HDL) cholesterol [].
Bone morphogenetic protein 9 induces the transcriptome of basal forebrain cholinergic neurons (2005)

Basal forebrain cholinergic neurons (BFCN) participate in processes of learning, memory, and attention. Little is known about the genes expressed by BFCN and the extracellular signals that control their expression. Previous studies showed that bone morphogenetic protein (BMP) 9 induces and maintains the cholinergic phenotype of embryonic BFCN. We measured gene expression patterns in septal cultures of embryonic day 14 mice and rats grown in the presence or absence of BMP9 by using species-specific microarrays and validated the RNA expression data of selected genes by immunoblot and immunocytochemistry analysis of their protein products. BMP9 enhanced the expression of multiple genes in a time-dependent and, in most cases, reversible manner. The set of BMP9-responsive genes was concordant between mouse and rat and included genes encoding cell-cycle/growth control proteins, transcription factors, signal transduction molecules, extracellular matrix, and adhesion molecules, enzymes, transporters, and chaperonins. BMP9 induced the p75 neurotrophin receptor (NGFR), a marker of BFCN, and Cntf and Serpinf1, two trophic factors for cholinergic neurons, suggesting that BMP9 creates a trophic environment for BFCN. To determine whether the genes induced by BMP9 in culture were constituents of the BFCN transcriptome, we purified BFCN from embryonic day 18 mouse septum by using fluorescence-activated cell sorting of NGFR(+) cells and profiled mRNA expression of these and NGFR(-) cells. Approximately 30% of genes induced by BMP9 in vitro were overexpressed in purified BFCN, indicating that they belong to the BFCN transcriptome in situ and suggesting that BMP signaling contributes to maturation of BFCN in vivo.
Robust recognition of white blood cell images (1996)

The objective of this work is to investigate the white blood cell (WBC) image recognition problem at all stages. A robust and effective method for automatic WBC differentiation, based on both statistical pattern recognition and neural net approaches, is presented. We demonstrate well-evaluated results ranging from image scene segmentation techniques to recognition details. Recognition accuracy on the test set of 662 images of five WBC types obtained by different imaging systems from 22 bloodstains is not less than 98%.
A Dual Inhibitor of Platelet-Derived Growth Factor β-Receptor and Src Kinase Activity Potently Interferes With Motogenic and Mitogenic Responses to PDGF in Vascular Smooth Muscle Cells (1999)

PP1 has previously been described as an inhibitor of the Src-family kinases p56(Lck) and FynT. We have therefore decided to use PP1 to determine the functional role of Src in platelet-derived growth factor (PDGF)-induced proliferation and migration of human coronary artery smooth muscle cells (HCASMCs). A synthetic protocol for PP1/AGL1872 has been developed, and the inhibitory activity of PP1/AGL1872 against Src was examined. PP1/AGL1872 potently inhibited recombinant p60(c-src) in vitro and Src-dependent tyrosine phosphorylation in p60(c-srcF572)-transformed NIH3T3 cells. PP1/AGL1872 also potently inhibited PDGF-stimulated migration of HCASMCs, as determined in the modified Boyden chamber, as well as PDGF-stimulated proliferation of HCASMCs. Surprisingly, in addition to inhibition of Src kinase, PP1/AGL1872 was found to inhibit PDGF receptor kinase in cell-free assays and in various types of intact cells, including HCASMCs. PP1/AGL1872 did not inhibit phosphorylation of the vascular endothelial growth factor receptor KDR (VEGF receptor-2; kinase-insert domain containing receptor) in cell-free assays as well as in intact human coronary artery endothelial cells. In line with the insensitivity of KDR, PP1/AGL1872 had only a weak effect on vascular endothelial growth factor-stimulated migration of human coronary artery endothelial cells. On treatment of cells expressing different receptor tyrosine kinases, the activities of the epidermal growth factor receptor, fibroblast growth factor receptor-1, and insulin-like growth factor-1 receptor were resistant to PP1/AGL1872, whereas PDGF alpha-receptor was susceptible, albeit to a lesser extent than PDGF beta-receptor. These data suggest that the previously described tyrosine kinase inhibitor PP1/AGL1872 is not selective for the Src family of tyrosine kinases. It is also a potent inhibitor of the PDGF beta-receptor kinase but is not a ubiquitous tyrosine kinase inhibitor. PP1/AGL1872 inhibits migration and proliferation of HCASMCs probably by interference with 2 distinct tyrosine phosphorylation events, creating a novel and potent inhibitory principle with possible relevance for the treatment of pathological HCASMC activity, such as vascular remodeling and restenosis.
Resting-State Functional Connectivity between Fronto-Parietal and Default Mode Networks in Obsessive-Compulsive Disorder (2012)

OCD is associated with abnormal intrinsic functional connectivity between large-scale brain networks. Alteration of interactions between FPN and DMN at rest may contribute to aspects of the OCD phenotype, such as patients' inability to disengage from internally-generated scenarios and thoughts when performing everyday tasks requiring external attention.
Lipoproteins and CETP levels as risk factors for severe sepsis in hospitalized patients (2010)

HDL cholesterol may have a protective effect against sepsis. Each 1 mg dL(-1) increase in HDL decreased the odds of severe sepsis by 3% during hospitalization. The reduction of plasma CETP was associated with mortality.
Automating Printing Configuration (1994)

Pterygium is one of the most common ocular surface diseases. During the initiation of pterygium, resting epithelial cells are activated and exhibit aberrant apoptosis and cell proliferation. Mechanistic target of rapamycin complex 1 (mTORC1) is a central regulator of cell growth, cell proliferation, protein synthesis, autophagy and transcription. However, the effect of mTORC1 activation in epithelial cells on pterygium development has not yet been reported. Additionally, the roles of mTORC1 in aberrant apoptosis and cell proliferation during the initiation of pterygium, and the underlying mechanisms, are not known. Herein, we evaluated mTOR signalling in pterygium growth and development. The results revealed that mTOR signalling, especially mTORC1 signaling, is highly activated, and aberrant apoptosis and cell proliferation were observed in pterygium. mTORC1 activation inhibits apoptosis in pterygium by regulating Beclin 1-dependent autophagy via targeting Bcl-2. mTORC1 also negatively regulates fibroblast growth factor receptor 3 (FGFR3) through inhibition of p73, thereby stimulating cell proliferation in pterygium. These data demonstrate that mTORC1 signalling is highly activated in pterygium and provide new insights into the pathogenesis and progression of pterygium. Hence, mTORC1 may be a novel therapeutic target for the treatment of pterygium.
Nutritional recovery in HIV-infected and HIV-uninfected children with severe acute malnutrition (2008)

HIV-infected children with SAM have higher mortality rates than HIV-uninfected children. Among those who survive, however, nutritional recovery is similar in HIV-infected and HIV-uninfected children.
Nanoscale Materials with Mesostructured Interiors (2001)

Routine preparation of mesostructured nanoparticles (see Figure) at room temperature is possible using the simple quenching procedure presented here. Silica particles with mesostructured interiors and diameters as small as 15 nm can be synthesized as can organo-silica derivatives with chemically functionalized mesopores. Preliminary insights into the mechanism of growth of these materials are also gained.
Two major outer envelope glycoproteins of Epstein-Barr virus are encoded by the same gene (1985)

Two major outer envelope glycoproteins of Epstein-Barr virus, gp350 and gp220, are known to be encoded by 3.2- and 2.5-kilobase RNAs which map to the same DNA fragment (M. Hummel, D. Thorley-Lawson, and E. Kieff, J. Virol. 49:413-417). These RNAs have the same 5' and 3' ends. The larger RNA is encoded by a 2,777-base DNA segment which is preceded by TATTAAA, has AATAAA near its 3' end, and contains a 2,721-base open reading frame. The smaller RNA has one internal splice which maintains the same open reading frame. Translation of the 3.2- and 2.5-kilobase RNAs yielded proteins of 135 and 100 kilodaltons (Hummel et al., J. Virol. 49:413-417). The discrepancy between the 907 codons of the open reading frame and the 135-kilodalton size of the gp350 precursor is due to anomalous behavior of the protein in gel electrophoresis, since a protein translated from most of the Epstein-Barr virus open reading frame in Escherichia coli had similar properties. Antisera raised in rabbits to the protein expressed in E. coli specifically immunoprecipitated gp350 and gp220, confirming the mapping and sequencing results and the translational reading frame. The rabbit antisera also reacted with the plasma membranes of cells that were replicating virus and neutralized virus, particularly after the addition of complement. This is the first demonstration that the primary amino acid sequence of gp350 and gp220 has epitopes which can induce neutralizing antibody. We propose a model for the gp350 protein based on the theoretical analysis of its primary sequence.
Fibrocartilage in tendons and ligaments — an adaptation to compressive load (1998)

Where tendons and ligaments are subject to compression, they are frequently fibrocartilaginous. This occurs at 2 principal sites: where tendons (and sometimes ligaments) wrap around bony or fibrous pulleys, and in the region where they attach to bone, i.e. at their entheses. Wrap-around tendons are most characteristic of the limbs and are commonly wider at their point of bony contact so that the pressure is reduced. The most fibrocartilaginous tendons are heavily loaded and permanently bent around their pulleys. There is often pronounced interweaving of collagen fibres that prevents the tendons from splaying apart under compression. The fibrocartilage can be located within fascicles, or in endo- or epitenon (where it may protect blood vessels from compression or allow fascicles to slide). Fibrocartilage cells are commonly packed with intermediate filaments which could be involved in transducing mechanical load. The ECM often contains aggrecan which allows the tendon to imbibe water and withstand compression. Type II collagen may also be present, particularly in tendons that are heavily loaded. Fibrocartilage is a dynamic tissue that disappears when the tendons are rerouted surgically and can be maintained in vitro when discs of tendon are compressed. Finite element analyses provide a good correlation between its distribution and levels of compressive stress, but at some locations fibrocartilage is a sign of pathology. Enthesis fibrocartilage is most typical of tendons or ligaments that attach to the epiphyses of long bones where it may also be accompanied by sesamoid and periosteal fibrocartilages. It is characteristic of sites where the angle of attachment changes throughout the range of joint movement and it reduces wear and tear by dissipating stress concentration at the bony interface. There is a good correlation between the distribution of fibrocartilage within an enthesis and the levels of compressive stress. The complex interlocking between calcified fibrocartilage and bone contributes to the mechanical strength of the enthesis and cartilage-like molecules (e.g. aggrecan and type II collagen) in the ECM contribute to its ability to withstand compression. Pathological changes are common and are known as enthesopathies.
InGaAs PIN photodetectors integrated on silicon-on-insulator waveguides (2010)

InGaAs PIN photodetectors heterogeneously integrated on silicon-on-insulator waveguides are fabricated and characterized. Efficient evanescent coupling between silicon-on-insulator waveguides and InGaAs photodetectors is achieved. The fabricated photodetectors can work well without external bias and have a very low dark current of 10pA. The measured responsivity of a 40microm-long photodetector is 1.1A/W (excluding the coupling loss between the fiber and the SOI waveguide) at a wavelength of 1550nm and shows good linearity for an input power range of 40dB. Due to the large absorption coefficient of InGaAs and the efficient evanescent coupling, the fabricated photodetectors can cover the whole S, C and L communication bands.