gebhart/patrepeval huggingface dataset:
Optical power equalization for multiwavelength fiber-amplifier cascades using periodic inhomogeneous broadening (1993)

Inhomogeneously broadened fiber amplifiers inserted periodically in an amplifier cascade are shown to provide significant interchannel power equalization in wavelength-multiplexed systems. Interchannel power variations in a six-amplifier cascade are reduced from 16 dB in a conventional system to about 5 dB when power equalizers are inserted.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Hemodynamic Responses to Rapid Pacing: A Model for Tachycardia Differentiation (1988)

The hemodynamic responses to rapid atrial and ventricular pacing were examined in 10 closed-chest anesthetized dogs in an attempt to distinguish hemodynamically stable from unstable tachycardias. Pressure monitoring catheters were placed in the femoral artery, right atrium, and right ventricle to measure mean arterial pressure, mean right atrial pressure, and mean right ventricular pressure at baseline heart rate and after rapid high right atrial and right ventricular apex pacing. Pressures recorded during rapid pacing (average of the pressures at 30 and 60 seconds of pacing) at pacing rates of 180, 250, and 280/minute were compared to those recorded initially at baseline heart rates. Rapid right ventricular apex pacing resulted in significant increases in mean right atrial pressure (from 6 +/- 1 mmHg (mean +/- standard error) to 12 +/- 1 mmHg, a 100% increase, P less than 0.001) and mean right ventricular pressure (from 11 +/- 1 mmHg to 16 +/- 1 mmHg, a 45% increase, p less than 0.02) with marked hemodynamic compromise (mean arterial pressure decreased from 85 +/- 6 mmHg to 50 +/- 6 mmHg, a 41% decrease, P less than 0.01). These parameters remained stable (no statistically significant difference from baseline) during high right atrial pacing. In half of the dogs high right atrial pacing at rates greater than or equal to 250 resulted in atrioventricular Wenckebach. Thus, it is concluded that mean right atrial pressure and mean right ventricular pressure may be useful in distinguishing hemodynamically significant tachycardias, and in the future design of antitachycardia devices.
Pathogenesis of enterotropic mouse hepatitis virus in immunocompetent and immunodeficient mice. (2004)

Mouse hepatitis virus (MHV) is one of the most prevalent viruses infecting laboratory mice. Most natural infections are caused by enterotropic strains. Experiments were done to compare the pathogenesis of enterotropic strain MHV-Y in immunocompetent BALB/c and C57BL/6 mice with that in B and T cell-deficient mice. In situ hybridization was used to identify sites of virus replication, and reverse transcriptase-polymerase chain reaction analysis was used to detect viral RNA in feces and blood. MHV-Y caused acute subclinical infections restricted to the gastrointestinal tract in BALB/c and C57BL/6 mice. Viral RNA was detected in small intestine and associated lymphoid tissues of immunocompetent mice for 1 week and in cecum and colon for 2 weeks. Infected B cell-deficient mice developed chronic subclinical infection also restricted to the gastrointestinal tract. Viral RNA was detected in the small intestine, cecum, colon, and feces for 7 to 8 weeks. In contrast, infected T cell-deficient mice developed multisystemic lethal infection. During the first week, viral RNA was restricted to the gastrointestinal tract. However, by 2 weeks, mice developed peritonitis, and viral RNA was detected in mesentery and visceral peritoneum. Three to four weeks after virus inoculation, T cell-deficient mice became moribund and viral RNA was detected in multiple organ systems. These results suggest that B cells promote clearance of MHV-Y from intestinal mucosa and that T cells are required to prevent dissemination of MHV-Y from the gastrointestinal tract and associated lymphoid tissues.
Fucose Removal from Complex-Type Oligosaccharide Enhances the Antibody-Dependent Cellular Cytotoxicity of Single-Gene–Encoded Bispecific Antibody Comprising of Two Single-Chain Antibodies Linked to the Antibody Constant Region (2006)

Bispecific antibodies (bsAbs) have the potential to extend binding selectivity, increase avidity and exert potent cytotoxicity due to the combination of dual specificities. scFv2-Fc type of single-gene-encoded bispecific antibody, composed of two different single-chain Fvs and an Fc, has been reported to be capable of binding to different antigens. The aim of this study was to determine the effect of fucose removal on effector functions of scFv2-Fc since fucose depletion from oligosaccharide of human IgG1 and scFv-Fc results in significant enhancement of ADCC. We generated novel single-gene-encoded bsAb with dual specificity against tumor associated glycoprotein (TAG)-72 and MUC1 mucin as fucose-negative scFv2-Fc from alpha-1,6-fucosyltransferase knock-out CHO cells and a highly fucosylated scFv2-Fc comparator from parental CHO cells. Expression, assembly and the antigen-binding activity of the scFv2-Fc were not influenced by removal of fucose. The fucose negative scFv2-Fc bound with higher avidity to FcgammaRIIIa and enhanced ADCC compared to the highly fucosylated scFv2-Fc. These results demonstrate that ADCC-enhancement by removal of fucose is effective in not only whole IgG1 and scFv-Fc, but also scFv2-Fc targeting two different antigens, and thus increases the potential of fucose-negative scFv2-Fcs as novel therapeutic candidates.
Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae (1998)

An important recent advance in the functional analysis of Saccharomyces cerevisiae genes is the development of the one-step PCR-mediated technique for deletion and modification of chromosomal genes. This method allows very rapid gene manipulations without requiring plasmid clones of the gene of interest. We describe here a new set of plasmids that serve as templates for the PCR synthesis of fragments that allow a variety of gene modifications. Using as selectable marker the S. cerevisiae TRP1 gene or modules containing the heterologous Schizosaccharomyces pombe his5+ or Escherichia coli kan(r) gene, these plasmids allow gene deletion, gene overexpression (using the regulatable GAL1 promoter), C- or N-terminal protein tagging [with GFP(S65T), GST, or the 3HA or 13Myc epitope], and partial N- or C-terminal deletions (with or without concomitant protein tagging). Because of the modular nature of the plasmids, they allow efficient and economical use of a small number of PCR primers for a wide variety of gene manipulations. Thus, these plasmids should further facilitate the rapid analysis of gene function in S. cerevisiae.
Two new flavones fromSalvia plebeia (2015)

Two new flavones neocafhispidulin (1) and 6″-O-acetyl homoplantaginin (2), together with 10 known flavones and 1 polyphenol were isolated from the whole plants of Salvia plebeia. R. Br. Compounds 3 and 4 were reported from this plant for the first time. Their structures were determined by spectral analyses. Compounds 1-13 were evaluated for their anti-tyrosinase and anti-inflammatory activities. The results showed that compounds 1, 5, 8, 10 and 11 exhibited anti-tyrosinase activities, and compounds 3, 4 and 13 showed potential anti-inflammatory activities.
Expression of the potato tuber ADP-glucose pyrophosphorylase in Escherichia coli. (1993)

cDNA clones encoding the putative mature forms of the large and small subunits of the potato tuber ADP-glucose pyrophosphorylase have been expressed separately and together in an Escherichia coli B mutant deficient in ADP-glucose pyrophosphorylase activity. Expression of both subunits from compatible vectors resulted in restoration of ADP-glucose pyrophosphorylase activity. Maximal enzyme activity required both subunits. The expressed ADP-glucose pyrophosphorylase was purified and characterized. The recombinant enzyme exhibited catalytic and allosteric kinetic properties very similar to the enzyme purified from potato tuber. The expressed enzyme activity was neutralized by incubation with antibodies raised against potato tuber and spinach leaf ADP-glucose pyrophosphorylases but not with anti-Escherichia coli enzyme serum. 3-Phosphoglycerate was the most efficient activator and its effect was increased by dithiothreitol. In the ADP-glucose synthesis direction, 3-phosphoglycerate activated the recombinant enzyme nearly 100-fold in the presence of dithiothreitol, with an A0.5 value of 57 microM. The recombinant ADP-glucose pyrophosphorylase was less sensitive to P(i) inhibition and more sensitive to heat denaturation than the potato tuber enzyme. Results suggest that bacterial expression of potato tuber cDNAs could be used to study the role and interaction of the subunits of the native ADP-glucose pyrophosphorylase.
Thirty-minute screening of antibiotic resistance genes in bacterial isolates with minimal sample preparation in static self-dispensing 64 and 384 assay cards (2015)

In a clinical setting, molecular assays such as polymerase chain reaction offer a rapid means to infer or confirm identity and therapeutic decisions. Accordingly, a number of molecular assays targeting identity and antibiotic resistance (AR) genes have been developed; however, these methods can be technically complex and relatively expensive. Herein, we describe a diagnostic concept utilizing isothermal amplification technology with non-purified heat-lysed cells and self-dispensing cards for testing multiple primers in parallel. This proof-of-concept study, performed with Staphylococcus aureus isolates and associated AR genes, was compared with culture-based susceptibility and quantitative PCR (qPCR). Results demonstrate reduced sample processing steps resulting in a turnaround time (starting from bacterial culture to ending in the antibiotic resistance gene profile) in less than 30 min. For antibiotics tested in which an associated AR gene was targeted on the Gene-Z card, 69% (18/26) of culture-based resistance events were positive for related AR genes. A comparison of loop-mediated isothermal amplification (LAMP) and qPCR assays targeting the same antibiotic resistance genes showed a 98.2% agreement in terms of presence and absence calls. Identity-based discrepancies between conventional (phenotypic) and molecular (genotypic) results were further resolved, and we were able to demonstrate higher accuracy in identification with the molecular analysis.
The role of leukemia inhibitory factor in skeletal muscle regeneration (1997)

Although a number of cytokines have been implicated in tissue regeneration, it is unknown which ones actually function in vivo. Here, we use mice with a targeted mutation in the leukemia inhibitory factor (LIF) gene to examine the role of LIF in muscle regeneration. Using a muscle crush model, we show that muscle regeneration in LIF knockout mice is significantly, reduced compared to control littermates. Further, targeted infusion of LIF in both normal and LIF knockout animals stimulated muscle regeneration, but the stimulation observed was much greater in the mutant animals than in controls. In contrast, interleukin-6 and transforming growth factor-alpha, which also stimulate myoblast proliferation in vitro, had no effect on regeneration. These findings demonstrate directly that LIF is involved in regeneration of injured muscle and points to the use of LIF as a therapeutic agent in the treatment of neuromuscular disease.
Semiconductor optical amplifier based swept wavelength source at 1060nm using a scanning Fabry-Perot filter and an YDFA-based booster amplifier (2007)

We demonstrate a tunable laser operating in the 1-1.1 &mgr;m wavelength region with a tuning range of 43 nm (FWHM), an output power of 19 mW and coherence length of 14 mm. The source is based on a master laser consisting of a cavity tuned ring configuration with a fiber Fabry Perot filter used as a tuning element and a semiconductor amplifier as gain medium. The output of the master laser is subsequently power boosted using an Ytterbium doped fiber amplifier (YDFA). In addition to providing a power boost, we demonstrate that by tailoring the gain spectrum of the YDFA it is possible to increase the FWHM scanning range by 7 nm compared to that of the master laser.
Organic solvent extraction of proteins and peptides from serum as an effective sample preparation for detection and identification of biomarkers by mass spectrometry (2004)

A method to extract peptides and low molecular weight proteins from serum under denaturing conditions using acetonitrile containing 0.1% trifluoroacetic acid has been developed. The extraction procedure precipitates large, abundant proteins to simplify subsequent mass spectral analysis. This sample preparation method provides an efficient way to extract serum peptides, enabling them to be compared and identified using different mass spectrometry approaches. Surface-enhanced laser desorption/ionization-time of flight mass spectrometry analysis of mouse blood serum samples prepared by this method allowed detection of two markers which were significantly reduced in mice with B cell lymphoma tumor. One of these markers has been identified as apolipoprotein A-II.
The expanding role of neuropilin (2016)

Broadening our understanding of how and where Nrp1 functions in the vasculature is critical for the development of targeted therapeutics for cancer and vascular diseases such as atherosclerosis and retinopathies.
Immunotherapy for gynaecological malignancies (2005)

Gynaecological malignancies, excluding breast cancer, cause approximately 25,000 deaths yearly among women in the US. Therefore, novel approaches for the prevention or treatment of these diseases are urgently required. In the case of cervical cancer, human papillomavirus (HPV) xenoantigens are readily recognised by the immune system, and their targeting has shown great promise in preclinical models of therapeutic vaccination and in clinical studies of preventative vaccination. A growing body of evidence indicates that ovarian cancer is also immunogenic and can thus be targeted through immunotherapy. This review outlines the principles and problems of immunotherapy for cervical and ovarian cancer, including the authors' personal assessment.
Immunocytochemical Localisation of Prostate‐specific Antigen: Specificity and Application to Clinical Practice (1985)

An immunocytochemical method to localise prostate-specific antigen (PSA) in paraffin sections was used to establish the prostatic origin of both primary and metastatic tumours. The specificity of the technique was confirmed in 65 known primary (63 PSA-positive) and 17 metastatic prostatic carcinomas (16 PSA-positive). Thirteen non-prostatic primary carcinomas and a series of benign proliferative and malignant conditions which might be considered in the morphological differential diagnosis of prostatic adenocarcinoma were PSA-negative. The technique has now been applied diagnostically to tumour tissue resected from 21 patients. These neoplasms of the base and neck of the bladder could not be categorised as prostatic or urothelial in origin by clinical and endoscopic assessment or by conventional histopathology. In 11 patients such tumours were PSA-positive, indicating a prostatic origin. In two further patients, the prostatic origin of lymph node secondaries was confirmed in the absence of a clinically apparent primary. The technique is a valuable adjunct to conventional histopathology.
Increased L-Citrulline/ L-Arginine Plasma Ratio in Severe Preeclampsia (2000)

In Brief Objective To evaluate nitric oxide (NO) production in patients with pregnancy-induced hypertension or preeclampsia and in controls. Methods Four groups of pregnant women were included: 17 patients with pregnancy-induced hypertension, ten with mild or moderate preeclampsia, 17 with severe preeclampsia, and 44 normotensive women matched for weeks of gestation at blood sampling with the cases. Plasma levels of L-citrulline and L-arginine were measured by using high-performance liquid chromatography. Results The mean plasma levels of L-citrulline and the ratio of L-citrulline to L-arginine, which reflects NO production, were higher in women with severe preeclampsia than in controls, patients with pregnancy-induced hypertension, and patients with mild or moderate preeclampsia. Conclusion Nitric oxide production is enhanced in severe preeclampsia, possibly as a compensatory phenomenon for the increased synthesis and release of vasoconstrictors and platelet-aggregating agents. The plasma ratio of L-citrulline to L-arginine, which reflects nitric oxide production, is increased in severe preeclampsia but not in pregnancy-induced hypertension or in mild or moderate preeclampsia.
Cationization of protein antigens. IV. Increased antigen uptake by antigen-presenting cells. (1988)

Cationization of BSA generates a molecule that mounts antibody responses of increased magnitude and duration and induces T cell proliferation at concentrations 500 times less than native BSA (nBSA). To explain the alteration in immunogenic properties of this Ag, the uptake of nBSA and cationized BSA (cBSA) by splenic APC has been investigated. T cell proliferation assays were conducted with nBSA and cBSA preparations with varying degrees of substitution. An inverse correlation between the degree of cationization and the amounts of Ag needed for optimal T cell reactivity was observed. To determine whether affinity for APC resulted in an increased uptake of cBSA, splenic APC were incubated with nBSA or cBSA for varying amounts of time. Comparisons were made at each time point between untreated Ag-pulsed APC (Ag uptake) and paraformaldehyde-fixed Ag-pulsed APC (processed Ag). Proliferation of T cells primed with nBSA or cBSA increased in proportion to the amount of time of APC exposure to high concentrations of nBSA, first appearing after a 2-h pulse and peaking at 8 h. Conversely, untreated APC needed only a 30-min cBSA exposure to induce either nBSA- or cBSA-primed T cell proliferation, indicating a rapid uptake of cBSA. Comparisons with proliferation induced by paraformaldehyde-fixed cBSA APC indicate that nBSA T cells recognize a lag phase-processed form of cBSA, whereas a majority of cBSA T cells recognize either a rapidly processed form of cBSA, or a membrane-processed cBSA molecule without a classical lag phase processing event. When monensin was used as an inhibitor of fluid phase pinocytosis in splenic APC, the presentation of nBSA was inhibited by 85%, but the presentation of cBSA was inhibited by only 20%. These results imply that nBSA enters the cell by fluid phase pinocytosis, whereas cBSA enters by a nonspecific adsorptive mechanism. The different modes of cellular entry for the two molecules, nBSA and cBSA, resulting in a rapid uptake of cBSA, may have important ramifications on T cell activation and immunoregulation.
Study on Joint Inversion Algorithm of Acoustic and Electromagnetic Data in Biomedical Imaging (2019)

In this paper, we study a joint inversion algorithm to reconstruct acoustic and electromagnetic (EM) data in biomedical imaging. This algorithm is based on contrast source inversion algorithm. We define contrast source and contrast functions in both acoustics and EMs, respectively, and apply two reciprocal regularization operators to link acoustic and EM inversion. By minimizing the cost function using the conjugate gradient method, we can simultaneously reconstruct compressibility, attenuation, permittivity, and conductivity of different human tissues. Numerical experiments show that acoustic and EM inversion can compensate each other and achieve a better reconstruction than individual inversion. Besides, the joint inversion method is particularly sensitive to compressibility and conductivity and thus may be used to monitor air and water contents in human thorax as well as other applications in biomedicine.
Circular grating coupler for creating focused azimuthally and radially polarized beams (2011)

We show a planar optical circuit design that takes light from an input waveguide and creates a focused azimuthally or radially polarized beam emanating from the surface of the substrate. It is implemented in silicon-on-insulator waveguides and does not require any external components to focus the beam. The focal spot size can be subwavelength and is potentially useful for lithography, imaging, optical data storage, optical trapping, optical excitation of molecules, or coupling to optical fibers.
A future perspective on the development of chemokine receptor CXCR4 antagonists (2008)

T140 analogues have the potential to become promising agents for chemotherapy of AIDS, cancer and rheumatoid arthritis. This review summarizes the development of low molecular weight CXCR4 antagonists based on pharmacophore identification in T140 analogues and also provides an opinion on the future of the development of CXCR4 antagonists.
Design, Additive Manufacture, and Control of a Pneumatic MR-Compatible Needle Driver (2016)

This paper reports the design, modeling, and control of an MR-compatible actuation unit comprising pneumatic stepper mechanisms. One helix-shaped bellows and one toroid-shaped bellows were designed to actuate in pure rotation and pure translation, respectively. The actuation unit is a two degree- of-freedom needle driver that translates and rotates the base of one tube of a steerable needle like a concentric tube robot. For safety, mechanical stops limit needle motion to maximum unplanned step sizes of 0.5 mm and 0.5 degrees. Additively manufactured by selective laser sintering, the flexible fluidic actuating (FFA) mechanism achieves two degree-of-freedom motion as a monolithic, compact, and hermetically-sealed device. A second novel contribution is sub-step control for precise translations and rotations less than full step increments; steady- state errors of 0.013 mm and 0.018 degrees were achieved. The linear FFA produced peak forces of 33 N and -26.5 N for needle insertion and retraction, respectively. The rotary FFA produced bidirectional peak torques of 68 N-mm. With the FFA's in full motion in a 3T scanner, no loss in signal-to-noise ratio of MR images observed.
An Intrusion-Detection Model (1987)

A model of a real-time intrusion-detection expert system capable of detecting break-ins, penetrations, and other forms of computer abuse is described. The model is based on the hypothesis that security violations can be detected by monitoring a system's audit records for abnormal patterns of system usage. The model includes profiles for representing the behavior of subjects with respect to objects in terms of metrics and statistical models, and rules for acquiring knowledge about this behavior from audit records and for detecting anomalous behavior. The model is independent of any particular system, application environment, system vulnerability, or type of intrusion, thereby providing a framework for a general-purpose intrusion-detection expert system.
High-resolution dynamic speech imaging with joint low-rank and sparsity constraints (2014)

High spatiotemporal resolution with full-vocal-tract spatial coverage can be achieved for dynamic speech imaging experiments with low-rank and sparsity constraints.