gebhart/patrepeval huggingface dataset:
Distributed desktop conferencing system (MERMAID) based on group communication architecture (2002)

A distributed multiparty desktop conferencing system called MERMAID is described. This system allows a group of users, seated at their desks, to conduct a meeting from their personal computers (PC). Participants can jointly view and process multimedia conference documents, including text, graphics, scanned images, and handwritten figures they are sharing, and they can simultaneously interchange voice and video images through ISDN (integrated services digital network) and high speed data network, etc. MERMAID is implemented using OS/2-based PCs with electronic writing pads, image scanners, microphone-installed loudspeakers, video cameras, etc. MERMAID is designed based on the group communication architecture, a framework for supporting group cooperative work in a distributed environment. It consists of two models: a function model, which defines hierarchically structured service functions, and a system model, which provides client-server model-based service interfaces and multimedia communication protocols.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Hyperspectral Image Processing for Automatic Target Detection Applications (2003)

This article presents an overview of the theoretical and practical issues associated with the development, analysis, and application of detection algorithms to exploit hyperspectral imaging data. We focus on techniques that exploit spectral information exclusively to make decisions regarding the type of each pixel—target or nontarget—on a pixel-by-pixel basis in an image. First we describe the fundamental structure of the hyperspectral data and explain how these data influence the signal models used for the development and theoretical analysis of detection algorithms. Next we discuss the approach used to derive detection algorithms, the performance metrics necessary for the evaluation of these algorithms, and a taxonomy that presents the various algorithms in a systematic manner. We derive the basic algorithms in each family, explain how they work, and provide results for their theoretical performance. We conclude with empirical results that use hyperspectral imaging data from the HYDICE and Hyperion sensors to illustrate the operation and performance of various detectors.
A functional analysis of the P‐element gene‐transfer vector in insects (1993)

A P-element mobility excision assay was used to determine if non-drosophilid insects could support P gene vector function. Present studies included the testing of Muscids, Sphaerocerids, and Phorids, none of which were able to support P mobility. A new excision indicator plasmid was developed allowing the detection and recovery of virtually all P-element excision products. The frequency and sequence analysis of excision products from Drosophila melanogaster and another drosophilid, Chymomyza procnemis, indicated both quantitative and qualitative differences in the activity of transposase. The quantitative relationships observed in the original assay were maintained, and qualitative differences in transposase activity were reflected in the sequence of the empty donor sites. The results suggest that host factors are involved in cutting and ligating P-element DNA during excision, with transposase facilitating these processes. Possible limitations on P mobility by abnormal transposase transcript processing were tested in Anastrepha suspensa using transposase-encoding plasmids having deleted intron sequences. A transposase cDNA supported normal P excision in D. melanogaster, and a low level of mobility in A. suspensa. Possible applications of gene transfer in insects are presented, in particular methods to genetically sterilize and sex insects for the sterile-insect technique.
Statil suppresses cancer cell growth and proliferation by the inhibition of tumor marker AKR1B10 (2014)

Aldo-keto reductase 1B10 (AKR1B10) is an oncogenic carbonyl reductase that eliminates α,β-unsaturated carbonyl compounds/lipid peroxides and mediates retinoic acid signaling. Targeted inhibition of AKR1B10 activity is a newly emerging strategy for cancer therapy. This study evaluated the inhibitory activity of a small chemical statil towards AKR1B10 and tested its antiproliferative activity in breast (BT-20) and lung (NCI-H460) cancer cells that express AKR1B10. Experimental results showed that statil inhibited AKR1B10 enzyme activity efficiently, with an IC50 at 0.21±0.06 µmol/l. Exposing BT-20 and NCI-H460 cells to statil and diclofenac, a selective AKR1B10 inhibitor, led to dose-dependent inhibition of cell growth and proliferation and plating efficiency. At higher doses (50 µmol/l or higher), statil induced cell death with apoptotic characteristics, such as DNA fragmentation and Annexin-V staining. Furthermore, statil enhanced the susceptibility of cells to acrolein, an active substrate of AKR1B10. Taken together, these data suggest that statil possesses potent antiproliferative activity by inhibiting AKR1B10 activity.
Physiology of Mastitis and Factors Affecting Somatic Cell Counts (1994)

Inflammation of the mammary gland that results from the introduction and multiplication of pathogenic microorganisms in the mammary gland is a complex series of events leading to reduced synthetic activity, compositional changes, and elevated SCC. The magnitude and temporal relationships of these responses vary with nutritional status, other animal factors, and the pathogen involved. Because the elevation of SCC is a response to an insult to the mammary gland and is modulated by inflammatory mediators, the major factor influencing SCC is infection status. The effects of stage of lactation, age, season, and various stresses on SCC are minor if the gland is uninfected. Except for normal diurnal variation, few factors other than infection status have a significant impact on milk SCC.
Yeast open reading frame YCR14C encodes a DNA β-polymerase-like enzyme (1993)

We have shown by activity gel that overexpression in E. coli of a yeast chromosome 3 open reading frame (ORF) designated YCR14C and bearing homology to mammalian DNA polymerases beta results in a new DNA polymerase in the host cells. The molecular mass of this enzyme corresponded to the YCR14C-predicted 67 kDa protein, and NH2-terminal amino acid sequencing confirmed that the expressed protein was encoded by the yeast ORF. This new yeast DNA polymerase was purified to homogeneity from E.coli. In a fashion similar to that of mammalian beta-polymerases, the purified yeast enzyme exhibited distributive DNA synthesis on DNA substrate with a single-stranded template and processive gap-filling synthesis on a short-gapped DNA substrate. Activity of this yeast beta-polymerase-like enzyme was sensitive to the beta-polymerase inhibitor ddNTP and resistant to both 1 mM NEM and neutralizing antibody to E. coli DNA polymerase I. These results, therefore, indicate that YCR14C encodes a DNA beta-polymerase-like enzyme in yeast, and we name it DNA polymerase IV. Yeast strains harboring a deletion mutation of the pol IV gene are viable, they exhibit no increase in sensitivity to ultraviolet light, ionizing radiation or alkylating agents, and sporulation and spore viability are not affected in the mutant.
A G-quadruplex motif at the 3′ end of sgRNAs improves CRISPR–Cas9 based genome editing efficiency (2018)

Originating as a component of prokaryotic adaptive immunity, the type II CRISPR/Cas9 system has been repurposed for targeted genome editing in various organisms. Although Cas9 can bind and cleave DNA efficiently under in vitro conditions, its activity inside a cell can vary dramatically between targets owing to the differences between genomic loci and the availability of enough Cas9/sgRNA (single guide RNA) complex molecules for cleavage. Most methods have so far relied on Cas9 protein engineering or base modifications in the sgRNA sequence to improve CRISPR/Cas9 activity. Here we demonstrate that a structure based rational design of sgRNAs can enhance the efficiency of Cas9 cleavage in vivo. By appending a naturally forming RNA G-quadruplex motif to the 3' end of sgRNAs we can improve its stability and target cleavage efficiency in zebrafish embryos without inducing off-target activity, thereby underscoring its value in the design of better and optimized genome editing triggers.
COMPARATIVE EFFECTS OF ANALGESICS ON PAIN THRESHOLD, RESPIRATORY FREQUENCY AND GASTROINTESTINAL PROPULSION (1959)

In the rat, the ratio of the analgesic to the respiratory depressant potency was the same for morphine, codeine, diamorphine, methadone, dipipanone, piperidylisomethadone, phenadoxone, dextromoramide, and propoxyphene. The relative respiratory depressant activity of pethidine tended to be less, but the difference was not significant. The ratio of the analgesic dose to the dose preventing transport of a charcoal meal in the rat was about the same for morphine, codeine, pethidine, methadone, phenadoxone, dimethylthiambutene, and propoxyphene; the relative activities of these compounds in inhibiting the peristaltic reflex of the isolated guinea-pig ileum were also similar. However, because of differences in the slopes of regression lines in the charcoal meal test, some compounds (for example, morphine) had a greater effect on gastrointestinal propulsion than others (for example, pethidine) when given at moderate analgesic dose levels.In studies of the effects of intracisternal morphine in the rat, effects on the spinal reflex of the tail were to some extent dissociated from effects on the threshold for a squeak response. Further, the delaying of transport of a charcoal meal paralleled depression of respiratory rate, and this is evidence for the participation of a central as well as a peripheral action in the effect of morphine on the gastrointestinal tract. The delay in propulsion was reduced by nalorphine and increased by atropine and two general anaesthetic substances, but was unaffected by a number of other pharmacological agents.
Observation of 1/fα Noise of GaInP/GaAs Triple Barrier Resonant Tunneling Diodes (2005)

GaInP/GaAs triple barrier resonant tunneling diodes (TBRTDs) were fabricated and temperature dependence of noise measurements were carried out. The 1/fα dependent shaped noise was observed between 100 k and 300 MHz only when TBRTDs were biased in negative differential resistance (NDR) region. The result showed very small biased voltage dependence within the NDR region. The exponential factor α decreased as temperature increased. The possibilities of 1/fα dependent shaped noise were discussed.
Molecular Biology of Learning: Modulation of Transmitter Release (1982)

Until recently, it has been impossible to approach learning with the techniques of cell biology. During the past several years, elementary forms of learning have been analyzed in higher invertebrates. Their nervous systems allow the experimental study of behavioral, neurophysiological, morphological, biochemical, and genetic components of the functional (plastic) changes underlying learning. In this review, we focus primarily on short-term sensitization of the gill and siphon reflex in the marine mollusk, Aplysia californica. Analyses of this form of learning provide direct evidence that protein phosphorylation dependent on cyclic adenosine monophosphate can modulate synaptic action. These studies also suggest how the molecular mechanisms for this short-term form of synaptic plasticity can be extended to explain both long-term memory and classical conditioning.
Extended-Release Quetiapine as Adjunct to an Antidepressant in Patients With Major Depressive Disorder (2009)

clinicaltrials.gov Identifier: NCT00351910.
Identification of functional cis-acting elements within the rat liver S14 promoter (1991)

The structure of DNAase I hypersensitive site 1 (Hss-1), located adjacent to the 5' end of the rat liver S14 gene, is regulated by tissue-specific factors, and its formation correlates with the transcriptional activation of the S14 gene. We propose that tissue-specific trans-acting factors interacting with key cis-linked elements within this site function in the initiation of S14 gene transcription. To examine this hypothesis we used DNAase I footprint, gel shift and in vitro transcriptional analyses to identify cis-linked elements that function in the control of S14 gene transcription. Binding of rat liver nuclear proteins to the S14 promoter (from -8 to -464 bp) produced four DNAase I footprints (designated A-D). Gel shift studies showed that DNA-protein binding was tissue- and sequence-specific, differentially heat-sensitive, and abolished by proteinase K. The function of the four cis-acting elements was assessed by using an in vitro transcription initiation assay in which the S14 promoter was fused to a reporter gene (G-free cassette). Deletion studies showed that nuclear factors binding to regions A (-48 to -63 bp), B (-88 to -113 bp) and D (-286 to -310 bp) enhanced the rate of initiation of transcription, while proteins binding to region C (-227 to -244 bp) suppressed the rate of initiation of transcription. Based on oligonucleotide competition studies, we suggest that hepatic NF-1 (or a related protein) binding to the A region enhances the rate of initiation of S14 gene transcription. Since trans-acting factors interacting with regions B and D are found in liver but not in spleen or kidney, we suggest that the proteins interacting with these regions may be involved in the tissue-specific augmentation of S14 gene transcription.
Protein Storage Bodies and Vacuoles (1999)

Plants store proteins in embryo and vegetative cells to provide carbon, nitrogen, and sulfur resources for subsequent growth and development. The storage and mobilization cycles of amino acids that compose these proteins are critical to the life cycle of plants. Mechanisms for protein storage and
The alcohol dehydrogenases ofSaccharomyces cerevisiae: a comprehensive review (2008)

Alcohol dehydrogenases (ADHs) constitute a large family of enzymes responsible for the reversible oxidation of alcohols to aldehydes with the concomitant reduction of NAD(+) or NADP(+). These enzymes have been identified not only in yeasts, but also in several other eukaryotes and even prokaryotes. The ADHs of Saccharomyces cerevisiae have been studied intensively for over half a century. With the ever-evolving techniques available for scientific analysis and since the completion of the Yeast Genome Project, a vast amount of new information has been generated during the past 10 years. This review attempts to provide a brief summary of the wealth of knowledge gained from earlier studies as well as more recent work. Relevant aspects regarding the primary and secondary structure, kinetic characteristics, function and molecular regulation of the ADHs in S. cerevisiae are discussed in detail. A brief outlook also contemplates possible future research opportunities.
Molecular self-assembly of surfactant-like peptides to form nanotubes and nanovesicles (2002)

Several surfactant-like peptides undergo self-assembly to form nanotubes and nanovesicles having an average diameter of 30-50 nm with a helical twist. The peptide monomer contains 7-8 residues and has a hydrophilic head composed of aspartic acid and a tail of hydrophobic amino acids such as alanine, valine, or leucine. The length of each peptide is approximately equal to 2 nm, similar to that of biological phospholipids. Dynamic light-scattering studies showed structures with very discrete sizes. The distribution becomes broader over time, indicating a very dynamic process of assembly and disassembly. Visualization with transmission electron microscopy of quick-freeze/deep-etch sample preparation revealed a network of open-ended nanotubes and some vesicles, with the latter being able to "fuse" and "bud" out of the former. The structures showed some tail sequence preference. Many three-way junctions that may act as links between the nanotubes have been observed also. Studies of peptide surfactant molecules have significant implications in the design of nonlipid biological surfactants and the understanding of the complexity and dynamics of the self-assembly processes.
Real-Time Two-Dimensional Blood Flow Imaging Using an Autocorrelation Technique (1985)

A new blood Row imaging system is described that com- bines a conventional pulsed Doppler device and a newly developed au- tocorrelator. In the system blood flow within a given cross section of a live organ is displayed in real time. The direction of blood Row and its variance are expressed by means of a difference in color and its hue, respectively. Experiments were conducted with a mechanical and an electrical scanner using phantoms, and good agreement with the theory was obtained. Studies on clinical significance have also been carried out for normal and diseased hearts, and successful results have been found.
Tyrosine Kinase Inhibitors. 11. Soluble Analogues of Pyrrolo- and Pyrazoloquinazolines as Epidermal Growth Factor Receptor Inhibitors:  Synthesis, Biological Evaluation, and Modeling of the Mode of Binding (1997)

A new route to N-1-substituted pyrazolo- and pyrroloquinazolines has been developed from the known quinazolones 19 and 23, via conversion to the corresponding thiones, S-methylation to the thioethers, N-1-alkylation, and coupling with 3-bromoaniline. C-3-Substituted pyrroloquinazolines were prepared by Mannich base chemistry. A series of compounds bearing solubilizing side chains at these positions has been prepared and evaluated for inhibition of the tyrosine kinase activity of the isolated epidermal growth factor receptor (EGFR) and of its autophosphorylation in EGF-stimulated A431 cells. Several analogues, particularly C-3-substituted pyrroloquinazolines, retained high potency in both assays. A model for the binding of the general class of 4-anilinoquinazolines to the EGFR was constructed from structural information (particularly for the catalytic subunit of the cAMP-dependent protein kinase) and structure-activity relationships (SAR) in the series. In this model, the pyrrole ring in pyrroloquinazolines (and the 6- and 7-positions of quinazoline and related pyridopyrimidine inhibitors) occupies the entrance of the ATP binding pocket of the enzyme, with the pyrrole nitrogen located at the bottom of the cleft and the pyrrole C-3 position pointing toward a pocket corresponding to the ribose binding site of ATP. This allows considerable bulk tolerance for C-3 substituents and lesser but still significant bulk tolerance for N-1 substituents. The observed high selectivity of these compounds for binding to EGFR over other similar tyrosine kinases is attributed to the 4-anilino ring binding in an adjacent hydrophobic pocket which has an amino acid composition unique to the EGFR. The SAR seen for inhibition of the isolated enzyme by the pyrazolo- and pyrroloquinazolines discussed here is fully consistent with this binding model. For the N-1-substituted compounds, inhibition of autophosphorylation in A431 cells correlates well with inhibition of the isolated enzyme, as seen previously for related pyridopyrimidines. However, the C-3-substituted pyrroloquinazolines show unexpectedly high potencies in the autophosphorylation assay, making them of particular interest.
Site-Specific CO2 Adsorption and Zero Thermal Expansion in an Anisotropic Pore Network (2011)

Detailed neutron powder diffraction (NPD) experiments were carried out on the parent and CO2 adsorbed Mg-MOF-74 (MOF: metal–organic framework). Data collected at low temperature revealed two CO2 adsorption sites on the pore surface and multiple changes in the framework as a function of CO2 loading. Upon heating the samples to room temperature, the data revealed minimal changes in expansivity upon adsorption of up to 0.94 CO2/Mg (≈ 25% mass fraction). Further, temperature-dependent data collected on the bare framework reveals net zero thermal expansion between 10 and 475 K.
Noise trauma alters D‐[3H]aspartate release and AMPA binding in chinchilla cochlear nucleus (2004)

Exposure of adults to loud noise can overstimulate the auditory system, damage the cochlea, and destroy cochlear nerve axons and their synaptic endings in the brain. Cochlear nerve loss probably results from the death of cochlear inner hair cells (IHC). Additional degeneration in the cochlear nucleus (CN) is hypothesized to stem from overstimulation of the system, which may produce excitotoxicity. This study tested these predictions by exposing one ear of anesthetized adult chinchillas to a loud noise, which damaged the ipsilateral cochlea and induced degeneration in the glutamatergic cochlear nerve. During the first postexposure week, before cochlear nerve axons degenerated, glutamatergic synaptic release in the ipsilateral CN was elevated and uptake was depressed, consistent with hyperactivity of glutamatergic transmission and perhaps with the operation of an excitotoxic mechanism. By 14 days, when cochlear nerve fibers degenerated, glutamatergic synaptic release and uptake in the CN became deficient. By 90 days, a resurgence of transmitter release and an elevation of AMPA receptor binding suggested transmission upregulation through plasticity that resembled changes after mechanical cochlear damage. These changes may contribute to tinnitus and other pathologic symptoms that precede and accompany hearing loss. In contrast, the other ear, protected with a silicone plug during the noise exposure, exhibited virtually no damage in the cochlea or the cochlear nerve. Altered glutamatergic release and AMPA receptor binding activity in the CN suggested upregulatory plasticity driven by signals emanating from the CN on the noise-exposed side.
Contribution of proteomics to colorectal cancer diagnosis (2007)

Colorectal cancer is the second cause of cancer related death in developed countries. It is of major concern for public health authorities which are interested in large population screening for CRC, as early identification leads to decreased mortality. Unfortunately classical clinical diagnosis methods are too expensive to be applied for large screening. The development of rapid, low cost, easy and accurate tools for CRC diagnosis is needed. Biomarkers as sensitive than specific, able to achieve prognosis of CRC and correlated to clinical features still remain elusive. But the growing fields of new techniques like proteomic ones might be a suitable option to discover new specific biomarkers for CRC and for developing new tools of diagnosis. These techniques have already given new insights in various cancers and other diseases. This paper reviews the current knowledge in the fields of proteomics dedicated to CRC and more precisely to CRC diagnosis.
Molecular Pathways: Coexpression of Immune Checkpoint Molecules: Signaling Pathways and Implications for Cancer Immunotherapy (2013)

The expression of immune checkpoint molecules on T cells represents an important mechanism that the immune system uses to regulate responses to self-proteins. Checkpoint molecules include cytotoxic T lymphocyte antigen-4, programmed death-1, lymphocyte activation gene-3, T-cell immunoglobulin and mucin protein-3, and several others. Previous studies have identified individual roles for each of these molecules, but more recent data show that coexpression of checkpoint molecules occurs frequently on cancer-specific T cells as well as on pathogen-specific T cells in chronic infections. As the signaling pathways associated with each checkpoint molecule have not been fully elucidated, blocking multiple checkpoints with specific monoclonal antibodies results in improved outcomes in several chronic viral infections as well as in a wide array of preclinical models of cancer. Recent clinical data suggest similar effects in patients with metastatic melanoma. These findings support the concept that individual immune checkpoint molecules may function through nonoverlapping molecular mechanisms. Here, we review current data regarding immune checkpoint molecule signaling and coexpression, both in cancer and infectious disease, as well as the results of preclinical and clinical manipulations of checkpoint proteins.