gebhart/patrepeval huggingface dataset:
Identification of a Johnsongrass (Sorghum halepense) Biotype Resistant to ACCase-Inhibiting Herbicides in Northern Greece (2009)

A johnsongrass population from a cotton field in northern Greece along with a population from the university farm (“Control”) were evaluated for resistance to the herbicide quizalofop; cross-resistance to cycloxydim, propaquizafop, and fluazifop (acetyl coenzyme A [CoA] carboxylase [ACCase]-inhibiting herbicides), and multiple resistance to nicosulfuron (acetolactate synthase [ALS]-inhibiting herbicides). In greenhouse experiments, the application of four times the recommended rates of quizalofop and propaquizafop to suspected resistant rhizomatous plants resulted in 4 and 5% growth reduction, respectively. However, the growth of suspected resistant seedlings was reduced by 54 and 28% after the application of two times the recommended rate of the same herbicides. In contrast, the application of quizalofop and propaquizafop at recommended rates on rhizomatous plants and seedlings of the Control population reduced their growth by 97 to 100%. Also, the growth reduction of both populations by the application of cycloxydim, fluazifop, and nicosulfuron at recommended rates ranged from 93 to 100%. In the field experiment, quizalofop and propaquizafop applied at four times the recommended rate reduced growth of the suspected resistant population by 9 and 18%, respectively, whereas the recommended rate of fluazifop gave a 94% growth reduction of this weed. The herbicide rate required for 50% growth reduction ( GR 50 ) values for rhizomatous plants of the suspected resistant population were 0.90 and 2.465 kg ai/ha for quizalofop and propaquizafop, respectively, whereas the corresponding GR 50 values for the seedlings were 0.074 and 0.185 kg ai/ha. These results indicate that a johnsongrass population developed cross-resistance to quizalofop and propaquizafop, but did not evolve cross-resistance to cycloxydim and fluazifop or multiple resistance to nicosulfuron.
Detection of DNA and RNA virus genomes in organ systems of whole mice: patterns of mouse organ infection by polyomavirus (1984)

A technique which detects viral DNA or RNA in situ in the organ systems of whole mice is described. Frozen thin sections from whole mice were transferred directly to nitrocellulose and hybridized to labeled viral DNA, allowing the detection of viral DNA or RNA. By this procedure, polyomavirus infection of newborn mice inoculated intranasally was followed. We found that the initial inoculum could be detected in the nasal cavity, lungs, and stomach lining after a 5-h absorption period. Primary replication of virus was observed in the nasal cavity, submaxillary gland, and lungs, followed by a systemic phase of infection in which the liver, spleen, kidney, and large colon also became infected. Viral RNA as well as DNA could also be detected as shown by infecting mice intracerebrally with vesicular stomatitis virus. Vesicular stomatitis virus-specific RNA was observed only in the brains of these mice. It is most likely that this technique can be applied to general molecular studies of mice. With this method we should be able to detect all viruses, bacteria, plasmids, and organ-specific transcripts to which a cloned probe exists.
Characterization of the Nanoporous Template Using Anodic Alumina Method (2014)

Porous anodic aluminum oxide (AAO) is deposited on a 5 cm × 5 cm tin‐doped indium oxide (ITO)/glass substrate, and the AAO/ITO/glass structure thus formed is used to reduce the amount of unreacted Al inside the AAO template, thereby reducing the transmittance of the AAO/glass structure. The enhancement of transmittance is achieved by modulating the diameter of the pores and varying the applied bias. The proposed AAO can be used at a high applied bias (up to 120 V) to improve the uniformity of the current density. Following pore‐widening treatment and posttreatment annealing, the morphologies and transmittance of the AAO/ITO/glass structure were also investigated.
Nurses’ use of computer databases to identify evidence for practice —a cross‐sectional questionnaire survey in a UK hospital (2001)

The objectives of this study were to determine nurses' use of electronic databases to inform practice. A questionnaire survey of 114 nurses working on five acute wards in a large inner city teaching hospital investigated their general use of computers and the three databases, CINAHL, MEDLINE and the Cochrane Library. Eighty-two qualified nurses responded (response rate 72%). The results show limited confidence and low frequency in using the databases. Thirty-four per cent expressed low confidence using CINAHL. Twenty-seven per cent used CINAHL on a regular basis. Twenty-two per cent never used it. Eighteen per cent were unaware that it was available locally. Knowledge and use of MEDLINE was even lower with only 18% using it regularly. Knowledge of the Cochrane Library was extremely limited, with 75% unaware of its existence. Use of a home computer and higher education were associated with higher frequency of use of CINAHL and MEDLINE. If nurses are to make use of electronic resources to contribute to evidence-based practice, effort needs to be put into ensuring that already qualified nurses have basic computer skills and specific knowledge of available resources. More emphasis should be placed on 'evidence-based' resources, such as the Cochrane library, as sources of information for practice.
Gastrin releasing peptide is a selective mitogen for small cell lung carcinoma in vitro. (1985)

Human small cell lung carcinoma (SCLC) cells have been shown to contain significant levels of a bombesin-immunoreac- tive peptide. The 27-amino acid peptide, gastrin releasing peptide (GRP), has recently been shown to be responsible for the bombesin-like immunoreactivity found in SCLC cells. Among four lung cancer cell lines examined in vitro, GRP exhibited mitogenic activity for two SCLC subtypes, but not for a squamous carcinoma or adenocarcinoma lung cell line. The mitogenicity of the GRP molecule has been isolated to the carboxyterminal fragment, designated GRP 14-27, which is in part homologous to bombesin. The aminoterminal fragment, GRP 1-16, is not homologous to bombesin and exhibits no mitogenic activity. Thus, GRP may be an important growth regulating or autocrine factor in human SCLC.
Glass Transition and Phase Stability in Asphalt Binders (2008)

ABSTRACT Major aspects of the glass transition of asphalt binders are described and an extensive literature review of the phenomenon and its relation to chemical composition is presented. The glass transition of asphalt binders was studied by modulated differential scanning calorimetry and also via dynamic mechanical analysis. A certain analogy between the glass transition of amorphous polymers and asphalts is suggested. The overall transition was found to be very broad on the temperature scale. The effects of evaporation of light-end components and oxidation on asphalt phase stability and glass transition were studied. It was suggested that phase incompatibility may exist in asphalts; however, the phase separation is observable after long-term isothermal conditioning at a temperature within the glass transition range. Based on the presented results, it is suggested that phase incompatibility develops if there is a discontinuity in the molecular distribution. Such discontinuity may be present in some neat binders as well as in severely oxidized or aged asphalt binders.
The flagellar-specific transcription factor, σ28, is the Type III secretion chaperone for the flagellar-specific anti-σ28 factor FlgM (2006)

The sigma(28) protein is a member of the bacterial sigma(70)-family of transcription factors that directs RNA polymerase to flagellar late (class 3) promoters. The sigma(28) protein is regulated in response to flagellar assembly by the anti-sigma(28) factor FlgM. FlgM inhibits sigma(28)-dependent transcription of genes whose products are needed late in assembly until the flagellar basal motor structure, the hook-basal body (HBB), is constructed. A second function for the sigma(28) transcription factor has been discovered: sigma(28) facilitates the secretion of FlgM through the HBB, acting as the FlgM Type III secretion chaperone. Transcription-specific mutants in sigma(28) were isolated that remained competent for FlgM-facilitated secretion separating the transcription and secretion-facilitation activities of sigma (28). Conversely, we also describe the isolation of mutants in sigma(28) that are specific for FlgM-facilitated secretion. The data demonstrate that sigma(28) is the Type III secretion chaperone for its own anti-sigma factor FlgM. Thus, a novel role for a sigma(70)-family transcription factor is described.
The metabolism of the dual endothelin receptor antagonist macitentan in rat and dog (2015)

1. The metabolism of the endothelin receptor antagonist macitentan has been characterized in bile duct-cannulated rats and dogs. 2. In both species, macitentan was metabolized along five primary pathways, i.e. conjugation with glucose (M9), oxidative depropylation (M6), aliphatic hydroxylation (M7), oxidative cleavage of the ethylene glycol linker (M4) and hydrolysis of the sulfamide moiety (M3). Most of the primary metabolites underwent subsequent biotransformation including conjugation with glucuronic acid or glucose, hydrolysis of the sulfamide group or secondary oxidation of the ethylene glycol moiety. 3. Though there were species differences in their relative importance, all metabolic pathways were present in rat and dog. The depropylated M6 was the only metabolite present in plasma of both species. 4. Metabolism was a prerequisite for macitentan excretion as relevant amounts of parent drug were neither detected in bile nor urine. Biliary excretion was the major elimination pathway, while renal elimination was of little importance.
Expression and characterization of hepatocyte growth factor receptor-IgG fusion proteins. Effects of mutations in the potential proteolytic cleavage site on processing and ligand binding. (1992)

The receptor for hepatocyte growth factor (HGF) is the product of the c-met proto-oncogene, a membrane-spanning tyrosine kinase receptor. To facilitate analysis of HGF and its receptor (HGFr), we expressed and purified a chimeric protein containing the extracellular domain (ECD) of the HGFr fused to the constant region of IgG heavy chain. This soluble form of the HGFr (sHGFr) bound HGF with an affinity similar to that of the authentic, membrane-associated receptor. The sHGFr also neutralized the binding of HGF to the HGFr expressed on A549 cells. Like the mature form of the HGFr, sHGFr is a heterodimer which arises by proteolytic processing within the ECD. In order to characterize the requirements for proteolytic processing of the ECD and the effects of cleavage on ligand binding, we expressed sHGFr variants containing amino acid substitutions in the putative processing site. Replacement of the P1 or P4 arginine, but not the P3 lysine, with alanine inhibited conversion to the alpha/beta heterodimer. This suggests that maturation is mediated by furin or a furin-like protease. Finally, we showed that processing of the sHGFr into the alpha/beta form is not required for high affinity binding to either pro- or mature HGF.
Shedding of adhesion receptors from the surface of activated platelets (1994)

When platelets are activated, several receptors are removed from the platelet surface. Cytoskeletal reorganizations can cause receptors to redistribute to intracellular membranes. In addition, receptors can be removed from the platelet surface by shedding of the receptor from the cell. Shedding can occur by at least two mechanisms. First, glycoprotein (GP)Ib alpha and GP V are shed from the membrane as a result of the proteolytic cleavage of the extracellular domain of these receptors from the platelet. The protease responsible for this cleavage appears to be a membrane-bound divalent cation-dependent protease other than calpain. Proteolytic cleavage does not occur until secretion is well under way and occurs whether platelets aggregate or not. Soluble forms of both GP Ib alpha and GP V are present in the plasma, where they may serve as feedback inhibitors limiting the development of thrombi. Future studies will be needed to identify the protease(s) responsible for removing the membrane receptors and to determine whether cleavage of the receptors from activated platelets results from activation of the protease(s), exposure of the protease(s), or an altered exposure of the protease-sensitive sites on the receptors. It will be of particular interest to determine whether the protease(s) that cleaves GP Ib alpha and GP V in platelets is the same as the protease(s) that cleaves receptors from the surface of other activated cells. Receptors also are shed from the surface of activated platelets by the generation of microvesicles from the plasma membrane. These microvesicles appear to contain all of the major membrane glycoproteins but are depleted in those that have been removed from the platelet membrane by proteolytic cleavage. The primary mechanism responsible for the shedding of microvesicles from the surface of platelets stirred with physiological agonists involves activation of calpain, which cleaves components of the membrane skeleton and dissociates it from the plasma membrane GP Ib-IX complex. Microvesicles are present in the circulation and increase under conditions in which platelet activation is known to have occurred. Because they contain functional adhesive receptors and procoagulant activity on their surface, they may function to disseminate procoagulant activity and stabilize the formation of platelet clots.
Apolipoprotein E and Alzheimer's disease: molecular mechanisms and therapeutic opportunities (2007)

Multiple genetic and environmental factors are likely to contribute to the development of Alzheimer's disease (AD). The most important known risk factor for AD is presence of the E4 isoform of apolipoprotein E (apoE). Epidemiological studies demonstrated that apoE4 carriers have a higher risk and develop the disease and an early onset. Moreover, apoE4 is the only molecule that has been associated with all the biochemical disturbances characteristic of the disease: amyloid-beta (Abeta) deposition, tangle formation, oxidative stress, lipid homeostasis deregulation, synaptic plasticity loss and cholinergic dysfunction. This large body of evidence suggest that apoE is a key player in the pathogenesis of AD. This short review examines the current facts and hypotheses of the association between apoE4 and AD, as well as the therapeutic possibilities that apoE might offer for the treatment of this disease.
Molecular Cloning and Characterization of cel2 from the Fungus Cochlibolus carbonum (2001)

A new cellulase gene, cel2, from the filamentous fungus Cochliobolus carbonum was cloned by using egl-1 of Trichoderma reesei as a heterologous probe. DNA blot analysis of cel2 showed that this gene is present as a single copy. The gene contains one 49-bp- intron. cel2 encodes a predicted protein (Cel2p) of 423 amino acids with a molecular mass of 45.8 kDa. The predicted pI is 4.96. It shows similarity to other endoglucanases from various fungi. From the comparison with other cellulase genes, cel2 belongs to family 7 of glucohydrolases. cel2 is located on a 2.5-Mb chromosome in C. carbonum and its expression is repressed by sucrose. A cel2 mutant of C. carbonum was created by transformation-mediated gene disruption. The pathogenicity of the mutant was indistinguishable from the wild type, indicating that cel2 by itself is not important for pathogenicity.
The Effects of Electromyostimulation Training and Basketball Practice on Muscle Strength and Jumping Ability (2000)

The aim of this study was to investigate the influence of a 4-week electromyostimulation training program on the strength of the knee extensors and the vertical jump performance of 10 basketball players. Electromyostimulation sessions were carried out 3 times weekly; each session consisted of 48 contractions. Testing was carried out before and after the electromyostimulation training program (week 4) and once more after 4 weeks of normal basketball training (week 8). At week 4, isokinetic strength increased significantly (p < 0.05) at eccentric and high concentric velocities (between 180 and 360 x s(-1)); this was not the case for low concentric velocities (60 and 120 degrees x s(-1)). Electromyostimulation training increased also isometric strength at the two angles adjacent to the training angle (p < 0.01). Squat jump increased significantly by 14% at week 4 (p < 0.01), whereas counter movement-jump showed no change. At week 8, gains in isokinetic, isometric strength and squat-jump performance were maintained and the counter movement jump performance increased significantly by 17% (p<0.01). Electromyostimulation as part of a short strength-training program enhanced knee extensor strength and squat jump performance of basketball players.
Expression and Characterization of the Chitin-Binding Domain of Chitinase A1 from Bacillus circulans WL-12 (2000)

Chitinase A1 from Bacillus circulans WL-12 comprises an N-terminal catalytic domain, two fibronectin type III-like domains, and a C-terminal chitin-binding domain (ChBD). In order to study the biochemical properties and structure of the ChBD, ChBD(ChiA1) was produced in Escherichia coli using a pET expression system and purified by chitin affinity column chromatography. Purified ChBD(ChiA1) specifically bound to various forms of insoluble chitin but not to other polysaccharides, including chitosan, cellulose, and starch. Interaction of soluble chitinous substrates with ChBD(ChiA1) was not detected by means of nuclear magnetic resonance and isothermal titration calorimetry. In addition, the presence of soluble substrates did not interfere with the binding of ChBD(ChiA1) to regenerated chitin. These observations suggest that ChBD(ChiA1) recognizes a structure which is present in insoluble or crystalline chitin but not in chito-oligosaccharides or in soluble derivatives of chitin. ChBD(ChiA1) exhibited binding activity over a wide range of pHs, and the binding activity was enhanced at pHs near its pI and by the presence of NaCl, suggesting that the binding of ChBD(ChiA1) is mediated mainly by hydrophobic interactions. Hydrolysis of beta-chitin microcrystals by intact chitinase A1 and by a deletion derivative lacking the ChBD suggested that the ChBD is not absolutely required for hydrolysis of beta-chitin microcrystals but greatly enhances the efficiency of degradation.
Genetic dissection of the roles of chaperones and proteases in protein folding and degradation in the Escherichia coli cytosol (2001)

We investigated the roles of chaperones and proteases in quality control of proteins in the Escherichia coli cytosol. In DeltarpoH mutants, which lack the heat shock transcription factor and therefore have low levels of all major cytosolic proteases and chaperones except GroEL and trigger factor, 5-10% and 20-30% of total protein aggregated at 30 degrees C and 42 degrees C respectively. The aggregates contained 350-400 protein species, of which 93 were identified by mass spectrometry. The aggregated protein species were similar at both temperatures, indicating that thermolabile proteins require folding assistance by chaperones already at 30 degrees C, and showed strong overlap with previously identified DnaK substrates. Overproduction of the DnaK system, or low-level production of the DnaK system and ClpB, prevented aggregation and provided thermotolerance to DeltarpoH mutants, indicating key roles for these chaperones in protein quality control and stress survival. In rpoH+ cells, DnaK depletion did not lead to protein aggregation at 30 degrees C, which is probably the result of high levels of proteases and thus suggests that DnaK is not a prerequisite for proteolysis of misfolded proteins. Lon was the most efficient protease in degrading misfolded proteins in DnaK-depleted cells. At 42 degrees C, ClpXP and Lon became essential for viability of cells with low DnaK levels, indicating synergistic action of proteases and the DnaK system, which is essential for cell growth at 42 degrees C.
Rice (Oryza sativa) Weed Control with Soil Applications of Quinclorac (1993)

Field studies were conducted from 1988 to 1990 on a Sharkey clay to evaluate residual weed control in rice with quinclorac applied PPI, PRE to dry soil, and PRE to moist soil. Quinclorac applied at 0.4 or 0.6 kg ai ha −1 PPI or PRE to dry or moist soil controlled more than 80% of barnyardgrass, pitted morningglory, and hemp sesbania without rice injury. Quinclorac applied at 0.3 kg ha −1 controlled these three weed species substantially but inconsistently. No rice injury was observed from any quinclorac treatment. Except for one of three years when irrigation was delayed for 7 d after PRE application to dry soil, application timing did not consistently affect weed control or rice yield.
Augmenting Depth Camera Output Using Photometric Stereo (2011)

We present a system for augmenting depth camera output using multispectral photometric stereo. The technique is demonstrated using a Kinect sensor and is able to produce geometry independently for each frame. Improved reconstruction is demonstrated using the Kinect's inbuilt RGB camera and further improvements are achieved by introducing an additional high resolution camera. As well as qualitative improvements in reconstruction a quantitative reduction in temporal noise is shown. As part of the system an approach is presented for relaxing the assumption of multispectral photometric stereo that scenes are of constant chromaticity to the assumption that scenes contain multiple piecewise constant chromaticities.
Paclitaxel–Hyaluronic NanoConjugates Prolong Overall Survival in a Preclinical Brain Metastases of Breast Cancer Model (2013)

Brain (central nervous system; CNS) metastases pose a life-threatening problem for women with advanced metastatic breast cancer. It has recently been shown that the vasculature within preclinical brain metastasis model markedly restricts paclitaxel delivery in approximately 90% of CNS lesions. Therefore to improve efficacy, we have developed an ultra-small hyaluronic acid (HA) paclitaxel nanoconjugate (∼5 kDa) that can passively diffuse across the leaky blood-tumor barrier and then be taken up into cancer cells (MDA-MB-231Br) via CD44 receptor-mediated endocytocis. Using CD44 receptor-mediated endocytosis as an uptake mechanism, HA-paclitaxel was able to bypass p-glycoprotein-mediated efflux on the surface of the cancer cells. In vitro cytoxicity of the conjugate and free paclitaxel were similar in that they (i) both caused cell-cycle arrest in the G2-M phase, (ii) showed similar degrees of apoptosis induction (cleaved caspase), and (iii) had similar IC50 values when compared with paclitaxel in MTT assay. A preclinical model of brain metastases of breast cancer using intracardiac injections of Luc-2 transfected MDA-MB-231Br cells was used to evaluate in vivo efficacy of the nanoconjugate. The animals administered with HA-paclitaxel nanoconjugate had significantly longer overall survival compared with the control and the paclitaxel-treated group (P < 0.05). This study suggests that the small molecular weight HA-paclitaxel nanoconjugates can improve standard chemotherapeutic drug efficacy in a preclinical model of brain metastases of breast cancer.