gebhart/patrepeval huggingface dataset:
Tetracyclines Inhibit Connective Tissue Breakdown by Multiple Non-Antimicrobial Mechanisms (1998)

A seminal experiment involving a germ-free rat model of connective tissue breakdown (followed soon thereafter by a series of in vitro studies) identified an unexpected non-antimicrobial property of tetracyclines (TCs). This ability of TCs to inhibit matrix metalloproteinases (MMPs) such as collagenase was found to reflect multiple direct and indirect mechanisms of action, and to be therapeutically useful in a variety of dental (e.g., adult periodontitis) and medical (e.g., arthritis, osteoporosis, cancer) diseases. The site on the TC molecule responsible for its MMP-inhibitory activity was identified which led to the development of a series of chemically modified non-antimicrobial analogs, called CMTs, which also have therapeutic potential but do not appear to induce antibiotic side-effects. Longitudinal double-blind studies on humans with adult periodontitis have demonstrated that a sub-antimicrobial dose of doxycycline (previously reported to suppress collagenase activity in the periodontal pocket) is safe and effective and has recently been approved by the FDA as an adjunct to scaling and root planing.
The Internal Transcribed Spacer Region, a New Tool for Use in Species Differentiation and Delineation of Systematic Relationships within the Campylobacter Genus (2010)

The Campylobacter genus consists of a number of important human and animal pathogens. Although the 16S rRNA gene has been used extensively for detection and identification of Campylobacter species, there is currently limited information on the 23S rRNA gene and the internal transcribed spacer (ITS) region that lies between the 16S and 23S rRNA genes. We examined the potential of the 23S rRNA gene and the ITS region to be used in species differentiation and delineation of systematic relationships for 30 taxa within the Campylobacter genus. The ITS region produced the highest mean pairwise percentage difference (35.94%) compared to the 16S (5.34%) and 23S (7.29%) rRNA genes. The discriminatory power for each region was further validated using Simpson's index of diversity (D value). The D values were 0.968, 0.995, and 0.766 for the ITS region and the 23S and 16S rRNA genes, respectively. A closer examination of the ITS region revealed that Campylobacter concisus, Campylobacter showae, and Campylobacter fetus subsp. fetus harbored tRNA configurations not previously reported for other members of the Campylobacter genus. We also observed the presence of strain-dependent intervening sequences in the 23S rRNA genes. Neighbor-joining trees using the ITS region revealed that Campylobacter jejuni and Campylobacter coli strains clustered in subgroups, which was not observed in trees derived from the 16S or 23S rRNA gene. Of the three regions examined, the ITS region is by far the most cost-effective region for the differentiation and delineation of systematic relationships within the Campylobacter genus.
The discriminating power of a risk score for postoperative vomiting in adults undergoing various types of surgery (1998)

Score I was accurate in predicting PV in patients after most types of surgery with volatile anaesthetics, which suggests that this score might be useful for other centres as well.
Listeria monocytogenes as a probe to study cell-mediated immunity (1998)

The intracellular bacterium Listeria monocytogenes continues to serve as a model to define general paradigms of cell-mediated immunity. Genetic manipulations of the bacterium and its murine host have allowed us to begin dissecting the intricate interactions between this bacterium and the immune system. As a result, we have gained new insights into the mechanisms of immune surveillance, achieved better understanding of bacterial tactics for immune evasion and developed novel strategies in vaccine development.
Adaptive transmitting antenna methods for multipath environments (2002)

Adaptive transmitting antenna arrays hold great promise for increasing the capacity of mobile radio networks by reusing a channel among several users. To reuse bandwidth, a transmitting antenna array requires feedback information from the mobile receivers in order to track changes in the multipath environment. When the mobile is moving rapidly, the required feedback rates can become significant. We present a new method for transmission beamforming, which, by exploiting the subspace structure present in the spatial channel, requires much lower feedback data rates than previous methods.
Microgels Loaded with Gold Nanorods:  Photothermally Triggered Volume Transitions under Physiological Conditions (2006)

Photothermally driven volume transitions in polymer microgels have promising applications for site-specific drug delivery and photodynamic therapy. We studied the temperature-induced volume phase transitions for a series of thermoresponsive microgels of various compositions to find a system with a sharp transition in the physiologically relevant range spanning 38-41 degrees C in 0.01 M phosphate-buffered saline solution (pH = 7.4). We found that the poly(N-isopropylacrylamide-maleic acid) microgels showed an 8-fold decrease in size under the aforementioned conditions. These microgels were loaded with gold nanorods designed to absorb in the near-IR spectral range. Following irradiation at lambda = 809 nm, the microgels underwent a large, reversible, photothermally triggered change in volume. We believe that this microgel system is a promising candidate for photothermally controlled drug release.
Models of liver fibrosis: exploring the dynamic nature of inflammation and repair in a solid organ (2007)

Models of liver fibrosis, which include cell culture models, explanted and biopsied human material, and experimental animal models, have demonstrated that liver fibrosis is a highly dynamic example of solid organ wound healing. Recent work in human and animal models has shown that liver fibrosis is potentially reversible and, in specific circumstances, demonstrates resolution with a restoration of near normal architecture. This Review highlights the manner in which studies of models of liver fibrosis have contributed to the paradigm of dynamic wound healing in this solid organ.
Binding of immunoglobulin G aggregates and immune complexes in human sera to Staphylococci containing protein A. (1979)

Using the Cowan I strain of Staphylococcus aureus, we compared the binding properties of human monomeric immunoglobulin (Ig)G and oligomeric or complexed IgG. Heat-aggregated IgG served as a model for complexed IgG and heat-killed, formalin-fixed S. aureus (StaphA) as a cellular receptor for IgG, in determining the parameters for oligomeric and monomeric binding. Because of its capacity for multipoint attachment, complexed IgG binding was favored over monomeric IgG binding, and this preferential binding was demonstrated kinetically in equivalent forward rates of binding but in a much slower rate of release from StaphA receptors. From binding studies, we determined which conditions maximize complexes IgG binding and minimized monomeric IgG binding and applied them to the development of an assay for aggregated IgG and immune complexes in human sera. The StaphA binding assay that was devised is quantitative, sensitive, and not complement dependent. It is relatively unaffected by factors such as heparin, complement fixation, native antibodies, and immunoglobulin concentrations, but is affected by the presence of rheumatoid factors. It compares favorably with two other complement-dependent assays of immune complexes, the 125I-Clq binding assay and the Raji cell assay, in terms of sensitivity and the size of immune complexes detected. Studies on the potential of the assay for detecting, isolating, and characterizing immune complexes in biological fluids are presented.
Quantitative analysis of TALE–DNA interactions suggests polarity effects (2013)

Transcription activator-like effectors (TALEs) have revolutionized the field of genome engineering. We present here a systematic assessment of TALE DNA recognition, using quantitative electrophoretic mobility shift assays and reporter gene activation assays. Within TALE proteins, tandem 34-amino acid repeats recognize one base pair each and direct sequence-specific DNA binding through repeat variable di-residues (RVDs). We found that RVD choice can affect affinity by four orders of magnitude, with the relative RVD contribution in the order NG > HD ≈ NN >> NI > NK. The NN repeat preferred the base G over A, whereas the NK repeat bound G with 10(3)-fold lower affinity. We compared AvrBs3, a naturally occurring TALE that recognizes its target using some atypical RVD-base combinations, with a designed TALE that precisely matches 'standard' RVDs with the target bases. This comparison revealed unexpected differences in sensitivity to substitutions of the invariant 5'-T. Another surprising observation was that base mismatches at the 5' end of the target site had more disruptive effects on affinity than those at the 3' end, particularly in designed TALEs. These results provide evidence that TALE-DNA recognition exhibits a hitherto un-described polarity effect, in which the N-terminal repeats contribute more to affinity than C-terminal ones.
Expression of Tie‐2 in human peripheral and autonomic nervous system (2003)

Tie-2, a tyrosine kinase receptor, is essential for vascular integrity by regulating cellular adhesion between pericytes and endothelial cells. The aim of this study was to identify sites of expression of Tie-2 other than the vasculature. Tie-2 expression was first detected in human colon by Western blotting and reverse-transcription-polymerase chain reaction (RT-PCR) in tissue extracts. The presence of the Tie-2 mRNA and protein was detected by immunohistochemistry and in situ hybridization in cells of the colon myenteric and submucosal plexus, in both neuronal and Schwann cells. Tie-2 protein was also found in the nervous system of the female urogenital tract. In the human sciatic nerve and schwannoma, RT-PCR, Western blotting and immunohistochemistry analysis further confirmed the presence of Tie-2 mRNA and protein in non-autonomic peripheral nervous tissue. In conclusion, using several approaches and tissues we have demonstrated the presence of Tie-2 in human peripheral and autonomic nervous tissue, suggesting a role for Tie-2 in neural tissue. Thus, attempts to disrupt the tumour vessels by manipulation of the Tie-2 system in tumours may result in side-effects in peripheral nerves.
Non‐Invasive Cardiovascular Hemodynamic Measurements (2004)

Introduction Blood-Pressure Measurement Overview of the Measurement Methods Brief Description of Measurement Principle and Summary of Accuracy Blood-Pressure Measurement at the Wrist by Local Pressurization Blood-Pressure Measurement at the Finger by Local Pressurization Blood-Pressure Measurement at the Posterior of the Thigh Cardiac Output Measurement Overview of Measurement Methods Basic Principle and Evaluation of Accuracy Replacement of Band Electrode by Spot-Electrode Array Development of a Prototype Ambulatory Cardiovascular Monitoring System and its Applications Intermittent Cardiovascular Hemodynamic Monitoring System Beat-By-Beat Cardiovascular Hemodynamic Monitoring System Summary and Conclusions Acknowledgments References
The development of high power Li/SOCl/sub 2/ batteries (2002)

Electrochemical testing and mathematical modeling has led to the design of Li/SOCl/sub 2/ batteries weighing 25 lbs capable of delivering 50 kW. The goal was to achieve the highest possible specific power and energy in a 4.2 kWh battery. The battery should deliver a minimum 2 kW/lb during periodic short discharges over its 5-10 year lifetime. This presents a number of difficult challenges especially for lithium batteries. Among these are: (1) the ability to provide safe high rate continuous and pulse discharge, (2) the ability to withstand the effects of anode passivation and corrosion over its long active stand, (3) the design for a practical 50 kW battery, (4) thermal management, (5) development of assembly methods, and (6) development of equipment and methods for test of such a large battery. The authors describes these efforts. Results of single cell and multicell discharges are presented and compared to model projections.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Generalized cofactoring for logic function evaluation (2003)

Logic evaluation of a Boolean function or relation is traditionally done by simulating its gate-level implementation, or creating a branching program using its Binary Decision Diagram (BDD) representation, or using a set of look-up tables. We propose a new approach called generalized cofactoring diagrams, which are a generalization of the above methods. Algorithms are given for finding the optimal cofactoring structure for free-ordered BDD's and generalized cube cofactoring under an average path length (APL) cost criterion. Experiments on multi-valued functions show superior results to previously known methods by an average of 30%. The framework has direct applications in logic simulation, software synthesis for embedded control applications, and functional decomposition in logic synthesis.
Combinatorial Synthesis of RGD Model Cyclic Peptides Utilizing a Palladium-Catalyzed Carbonylative Macrolactamization on a Polymer Support (2008)

A combinatorial synthesis of 24-member RGD models was accomplished on polymer-support. Ortho-, meta-, and para-iodobenzylamines loaded on an aldehyde linker by reductive amination were coupled with RGD sequences and various omega-amino acids by a split-and-pool method. Palladium-catalyzed carbonylative macrolactamization of the polymer-supported cyclization precursors, followed by acid cleavage, provided conformationally restricted RGD model cyclic peptides.
Troponin I is released in bloodstream of patients with acute myocardial infarction not in free form but as complex (1997)

Fourteen monoclonal antibodies (mAbs) against human cardiac troponin I (cTnI) were generated by commonly used experimental techniques. All these antibodies, as well as antibody 414 (HyTest), were specific for human cTnI. Fifteen antibodies thus obtained were tested in a sandwich cTnI immunofluorescence assay (altogether 196 combinations). Ten pairs giving the highest sensitivity were selected for further investigation. The effect of TnI-TnC complex formation on antibody interaction with antigen was analyzed. The formation of TnI-TnC complex results in a significant decrease of the interaction of mAbs with TnI for seven of 10 analyzed pairs of antibodies. Using two pairs of cTnI-specific mAbs, one that recognized only free cTnI but not cTnI complexed with cTnC, and another that could be used for measurement of total cTnI (free cTnI and cTnI in complex with cTnC), we demonstrated that the main part of cTnI in serum collected from acute myocardial infarction patients is presented in the complex from. We concluded that effective and reliable immunological detection of TnI is possible only when antibodies used for assay development recognize both free TnI and TnI complexed with other troponin components.
On Multiplicative Bidding Strategies (1980)

Some models of competitive bidding consider only bidding strategies in which the bid is a preselected multiple of an estimate of the value (or cost) of the subject of the auction. This paper examines the effect of such a restriction on these models. In order to do so, it is necessary to show that the ratio of two positive random variables (e.g., a cost and a cost estimate) cannot be statistically independent of each of them unless the ratio is always the same.
Redox Cycling of Human Methaemoglobin by H2O2Yields Persistent Ferryl Iron and Protein Based Radicals (1996)

The formation and reactivity of ferryl haemoglobin (and myoglobin), which occurs on addition of H2O2, has been proposed as a mechanism contributing to oxidative stress associated with human diseases. However, relatively little is known of the reaction between hydrogen peroxide and human haemoglobin. We have studied the reaction between hydrogen peroxide and purified (catalase free) human metHbA. Addition of H2O2 resulted in production of both ferryl haem iron (detected by optical spectroscopy) and an associated protein radical (detected by EPR spectroscopy). Titrating metHbA with H2O2 showed that maximum ferryl levels could be obtained at a 1:1 stoichiometric ratio of haem to H2O2. No oxygen was evolved during the reaction, indicating that human metHbA does itself not possess catalytic activity. The protein radicals obtained in this reaction reached a steady state concentration, during hydrogen peroxide decomposition, but started to decay once the hydrogen peroxide had been completely exhausted. The presence of catalase, at concentrations around 10(4) fold lower than metHb, increased the apparent stoichiometry of the reaction to 1 mol metHb: approximately 20 mol H2O2 and abolished the protein radical steady state. The biological implications for these results are discussed.
Gene Targeting in Primary Fetal Fibroblasts from Sheep and Pig (2001)

Nuclear transfer offers a new cell-based route for introducing precise genetic modifications in a range of animal species. However, significant challenges, such as establishment of somatic gene targeting techniques, must be overcome before the technology can be applied routinely. In this report, we describe targeted deletion at the GGTA1 (alpha 1,3-galactosyl transferase) and PrP (prion protein) loci in primary fibroblasts from livestock. We place particular emphasis on the growth characteristics of the primary cell cultures, since these are key to determining success.
Flavone-8-acetic acid augments systemic natural killer cell activity and synergizes with IL-2 for treatment of murine renal cancer. (1988)

The investigational drug flavone-8-acetic acid (FAA) potently augments NK activity in the spleen, liver, lungs, and peritoneum in a dose-dependent manner after i.v. or i.p. administration. Augmented NK activity peaks by 24 h after FAA injection and returns to normal after 6 days. Combined treatment of established murine renal cancer with FAA and rIL-2 results in up to 80% long term survival whereas FAA or rIL-2 alone were unable to induce any long term survivors. The optimal dose of rIL-2 required for use with FAA was in the range of 10,000 to 30,000 U/day. Further studies demonstrated that the regimen of FAA plus rIL-2 administration that was effective in treating established murine renal cancer also induced a more potent augmentation of NK activity than did either FAA or rIL-2 alone. Subsequent studies revealed that the therapeutic effectiveness of FAA plus rIL-2 was significantly reduced when tumor-bearing mice were treated with anti-asialo GM1 serum. These results are consistent with a role for augmented NK activity in the therapeutic effects of FAA plus rIL-2 murine renal cancer. In addition, these studies demonstrate that FAA and rIL-2 is a useful approach for cancer treatment in that subtoxic doses of rIL-2 can be used and significant anti-tumor efficacy occurs even without accompanying adoptive immunotherapy.
Realizing a foundation for programmability of ATM networks with the binding architecture (1996)

A conceptual framework, called the binding model, for the creation, deployment and management of multimedia services on ATM-based broadband networks with end-to-end quality-of-service (QoS) guarantees is presented. The key function of the associated binding architecture is to provide an open programmable environment that facilitates the easy creation of flexible services. We describe the implementation of a prototype binding architecture called xbind as a middleware toolkit for building open programmable ATM networks. Finally, we present our initial experiences with experimenting and deploying xbind over an ATM testbed and highlight some of the lessons learned.
A double-blind clinical trial in weight control. Use of fenfluramine and phentermine alone and in combination (1984)

• We performed a double-blind, controlled clinical trial comparing phentermine resin (30 mg in the morning), fenfluramine hydrochloride (20 mg three times a day), and a combination of phentermine resin (15 mg in the morning) and fenfluramine hydrochloride (30 mg before the evening meal), and placebo. We combined low doses of the two drugs to maintain efficacy while diminishing adverse effects. Eighty-one people with simple obesity (130% to 180% of ideal body weight) participated. Individualized diets were prescribed and discussed again during the 24-week study period. Weight loss in those receiving the combination (8.4±1.1 kg; mean±SEM) was significantly greater than in those receiving placebo (4.4±0.9 kg; Scheffé's test) and equivalent to that of those receiving fenfluramine (7.5±1.2 kg) or phentermine (10.0±1.2 kg) alone. Adverse effects were less frequent with the combination regimen than with other active treatments. Thirty-seven participants dropped out of the study, 18 for reasons related to drug treatment. Combining fenfluramine and phentermine capitalized on their pharmacodynamic differences, resulting in equivalent weight loss, fewer adverse effects, and better appetite control. (<i>Arch Intern Med</i>1984;144:1143-1148)
PREDICTING NITROGEN AND DIGESTIBILITY OF FORAGES USING NEAR INFRARED REFLECTANCE PHOTOMETRY (1981)

A Technicon Infra Alyzer 2.5, near infrared reflectance analyzer equipped with the six filters (1.68, 1.94, 2.10, 2.15, 2.23, 2.31 μm) which are used for the estimation of percent nitrogen, oil and moisture of grain crops was evaluated for the analyses of percent total nitrogen, in vitro and in vivo dry matter digestibility in grasses, legumes and grass-legume mixtures. Of the three quality parameters, only percent nitrogen was estimated with an acceptable degree of accuracy. The analyzer, therefore, has a potential for rapid nitrogen analysis of grasses, legumes and grass-legume mixtures. Correlation coefficients of 0.90 and above were obtained between infrared and Kjeldahl nitrogen when the nitrogen content of grasses or legume test samples was derived on either a grass or a legume calibration. A slight decrease in the standard error of prediction occurred when grass and legume calibrations were used to estimate nitrogen content of grass and legume samples, respectively. To insure accuracy, samples used to develop calibrations as well as those to be analyzed should be finely ground. In addition, the moisture content of the samples must be kept within the moisture range of the calibration.
Incorporation of Non-natural Amino Acids Improves Cell Permeability and Potency of Specific Inhibitors of Proteasome Trypsin-like Sites (2013)

Proteasomes degrade the majority of proteins in mammalian cells by a concerted action of three distinct pairs of active sites. The chymotrypsin-like sites are targets of antimyeloma agents bortezomib and carfilzomib. Inhibitors of the trypsin-like site sensitize multiple myeloma cells to these agents. Here we describe systematic effort to develop inhibitors with improved potency and cell permeability, yielding azido-Phe-Leu-Leu-4-aminomethyl-Phe-methyl vinyl sulfone (4a, LU-102), and a fluorescent activity-based probe for this site. X-ray structures of 4a and related inhibitors complexed with yeast proteasomes revealed the structural basis for specificity. Nontoxic to myeloma cells when used as a single agent, 4a sensitized them to bortezomib and carfilzomib. This sensitizing effect was much stronger than the synergistic effects of histone acetylase inhibitors or additive effects of doxorubicin and dexamethasone, raising the possibility that combinations of inhibitors of the trypsin-like site with bortezomib or carfilzomib would have stronger antineoplastic activity than combinations currently used clinically.