gebhart/patrepeval huggingface dataset:
Performance Characteristics of the Platelia Aspergillus Enzyme Immunoassay for Detection of Aspergillus Galactomannan Antigen in Bronchoalveolar Lavage Fluid (2008)

We have evaluated the Platelia Aspergillus enzyme immunoassay for detection of galactomannan in bronchoalveolar lavage (BAL) specimens in solid organ transplant patients with aspergillosis. The precision and reproducibility in serum or BAL to which galactomannan was added were similar. Sensitivity was 81.8% in patients with aspergillosis, and specificity was 95.8% in lung transplant patients who underwent BAL for surveillance for infection or rejection. Among transplant controls, positive results were more common in patients (i) who underwent diagnostic BAL performed for evaluation of symptoms or chest computed tomographic abnormalities, (ii) who had undergone lung transplantation, or (iii) who were colonized with Aspergillus. Galactomannan testing in BAL is useful for diagnosis of aspergillosis in transplant patients. The significance of positive results in patients without confirmed aspergillosis requires further evaluation.
Delivery of steric block morpholino oligomers by (R-X-R)4 peptides: structure-activity studies (2008)

Redirecting the splicing machinery through the hybridization of high affinity, RNase H- incompetent oligonucleotide analogs such as phosphoramidate morpholino oligonucleotides (PMO) might lead to important clinical applications. Chemical conjugation of PMO to arginine-rich cell penetrating peptides (CPP) such as (R-Ahx-R)(4) (with Ahx standing for 6-aminohexanoic acid) leads to sequence-specific splicing correction in the absence of endosomolytic agents in cell culture at variance with most conventional CPPs. Importantly, (R-Ahx-R)(4)-PMO conjugates are effective in mouse models of various viral infections and Duchenne muscular dystrophy. Unfortunately, active doses in some applications might be close to cytotoxic ones thus presenting challenge for systemic administration of the conjugates in those clinical settings. Structure-activity relationship studies have thus been undertaken to unravel CPP structural features important for the efficient nuclear delivery of the conjugated PMO and limiting steps in their internalization pathway. Affinity for heparin (taken as a model heparan sulfate), hydrophobicity, cellular uptake, intracellular distribution and splicing correction have been monitored. Spacing between the charges, hydrophobicity of the linker between the Arg-groups and Arg-stereochemistry influence splicing correction efficiency. A significant correlation between splicing correction efficiency, affinity for heparin and ability to destabilize model synthetic vesicles has been observed but no correlation with cellular uptake has been found. Efforts will have to focus on endosomal escape since it appears to remain the limiting factor for the delivery of these splice-redirecting ON analogs.
Psoriasis in general practice (1998)

This report, based on a resource pack for primary care nurses, describes the features of psoriasis and reviews current prevention and treatments. The pack emphasises the important role of nurses in helping people to maintain their confidence and independence in the face of this chronic disease.
Thyroid hormone increases glyceraldehyde 3‐phosphate dehydrogenase gene expression in rat liver (1991)

Livers from hypophysectomized rats had low levels of glyceraldehyde 3-phosphate dehydrogenase mRNA. Administration of L-triiodothyronine increased these levels over 20-fold. The peak response was seen 72 h after hormone administration. A half-maximal response was obtained with 5 micrograms of T3 per 100 g of body weight. Thus the expression of hepatic glyceraldehyde 3-phosphate dehydrogenase appears to be regulated by thyroid hormone.
Synthesis and Photophysical Properties of Some Benzoxazole and Benzothiazole Compounds (1996)

Several benzoxazole and benzothiazole compounds have been prepared and their extended configurations characterized by optical absorption and emission spectroscopy. In general, solutions of these compounds fluoresce strongly and exhibit emission spectral profiles which mirror their respective excitation spectra. One exception to this correlation results from a chromophore with a nonplanar ground state configuration which disrupts the extended π-network, promoting a strong hypsochromic shift of the absorption spectrum. The absorption, excitation, and emission spectra of these compounds also show a strong vibronic progression of ∼1300 cm-1 in accordance with the energy of ring-stretching modes for aromatic frameworks. This excited state molecular distortion is consistent with the ππ* nature of the optical excitation. Also, the energy gap between excitation and emission 0−0 bands of these benzoxazole and benzothiazole compounds and their polymeric forms are strongly influenced by the minimum allowed intermolecular space. In dilute solutions or for structures with bulky substituents, only small energy differences are observed between excitation and fluorescence 0−0 bands. In contrast, solid state samples devoid of side groups exhibit significantly larger energetic displacements accompanied by a pronounced broadening of both excitation and emission spectral profiles. These results suggest that strong intermolecular π-stacking interactions occur for the planar benzoxazoles and benzothiazoles in the solid state. Excited state lifetime decay measurements for PBO model compounds in toluene are monoexponential with essentially identical lifetimes under evacuated and standard pressure conditions. In the solid state, PBO and PBT model compounds exhibit biexponential luminescence decay lifetimes which were also not significantly affected by the presence of O2. Fibers of PBO and PBT revealed three oxygen independent, but wavelength dependent emitting species. The presence of only one emitting species for these benzoxazole compounds in solution, compared with their multiexponential lifetime behavior in the solid state, further supports strong π-interactions between these molecules in the solid state. This molecular configuration permits benzoxazole and benzothiazole compounds to undergo photoinduced electron transfer in the solid state, which in the presence of oxygen leads to the generation of superoxide.
Hierarchical Nanotextured Microelectrodes Overcome the Molecular Transport Barrier To Achieve Rapid, Direct Bacterial Detection (2011)

Detection of biomolecules at low abundances is crucial to the rapid diagnosis of disease. Impressive sensitivities, typically measured with small model analytes, have been obtained with a variety of nano- and microscale sensors. A remaining challenge, however, is the rapid detection of large native biomolecules in real biological samples. Here we develop and investigate a sensor system that directly addresses the source of this challenge: the slow diffusion of large biomolecules traveling through solution to fixed sensors, and inefficient complexation of target molecules with immobilized probes. We engineer arrayed sensors on two distinct length scales: a ∼100 μm length scale commensurable with the distance bacterial mRNA can travel in the 30 min sample-to-answer duration urgently required in point-of-need diagnostic applications; and the nanometer length scale we prove necessary for efficient target capture. We challenge the specificity of our hierarchical nanotextured microsensors using crude bacterial lysates and document the first electronic chip to sense trace levels of bacteria in under 30 min.
Variants of human tissue-type plasminogen activator. Fibrin binding, fibrinolytic, and fibrinogenolytic characterization of genetic variants lacking the fibronectin finger-like and/or the epidermal growth factor domains. (1988)

Tissue-type plasminogen activator (t-pa) is a serine protease comprising four different putative structural domains with homologies to fibronectin finger-like structures (finger), epidermal growth factor, kringle structures, and the active site of serine proteases. Only the finger and epidermal growth factor domain are each entirely encoded by unique single exons. We assessed the functional contribution of these two structural domains by making mutants precisely deleted for one or both of the relevant exons. The three mutant genes were expressed in monkey cells, and the variant proteins, purified from the culture medium, were characterized for their fibrinolytic activity, fibrinogenolytic potential, and affinity for fibrin. No significant difference in any biochemical property was observed among the variants. All three variants retained a catalytic dependence on cyanogen bromide fragments of fibrinogen which could not be distinguished from the wild-type enzyme. The activities of the variants were also very similar to that of wild-type t-pa, showing no detectable fibrinogenolytic potential in human plasma at activator concentrations of 500 IU/ml, or when their fibrinolytic activity was tested in human plasma using the 125I-labeled fibrin clot lysis assay at activator concentrations of 150 IU/ml or greater. However, the variants were markedly defective in fibrinolysis at low activator concentrations such that essentially no fibrinolysis was detected at 15 IU/ml. Measurement of fibrin binding showed that the variants lacked the high fibrin binding characteristic of wild-type t-pa. These results demonstrate that the fibrin specificity and fibrin-dependent activity of t-pa are independent of the protein's high affinity for fibrin. The implication of these results is that the t-pa variants would be ineffective activators at a physiological concentration of approximately 2 IU/ml but would be expected to behave similarly to wild-type t-pa at the steady-state plasma concentrations of 0.75-1.25 micrograms/ml (approximately 500 IU/ml) currently required for coronary reperfusion in patients receiving t-pa for acute myocardial infarction (Garabedian, H.D., Gold, H.K., Leinbach, R.C., Yasuda, T., Johns, J.A., and Collen, D. (1986) Am. J. Cardiol. 58, 673-679).
GRA7 provides protective immunity in cocktail DNA vaccines against Toxoplasma gondii (2007)

In a previous study, single-gene vaccination with GRA1, GRA7 or ROP2 was shown to elicit partial protection against Toxoplasma gondii. In this study, the contribution of each antigen in the evoked humoral and cellular immune responses was evaluated after vaccination with plasmid mixtures containing GRA1, GRA7 and ROP2. Cocktail DNA vaccinated mice developed high antibody titers against the antigens from two-gene DNA vaccine cocktails, but lower titres when immunized with the three-gene cocktail. High numbers of IFN-gamma secreting splenocytes were generated predominantly against GRA7. Brain cyst burden was reduced by 81% in mice vaccinated with the three-gene mixture and they were completely protected against acute toxoplasmosis. Similar high levels of brain cyst reductions were obtained after vaccination with cocktails composed of GRA1 and GRA7 (89% reduction), or GRA7 and ROP2 (79% reduction), but not with the cocktail composed of GRA1 and ROP2. In low dose single-gene vaccinations, IFN-gamma and strong protection could only be elicited by GRA7. Hence, the presence of GRA7 in the DNA vaccine formulation was important for optimal protection and this was correlated with GRA7-specific IFN-gamma production. We propose GRA7 as a main component in cocktail DNA vaccines for vaccination against T. gondii.
Pharmacogenomics (1998)

The individual variation in the efficacy of and tolerability to antihypertensive drugs in human essential hypertension is linked to the genetic heterogeneity of this multifactorial disease. Different approaches have been pursued in the attempt to correlate a specific responsiveness to the therapy with some phenotypic traits of the patients, such as the renin-angiotensin profile or the characteristics of cell ion transports. More recently, a genetic approach to the study of the mechanisms underlying hypertension has led to the identification of some quantitative trait loci or genes that influence blood pressure in both animal models and patients. Also, individual variation to therapy can now be studied from the genetic point of view using pharmacogenomics, that is, the study of the genes or loci which are involved in determining the responsiveness to a given drug. Only a few examples of this approach are available to date. Our group has identified a polymorphism of the genes for the cytoskeletal protein, adducin, which is linked to both rat and human hypertension, sodium sensitivity and to the pressor responsiveness to diuretic therapy. These results, together with the indication that adducin can play a functional role by modulating the cellular sodium transport, have led to the identification of a new antihypertensive compound, which could be a candidate for the selective treatment of those patients in whom alterations of the renal sodium handling are associated with specific genetic traits such as the polymorphism for adducin.
Graphstract (2007)

We explore the use of abstracted screenshots as part of a new help interface. Graphstract, an implementation of a graphical help system, extends the ideas of textually oriented Minimal Manuals to the use of screenshots, allowing multiple small graphical elements to be shown in a limited space. This allows a user to get an overview of a complex sequential task as a whole. The ideas have been developed by three iterations of prototyping and evaluation. A user study shows that Graphstract helps users perform tasks faster on some but not all tasks. Due to their graphical nature, it is possible to construct Graphstracts automatically from pre-recorded interactions. A second study shows that automated capture and replay is a low-cost method for authoring Graphstracts, and the resultant help is as understandable as manually constructed help.
Stopped Light and Image Storage by Electromagnetically Induced Transparency up to the Regime of One Minute (2013)

The maximal storage duration is an important benchmark for memories. In quantized media, storage times are typically limited due to stochastic interactions with the environment. Also, optical memories based on electromagnetically induced transparency (EIT) suffer strongly from such decoherent effects. External magnetic control fields may reduce decoherence and increase EIT storage times considerably but also lead to complicated multilevel structures. These are hard to prepare perfectly in order to push storage times toward the theoretical limit, i.e., the population lifetime T(1). We present a self-learning evolutionary strategy to efficiently drive an EIT-based memory. By combination of the self-learning loop for optimized optical preparation and improved dynamical decoupling, we extend EIT storage times in a doped solid above 40 s. Moreover, we demonstrate storage of images by EIT for 1 min. These ultralong storage times set a new benchmark for EIT-based memories. The concepts are also applicable to other storage protocols.
Current Perspectives on Pain upon Injection of Drugs (1998)

A limitation in the administration of parenteral products is the pain caused upon injection. Injection site pain has been predominately associated with intravenous, intramuscular, and subcutaneous administration. It becomes important for the formulation scientist to have a basic understanding of the physiology underlying the pain process, as well as the pharmaceutical factors associated with injection site pain. Initially, this review will provide the reader with a primer on the mediation of pain in the periphery and a compilation of those drugs that have been associated with pain on injection. In addition, this review will present important considerations and general formulation approaches or methods that have been used to overcome pain on injection. Finally, a brief overview of the various experimental systems used to investigate injection site pain is discussed.
Repeated in vivo determinations of bone mineral density during parathyroid hormone treatment in ovariectomized mice (2001)

The recent development of different genetically modified mice with potentially interesting bone phenotypes has increased the demand for effective non-invasive methods to evaluate effects on bone of mice during growth and development, and for drug evaluation. In the present study, the skeleton was analyzed by repeated in vivo scans using dual energy X-ray absorptiometry (DXA) and peripheral quantitative computed tomography (pQCT). Ovariectomized (ovx) mice treated with parathyroid hormone (PTH) were used as an animal model to evaluate these two techniques at different times after the onset of treatment. Female mice (6 weeks of age) were allocated randomly to four groups: (1) sham-operated+vehicle; (2) ovx+vehicle; (3) sham-operated+PTH(1-84) 150 microg/kg per day; (4) ovx+PTH. Six weeks after ovariectomy the drug treatment began and was continued for 8 weeks. The total body bone mineral content (BMC) and total body areal bone mineral density (BMD) were measured by DXA. Ovariectomy reduced total body BMC and total body areal BMD by 6.2+/-1.7% and 2.6+/-0.9% respectively. No effect of PTH on total body BMC was seen during the treatment period. The trabecular volumetric BMD was measured by pQCT. Ovariectomy reduced the trabecular volumetric BMD by 52+/-6.7%. The pQCT technique detected a clear effect on trabecular volumetric BMD after 2 weeks of PTH treatment (ovx 94+/-29% and sham-operated 46+/-10% more than vehicle-treated). The cortical bone was measured in a mid-diaphyseal pQCT scan of the tibia. Ovariectomy reduced the cortical BMC by 9+/-2%. PTH treatment for 8 weeks increased cortical BMC in ovx mice. In conclusion, the pQCT technique is more sensitive than the DXA technique in the detection of bone loss after ovariectomy and increased bone mass after PTH treatment in mice. Notably, the pQCT, but not the DXA, technique detected a dramatic effect as early as after 2 weeks of PTH treatment. Dynamic pQCT measurements will be useful for monitoring skeletal changes during growth and development, and for drug evaluation in mice.
<title>Optical tomography of living cells using a phase-shifting Linnik microscope</title> (1999)

To obtain three-dimensional refractive index or density spatial distribution inside optically transparent living cells, it is necessary to combine computed tomography and interference microscopy. These methods use the oblique illumination and the sample viewing angles scanning for recording a number of the projections. A new application Linnik microscope reflected type for obtaining a high quality phase projections with spatially incoherent laser illumination is described. Phase-shifting technique for automated interferogram analysis is used. Interferometric computed- tomography Linnik laser microscope are fully automated integrated systems that incorporate CCD camera, frame grabber, computed operated PZT mirror as well as intelligible software for interferogram processing, projections preprocessing and tomographic reconstruction. Microscope measurement system and performance characterization are presented. There are some features in angle scanning, projections proceeding, and reconstruction for tomographic investigation of the phase samples that are placed near the mirror surface. For plane mirror the projections viewing angle range may be limited to 90-degree and the investigation object may be represented as a sum of the original object and its mirror reflection. The iterative algorithms for limited-angle tomographic reconstruction were used. Three-dimensional images of living blood cells (lymphocytes) were obtained.
Real-time optical imaging of primary tumor growth and multiple metastatic events in a pancreatic cancer orthotopic model. (2002)

We report here whole-body optical imaging, in real time, of genetically fluorescent pancreatic tumors growing and metastasizing to multiple sites in live mice. The whole-body optical imaging system is external and noninvasive. Human pancreatic tumor cell lines, BxPC-3 and MiaPaCa-2, were engineered to stably express high-levels of the Aequorea victoria green fluorescent protein (GFP). The GFP-expressing pancreatic tumor cell lines were surgically orthotopically implanted as tissue fragments in the body of the pancreas of nude mice. Whole-body optical images visualized real-time primary tumor growth and formation of metastatic lesions that developed in the spleen, bowel, portal lymph nodes, omentum, and liver. Intravital images in the opened animal confirmed the identity of whole-body images. The whole-body images were used for real-time, quantitative measurement of tumor growth in each of these organs. Intravital imaging was used for quantification of growth of micrometastasis on the liver and stomach. Whole-body imaging was carried out with either a trans-illuminated epi-fluorescence microscope or a fluorescence light box, both with a thermoelectrically cooled color CCD camera. The simple, noninvasive, and highly selective imaging made possible by the strong GFP fluorescence allowed detailed simultaneous quantitative imaging of tumor growth and multiple metastasis formation of pancreatic cancer. The GFP imaging affords unprecedented continuous visual monitoring of malignant growth and spread within intact animals without the need for anesthesia, substrate injection, contrast agents, or restraint of animals required by other imaging methods. The GFP imaging technology presented in this report will facilitate studies of modulators of pancreatic cancer growth, including inhibition by potential chemotherapeutic agents.
Supervised rank aggregation (2007)

This paper is concerned with rank aggregation, the task of combining the ranking results of individual rankers at meta-search. Previously, rank aggregation was performed mainly by means of unsupervised learning. To further enhance ranking accuracies, we propose employing supervised learning to perform the task, using labeled data. We refer to the approach as Supervised Rank Aggregation. We set up a general framework for conducting Supervised Rank Aggregation, in which learning is formalized an optimization which minimizes disagreements between ranking results and the labeled data. As case study, we focus on Markov Chain based rank aggregation in this paper. The optimization for Markov Chain based methods is not a convex optimization problem, however, and thus is hard to solve. We prove that we can transform the optimization problem into that of Semidefinite Programming and solve it efficiently. Experimental results on meta-searches show that Supervised Rank Aggregation can significantly outperform existing unsupervised methods.
Fluticasone Reverses Oxymetazoline-induced Tachyphylaxis of Response and Rebound Congestion (2010)

Oxymetazoline-induced tachyphylaxis and rebound congestion are reversed by intranasal fluticasone. Further studies are indicated to evaluate if combination nasal sprays of decongestant and corticosteroid are an effective strategy to obviate tachyphylaxis and rebound in rhinitis. Clinical trial registered with www.clinicaltrials.gov (NCT 00487032).
Genomic sequencing and analysis of a Chinese hamster ovary cell line using Illumina sequencing technology (2011)

This demonstrates the applicability of next-generation sequencing technology and comparative genomic analysis in the development of CHO genomic resources.