gebhart/patrepeval huggingface dataset:
Novel Antimicrobial Peptide of Human Epididymal Duct Origin1 (2002)

HE2, a gene expressed specifically in human epididymis, gives rise to multiple mRNAs that encode a group of small cationic secretory peptides. Localization of HE2 within the defensin gene cluster and prediction that -defensin-like modules exist suggest that these peptides have antimicrobial activity and represent components of the innate epithelial defense system of the epididymal duct. Reverse transcription-polymerase chain reaction analysis confirmed the occurrence of eight human HE2derived transcripts, including minor mRNA variants, that had previously been shown only in animal species. Employing isoform-specific antibodies against the predicted HE2 products, multiple 4-to 8-kDa peptides were detected in human epididymal epithelium, epididymal fluid, and ejaculate. N-terminal microsequencing has suggested a proteolytic processing of these peptides by a furin-like proprotein convertase, which cleaves a propiece from the longer precursor peptides. HE2 and HE21, representing major peptide isoforms in the human epididymis, were recombinantly expressed, and their susceptibility to furin cleavage was demonstrated in vitro and in vivo. Processed recombinant peptides and chemosynthetic fragments were included in antimicrobial tests. In addition to the -defensin-like HE21 with its expected antibacterial function, HE2 C-terminal fragments showed antibacterial activity against Escherichia coli, although it showed no significant similarity to -defensins nor to any other known protein family. epididymis, gene regulation, sperm 1
Cloning and expression of the Escherichia coli K-12 sad gene (1988)

The Escherichia coli K-12 sad gene, which encodes an NAD-dependent succinic semialdehyde dehydrogenase, was cloned into a high-copy-number vector. Minicells carrying a sad+ plasmid produced a 55,000-dalton peptide, the probable sad gene product.
Randomized Prospective Evaluation of Frozen-Section Analysis for Follicular Neoplasms of the Thyroid (2001)

For the vast majority of patients (96.4%) with follicular neoplasms of the thyroid, frozen section is neither informative nor cost-effective.
Sterilization of Teeth by Gamma Radiation (1994)

Clinical simulations and restorative materials research and development conducted in vitro require the use of large numbers of extracted teeth. The simultaneous need for infection control procedures and minimal alterations of structure and properties of the tissue prompted this study of gamma irradiation as a method to eliminate microbes associated with extracted teeth and their storage solutions. Evaluations of potential change in structure of dentin were conducted in terms of permeability, Fourier transform infrared spectroscopy (FTIR), and optical properties. The dose required for sterilization by gamma irradiation was established by means of a tooth model inoculated with Bacillus subtilis (10(8) organisms/mL). Sterilization occurred at a dose above 173 krad with use of a Cesium (Cs137) radiation source. Gamma irradiation did not affect permeability of crown segments of dentin. A comparative evaluation of the effects of four sterilization methods on dentin disks was based on FTIR and ultraviolet-visible-near infrared (UV/VIS/NIR) spectra before and after sterilization by (1) gamma irradiation; (2) ethylene oxide; (3) dry heat; and (4) autoclaving. No detectable changes were found with gamma irradiation, but all other methods introduced some detectable change in the spectra. This suggests that common methods of sterilization alter the structure of the dentin, but gamma irradiation shows promise as a method which both is effective and introduces no detectable changes as measured by FTIR, UV/VIS/NIR, or permeability.
A technique of camera calibration using single view (2011)

This paper proposes a technique of camera calibration to calibrate a camera. It is easy for the proposed technique to extract the camera parameters with only one image using an iteration method. In this paper, radial and tangential lens distortion is modeled. The proposed technique divides original parameters into block of parameters. Each block of parameters is computed by minimizing a nonlinear error function after the intermediate parameters are linearly computed on each iteration. The formal distorted images and the distorted images with shifted principal point have been used to test the proposed technique and the conventional method. As the result, we have obtained good results.
Dual mode ultrasonic interferometry in multi-anvil high pressure apparatus using single-crystal olivine as the pressure standard (2004)

Acoustic measurements of compressional (P) and shear (S) wave travel times were performed in a 1000-ton uniaxial split-cylinder apparatus (USCA-1000) of the Kawai-type up to 10 GPa at room temperature, using dual mode lithium niobate transducers and ultrasonic interferometry. The cell pressures were calibrated continuously by in-situ measurements of the travel times in a single crystal San-Carlos olivine buffer rod inside the cell assembly. Elastic compressional and shear wave velocities in a dense, fine-grained polycrystalline Al2O3 were measured simultaneously to 10 GPa; from these data, the elastic moduli and their pressure derivatives were obtained for the longitudinal modulus {L 0 = 461(3) GPa, L 0′ = 7.0(1)}, the shear modulus {G 0 = 162(2) GPa, G 0′ = 1.9(1)} and the bulk modulus {K 0 = 245(3) GPa, K 0′ = 4.5(1)}.
Corticosteroids in rheumatoid arthritis (1998)

Papers p 811 

The millennium brings with it the 50th anniversary of Hench's discovery that corticosteroids might be used to treat rheumatoid arthritis.1 Attitudes towards such use have waxed and waned since then. Initial hope that steroids might dramatically alter the long term course of the disorder gave way to a recognition of the serious adverse effects that accompany high dose treatment. As a result the use of low dose corticosteroids in arthritis remains highly controversial.

Corticosteroids are used widely in medicine today. A recent survey in general practice found that 1.4% of patients aged over 54 were using corticosteroids at a mean dose of 8 mg daily2: rheumatoid arthritis was the indication in 23% of cases. Although rheumatologists claim to use steroids relatively infrequently, audits of patients attending outpatient departments suggest a high prevalence of use (as great as 80%). 3 4 What, then, is the quality of the evidence to support the use of corticosteroids in rheumatoid arthritis?

This question is best answered by considering the balance between the risks and benefits of steroid use for short periods (two to three months), with the objective …
Enzymic characterization of immunopurified prohormone convertase 2: Potent inhibition by a 7B2 peptide fragment (1995)

Prohormone convertase (PCs) are thought to mediate the controlled proteolysis of prohormones and neuropeptide precursors. While recombinant PC1 and furin are currently available, thus far it has not been possible to produce recombinant PC2. We have used conditioned medium obtained from the mouse insulinoma cell line beta TC3 to generate a working preparation of enzymatically active PC2 through immunopurification. Immunopurified PC2 cleaved the fluorogenic substrate Cbz-Arg-Ser-Lys-Arg-AMC in a time- and calcium-dependent manner. It was half-maximally stimulated at 75 microM Ca2+, had an optimum pH of 5, and exhibited PCMS and EDTA sensitivity similar to that reported for furin and PC1. The tight-binding inhibitor 27 kDa 7B2 was used to calculate the Kd for this inhibitor and the active enzyme concentration. The Kd was 7.3 +/- 1.7 nM, and the turnover rate of PC2 was 5.2 molecules substrate per enzyme molecule per minute. The specific activity was 4.9 nmol/micrograms/h (assuming a molecular mass for PC2 of 64 kDa). The enzyme preparation was able to cleave recombinant proenkephalin at at least four of the expected paired basic sites in the absence, but not in the presence, of 27 kDa 7B2. Since 21 kDa 7B2 is functionally inactive as a proteinase inhibitor, we examined the inhibitory activity of the carboxy-terminal portion of 27 kDa 7B2 (7B2 CT-peptide). Synthetic peptides were used to demonstrate that the 7B2 CT-peptide (a) represents a potent inhibitor of PC2 (Ki = 57 nM), (b) can block the conversion of proPC2 to PC2, and (c) can block the PC2-mediated conversion of proenkephalin to smaller peptide fragments.(ABSTRACT TRUNCATED AT 250 WORDS)
A novel pathophysiological-based panel of biomarkers for the diagnosis of nonalcoholic steatohepatitis. (2012)

Non-invasive biochemical markers are useful to distinguish between nonalcoholic steatohepatitis (NASH) and simple steatosis. The aim of this study was to test the diagnostic value of a panel of biomarkers derived from the pathophysiological events involved in the development of NASH. A total of 79 patients: 20 not-NASH and 59 NASH were included in the study. Definitive NASH was defined according to Kleiner's classification. In all subjects, parameters of the metabolic syndrome, insulin resistance (HOMA-IR), adiponectin, interleukin-6 (IL-6) and total cytokeratin-18 (M65 antigen) were determined. Univariate and multivariate analysis were used to identify independent predictors of NASH. In multivariate analysis three markers were independently predictors of NASH: adiponectin, IL-6 and M65 levels. In decreasing order, the independent predictors of NASH (NAS≥5) were M65 with an AUROC of 0.791, IL-6 with an AUROC of 0.727 and adiponectin with an AUROC of 0.709. The combination of two biomarkers yelded an AUROC of 0.828 for M65 and IL-6, 0.841 for adiponectin and M65 and 0.852 for adiponectin and IL-6. The best value was obtained by triple combination: adiponectin, M65 and IL-6 with and AUROC of 0.903, Sp=85.7% (PPV=94.2%) and Se=84.5% (NPV=66.7%). In conclusion, a novel pathophysiological - based panel of biomarkers combining total CK-18, IL-6 and adiponectin may be useful to predict NASH.
Basis for receptor specificity of nonecotropic murine leukemia virus surface glycoprotein gp70SU (1992)

Murine leukemia viruses (MuLVs) initiate infection of NIH 3T3 cells by binding of the viral envelope (Env) protein to a cell surface receptor. Interference assays have shown that MuLVs can be divided into four groups, each using a distinct receptor: ecotropic, polytropic, amphotropic, and 10A1. In this study, we have attempted to map the determinants within viral Env proteins by constructing chimeric env genes. Chimeras were made in all six pairwise combinations between Moloney MCF (a polytropic MuLV), amphotropic MuLV, and 10A1, using a conserved EcoRI site in the middle of the Env coding region. The receptor specificity of each chimera was determined by using an interference assay. We found that amphotropic receptor specificity of each chimera was determined by using an interference assay. We found that amphotropic receptor specificity seems to map to the N-terminal portion of surface glycoprotein gp70SU. The difference between amphotropic and 10A1 receptor specificity can be attributed to one or more of only six amino acid differences in this region. Nearly all other cases showed evidence of interaction between Env domains in the generation of receptor specificity. Thus, a chimera composed exclusively of MCF and amphotropic sequences was found to exhibit 10A1 receptor specificity. None of the chimeras were able to infect cells by using the MCF receptor; however, two chimeras containing the C-terminal portion of MCF gp70SU could bind to this receptor, while they were able to infect cells via the amphotropic receptor. This result raises the possibility that receptor binding maps to the C-terminal portion of MCF gp70SU but requires MCF N-terminal sequences for a functional interaction with the MCF receptor.
Red, green, and blue LEDs for white light illumination (2002)

The rapid improvement of the white light efficacy achievable with light-emitting diodes (LEDs) opens up new opportunities in the general illumination market. An LED light source made of red, green, and blue LEDs (RGB-LEDs) can provide the unique feature of color variability, allowing the user to select the desired color point of the lamp. The white light color accuracy required in the general illumination market is a challenge for LEDs. The variation in lumen output and wavelength for nominally identical LEDs and the change in these parameters with temperature and time result in an unacceptably high variability in the color point of white light from RGB-LEDs. In this paper, we show that these problems can be overcome with suitable feedback control schemes that can be implemented in a practical LED lamp. We present results of experiment and theoretical modeling that shows the performance that can be achieved with a number of different control schemes.
Cellular Polymer Monoliths Made via Pickering High Internal Phase Emulsions (2007)

Cellular polymer monoliths are prepared using water-in-oil Pickering emulsions stabilized with two different types of microgels to create high internal phase emulsion (HIPE) templates and subsequent radical polymerization of the continuous monomer phase. Individual cell walls are lined with particles, and the creation of different micro-environments amongst cells is demonstrated.
The Use of a Novel Immune Complex to Isolate Neutralizing Antibodies to Basic Fibroblast Growth Factor (1993)

This paper describes the use of a novel immune complex (IC) to generate neutralizing monoclonal antibodies to basic fibroblast growth factor. The IC uses a non-neutralizing monoclonal antibody bound to Protein A, itself coated on a solid support, to capture the antigen. Presumably, the capture antibody binds to a region of the antigen distal from the neutralizing site. Animals, immunized with the IC, develop a neutralizing titer and hybridomas producing neutralizing antibodies to basic FGF were obtained. This method can be used to generate neutralizing monoclonals to highly conserved growth factors whenever the antigen can be captured at a site distal to the neutralizing eptiopes.
Citron Binds to PSD-95 at Glutamatergic Synapses on Inhibitory Neurons in the Hippocampus (1999)

Synaptic NMDA-type glutamate receptors are anchored to the second of three PDZ (PSD-95/Discs large/ZO-1) domains in the postsynaptic density (PSD) protein PSD-95. Here, we report that citron, a protein target for the activated form of the small GTP-binding protein Rho, preferentially binds the third PDZ domain of PSD-95. In GABAergic neurons from the hippocampus, citron forms a complex with PSD-95 and is concentrated at the postsynaptic side of glutamatergic synapses. Citron is expressed only at low levels in glutamatergic neurons in the hippocampus and is not detectable at synapses onto these neurons. In contrast to citron, p135 SynGAP, an abundant synaptic Ras GTPase-activating protein that can bind to all three PDZ domains of PSD-95, and Ca2+/calmodulin-dependent protein kinase II (CaM kinase II) are concentrated postsynaptically at glutamatergic synapses on glutamatergic neurons. CaM kinase II is not expressed and p135 SynGAP is expressed in less than half of hippocampal GABAergic neurons. Segregation of citron into inhibitory neurons does not occur in other brain regions. For example, citron is expressed at high levels in most thalamic neurons, which are primarily glutamatergic and contain CaM kinase II. In several other brain regions, citron is present in a subset of neurons that can be either GABAergic or glutamatergic and can sometimes express CaM kinase II. Thus, in the hippocampus, signal transduction complexes associated with postsynaptic NMDA receptors are different in glutamatergic and GABAergic neurons and are specialized in a way that is specific to the hippocampus.
The dhfr oribeta-binding protein RIP60 contains 15 zinc fingers: DNA binding and looping by the central three fingers and an associated proline-rich region (2000)

Initiation of DNA replication occurs with high frequency within oribeta, a short region 3' to the Chinese hamster dhfr gene. Homodimers of RIP60 (replication initiation-region protein 60 kDA) purified from nuclear extract bind two ATT-rich sites in oribeta and foster the formation of a twisted 720 bp DNA loop in vitro. Using a one hybrid screen in yeast, we have cloned the cDNA for human RIP60. RIP60 contains 15 C(2)H(2)zinc finger (ZF) DNA binding motifs organized in three clusters, termed hand Z1 (ZFs 1-5), hand Z2 (ZFs 6-8) and hand Z3 (ZFs 9-15). A proline-rich region is located between hands Z2 and Z3. Gel mobility shift and DNase I footprinting experiments show hands Z1 and Z2 independently bind the oribeta RIP60 sites specifically, but with different affinities. Hand Z3 binds DNA, but displays no specificity for RIP60 sites. Ligation enhancement, DNase I footprinting, and atomic force microscopy assays show that hand Z2 and a portion of the associated proline-rich region is sufficient for protein multimerization on DNA and DNA looping in vitro. Polyomavirus origin-dependent plasmid replication assays show RIP60 has weak replication enhancer activity, suggesting that RIP60 does not harbor a transcriptional transactivation domain. Because vertebrate origins of replication have no known consensus sequence, we suggest that sequence-specific DNA binding proteins such as RIP60 may act as accessory factors in origin identification prior to the assembly of pre-initiation complexes.
Incidence of Adverse Drug Reactions in Hospitalized Patients (1998)

The incidence of serious and fatal ADRs in US hospitals was found to be extremely high. While our results must be viewed with circumspection because of heterogeneity among studies and small biases in the samples, these data nevertheless suggest that ADRs represent an important clinical issue.
How to implement effective prediction and forwarding for fusable dynamic multicore architectures (2013)

Dynamic multicore architectures, that fuse and split cores at run time, potentially offer a level of performance/energy agility that static multicore designs cannot achieve. Conventional ISAs, however, have scalability limits to fusion. EDGE-based designs offer greater scalability but to date have been performance limited by significant microarchitectural bottlenecks. This paper addresses these issues and makes three major contributions. First, it proposes Iterative Path Prediction to address low next block prediction accuracy and low speculation rates. It achieves close to taken/not-taken prediction accuracy for multi-exit instruction blocks while also speculating the predicated execution path within the block. Second, the paper proposes Exposed Operand Broadcasts to address the overhead of operand delivery for high fanout instructions by exposing a small number of broadcast operands in the ISA. Third, we present a scalable composable architecture called T3 that uses these mechanisms and show it can operate across a wide range of power and performance spectrum by increasing energy efficiency and performance significantly. Compared to previous EDGE designs, T3 improves energy efficiency by about 2x and performance by up to 50%.
Time-lapse observation of cell alignment on nanogrooved patterns (2009)

Cells elongate on a surface with nanogrooved (NG) patterns and align along that pattern. Although various models have been proposed for how this occurs, much remains to be clarified. Studies with fixed cells do not lend themselves to answering some of these open questions. In this study, the dynamic behaviours of living mesenchymal stem cells on an NG substrate with a 200 nm groove depth, an 870 nm ridge width and a 670 nm groove width were observed using time-lapse microscopes. We found that filopodia moved as if they were probing the surroundings of the cell protrusion, and then some cell protrusions invaded the probed areas. Cell protrusions that extended perpendicular to the NG direction tended to retract more rapidly than those parallel to the grooves. From these facts, we think that the retracting phase of cell protrusions play a rule in cell alignment along the NG patterns.
Atherogenesis: a postprandial phenomenon. (1979)

The hypothesis that plasma chylomicrons in persons who ingest a cholesterol-rich diet are atherogenic is evaluated. Evidence is presented that in humans, and experimental animals, chylomicron remnants as well as low-density lipoproteins are taken up by arterial cells. In persons who do not have familial hyperlipoproteinemia, atherogenesis may occur during the postprandial period. Research directions that may contribute to the evaluation of chylomicron remnants as a risk factor for atherogenesis are discussed. Lipoprotein studies after administration of a test meal containing fat and cholesterol are urgently needed.
A 20-mA-receive, 55-mA-transmit, single-chip GSM transceiver in 0.25-μm CMOS (1999)

This paper presents a low-power 900-MHz GSM transceiver developed in a 0.25-/spl mu/m CMOS technology. The superhet receiver, with a single intermediate frequency at 71 MHz, has an overall worst case noise figure of 8.1 dB, including all filters. The overall gain can be digitally controlled over 98-dB range. The receiver consumes only 19.5 mA from the 2.5-V voltage supply while achieving the required blocking and intermodulation performance. The direct conversion transmitter has a fully integrated phase shifter and provides a 2-mW signal to the power amplifier with a low level of spurious emissions. The transmitted Gaussian minimum shift keying signal has an RMS average phase error <2/spl deg/, and the overall current consumption of the transmitter is 55 mA.
Distributed supply chain simulation across enterprise boundaries (2002)

The effective practice of supply chain management (SCM) is crucial to improve corporations' competitive advantage. Many corporations have built simulation models to facilitate the application of simulation in designing, evaluating, and optimizing their supply chain. Traditionally, a supply chain involves only a single enterprise with multiple facilities and distribution centers. Hence, sharing of detailed simulation models is not a problem in this scenario. But in recent years, the scope of SCM has evolved to cross the enterprise boundaries. Applying simulation in designing, evaluating, and optimizing the supply chain becomes more difficult since the participating corporations might not be willing to share their simulation models with partners. Distributed simulation techniques are presented as an enabling technology that allows corporations to construct a cross enterprise simulation while hiding model details within the enterprise. This can be realized by either building the simulation on top of the Runtime Infrastructure of the High Level Architecture or building the simulation on top of a customized distributed discrete event simulation protocol. These alternative approaches are compared in terms of their performance and interoperability. The comparison of the performance is done through a benchmarking test of a semiconductor supply chain model.
Towards a new predictor of AIDS progression through the quantisation of HIV‐1 DNA copies by PCR in HIV‐infected individuals (1992)

The proviral copy (PVC) number in peripheral blood mononuclear cells (PBMCs) of human immunodeficiency virus (HIV)-infected individuals was measured by a quantitative polymerase chain reaction (PCR) assay to determine over time the relation between the viral load and the evolution towards the disease in HIV-infected people: 67 anti-HIV-1 positive individuals (60 stage II/III, 7 stage IV) were studied. The mean PVC number per 1.5 x 10(5) PBMCs in stage II/III individuals (14.4 +/- 14.2) and in stage IV individuals (32.2 +/- 22.9) was significantly different (P < 0.02). PVC number was inversely correlated to the CD4 lymphocyte count (P < 0.01). In the logistic regression, the PVC number was a better marker of evolution towards the disease than the CD4 lymphocyte count. The mean proportion of HIV-infected PBMCs in stage IV individuals and in stage II/III individuals was 1/4606 and 1/10714, respectively.