gebhart/patrepeval huggingface dataset:
pp60c-src Activation in hepatocellular carcinoma of humans and LEC rats (1998)

For the related Src kinases, a close correlation exists between elevated tyrosine kinase activity and cell transformation. However, the involvement of pp60c-src in hepatocellular carcinoma (HCC) remains obscure. The aim of this study was to evaluate whether pp60c-src tyrosine kinase activity is elevated in HCC. We analyzed the kinase activity of pp60c-src in normal liver tissue, chronic hepatitis liver tissue, and tumorous and adjacent nontumorous portions of HCC tissue from patients and Long-Evans cinnamon (LEC) rats that are known to develop liver cancer spontaneously. The kinase activity of pp60c-src was rarely detected in the normal human liver tissue and chronic hepatitis liver tissue, but it was elevated in tumorous and nontumorous portions of HCC tissue. Furthermore, the kinase activity of pp60c-src was significantly elevated in tumorous tissues compared with nontumorous tissues. The kinase activity of pp60c-src was also higher in poorly differentiated HCC. In addition, the kinase activity of pp60c-src increased proportionately with the development of HCC of LEC rats. Our results suggest that activation of the protooncogene product pp60c-src may play an important role in the malignant transformation of hepatocytes in human and LEC rats, and that it may be closely related to the histopathological grading of human HCC.
Pointwise Shape-Adaptive DCT for High-Quality Denoising and Deblocking of Grayscale and Color Images (2007)

The shape-adaptive discrete cosine transform ISA-DCT) transform can be computed on a support of arbitrary shape, but retains a computational complexity comparable to that of the usual separable block-DCT (B-DCT). Despite the near-optimal decorrelation and energy compaction properties, application of the SA-DCT has been rather limited, targeted nearly exclusively to video compression. In this paper, we present a novel approach to image filtering based on the SA-DCT. We use the SA-DCT in conjunction with the Anisotropic Local Polynomial Approximation-Intersection of Confidence Intervals technique, which defines the shape of the transform's support in a pointwise adaptive manner. The thresholded or attenuated SA-DCT coefficients are used to reconstruct a local estimate of the signal within the adaptive-shape support. Since supports corresponding to different points are in general overlapping, the local estimates are averaged together using adaptive weights that depend on the region's statistics. This approach can be used for various image-processing tasks. In this paper, we consider, in particular, image denoising and image deblocking and deringing from block-DCT compression. A special structural constraint in luminance-chrominance space is also proposed to enable an accurate filtering of color images. Simulation experiments show a state-of-the-art quality of the final estimate, both in terms of objective criteria and visual appearance. Thanks to the adaptive support, reconstructed edges are clean, and no unpleasant ringing artifacts are introduced by the fitted transform.
Tapping the nucleotide pool of the host: novel nucleotide carrier proteins of Protochlamydia amoebophila (2006)

Protochlamydia amoebophila UWE25 is related to the Chlamydiaceae comprising major pathogens of humans, but thrives as obligate intracellular symbiont in the protozoan host Acanthamoeba sp. The genome of P. amoebophila encodes five paralogous carrier proteins belonging to the nucleotide transporter (NTT) family. Here we report on three P. amoebophila NTT isoforms, PamNTT2, PamNTT3 and PamNTT5, which possess several conserved amino acid residues known to be critical for nucleotide transport. We demonstrated that these carrier proteins are able to transport nucleotides, although substrate specificities and mode of transport differ in an unexpected manner and are unique among known NTTs. PamNTT2 is a counter exchange transporter exhibiting submillimolar apparent affinities for all four RNA nucleotides, PamNTT3 catalyses an unidirectional proton-coupled transport confined to UTP, whereas PamNTT5 mediates a proton-energized GTP and ATP import. All NTT genes of P. amoebophila are transcribed during intracellular multiplication in acanthamoebae. The biochemical characterization of all five NTT proteins from P. amoebophila in this and previous studies uncovered that these metabolically impaired bacteria are intimately connected with their host cell's metabolism in a surprisingly complex manner.
Reactive Oxygen Species Are Not Required for an Arsenic Trioxide-induced Antioxidant Response or Apoptosis (2009)

Arsenicals are both environmental carcinogens as well as therapeutic agents for the treatment of trypanosomiasis and more recently cancer. Arsenic trioxide (ATO) has been successfully used for the treatment of acute promyelocytic leukemia (APL) and has activity in multiple myeloma (MM). While signaling events associated with carcinogenesis have been well studied, it still remains to be determined which of these events are involved in anti-cancer signaling. To better define this response, gene expression profiling following ATO treatment of four MM cell lines was performed. The pattern was consistent with a strong antioxidative response, particularly of genes activated by Nrf2. While Nrf2 is expressed constitutively at the mRNA level, the protein is not detected in untreated cells. Consistent with inactivation of Keap1, Nrf2 protein is stabilized and present in the nucleus within 6 h of ATO treatment. Despite the activation of this antioxidative response, ROS may not be important in ATO-induced death. Inhibition of ATO-induced ROS with butylated hydroxyanisole (BHA) does not affect Nrf2 activation or cell death. Moreover, silencing Nrf2 had no effect on ATO-induced apoptosis. Together these data suggest that ROS is not important in the induction of the antioxidative response or cellular death by ATO.
Antimicrobial effect of intracanal substances (2007)

In some situations, endodontic infections do not respond to therapeutic protocol. In these cases, it is suggested the administration of an alternative intracanal medication that presents a wide spectrum of action and has an in-depth effect on the root canal system. The purpose of this study was to assess the antimicrobial action of ciprofloxacin, metronidazole and polyethylene glycol and natrosol vehicles with different associations and concentrations. The minimum inhibitory concentration (MIC) was determined by using the agar dilution method. The culture media (Müller-Hinton agar) were prepared containing antimicrobial agents at multiple two-fold dilutions of 0.25 to 16 microg/mL, and with the vehicles at the concentrations of 50, 45, 40, 35, 30 and 25%. Twenty-three microbial strains were selected for the study. Metronidazole was not capable of eliminating any of the tested microorganisms. The association of ciprofloxacin with metronidazole resulted in a reduction of the MIC. The vehicle polyethylene glycol inhibited the growth of 100% of the tested strains, while natrosol inhibited 18% of the strains. Ciprofloxacin formulations with polyethylene glycol presented better effects than those of formulations to which metronidazole was added. It was possible to conclude that ciprofloxacin presented antimicrobial action against all tested bacterial strains, and its association with metronidazole was synergic. The vehicle polyethylene glycol showed antimicrobial effect and the ciprofloxacin/polyethylene glycol association was the most effective combination for reducing the tested bacteria and yeasts.
Changes in Aspects Such as the Collagenous Fiber Density and Foam Cell Size of Atherosclerotic Lesions Composed of Foam Cells, Smooth Muscle Cells and Fibrous Components in Rabbits Caused by All-cis-5, 8, 11, 14, 17-icosapentaenoic Acid. (2002)

Atherosclerotic plaques composed of foamed macrophages, smooth muscle cells and fibrous components in the twice-injured carotid artery from 1% cholesterol diet (HCD)-fed rabbits were prepared and the effects of all-cis-5, 8, 11, 14, 17-icosapentaenoic acid (EPA) on the histopathological properties of atherosclerotic lesions were examined. During the test period, there was no significant difference between the control and the EPA-treated groups in serum lipid levels. In the control group, atherosclerotic lesions were composed of foamed macrophages, smooth muscle cells and fibrous components. Some of the lesions had a large core of foamed macrophages covered with a thin cap of smooth muscle cells and fibrous components, and were morphologically similar to human vulnerable plaques. The classification of plaques, composing atherosclerotic lesions based on collagenous fiber density and foam cell size indicated that over 70% of plaques in the control group were poor in collagenous fiber, while about 20% of plaques contained only large foam cells. In contrast to the control group, over 70% of plaques in the EPA-treated group were rich in collagenous fiber and only 3% consisted of large foam cells. These results suggest that EPA changes certain aspects of pre-existing atherosclerotic lesions.
Dietary Putrescine Reduces the Intestinal Anticarcinogenic Activity of Sulindac in a Murine Model of Familial Adenomatous Polyposis (2006)

The nonsteroidal antiinflammatory drug sulindac displays chemopreventive activity in patients with familial adenomatous polyposis (FAP). Sulindac metabolites induce apoptosis in colon tumor cells, in part, by a polyamine-dependent mechanism that can be suppressed with exogenous putrescine. To determine the relevance of this mechanism in animals, we treated Apc(Min/+) mice, a model of human FAP, with sulindac alone or in combination with dietary putrescine. Sulindac increased steady-state RNA levels and enzymatic activity of the polyamine catabolic enzyme spermidine/spermine N(1)-acetyltransferase and intestinal levels of monoacetylspermidine, spermidine, and spermine in the small intestine of mice. Sulindac also decreased the activity of the biosynthetic enzyme ornithine decarboxylase but not adenosylmethionine decarboxylase (AMD). Dietary putrescine increased intestinal putrescine contents, whereas the combination of dietary putrescine and sulindac yielded the highest levels of intestinal putrescine and correlated with a statistically significant reduction in AMD enzyme activity. Dietary putrescine did not statistically significantly increase tumorigenesis, although it significantly increased the grade of adenoma dysplasia (P < 0.05). The effectiveness of sulindac to suppress intestinal carcinogenesis was partially abrogated by dietary putrescine. These data suggest that sulindac exerts at least some of its anticarcinogenic effects in mice via a polyamine-dependent mechanism. Because high concentrations of putrescine can be found in certain dietary components, it may be advantageous to restrict dietary putrescine consumption in patients undergoing treatment with sulindac.
Two Approaches for Cell Retention in Perfusion Culture Systems (2009)

A lack of efficient, economical, and reliable cell retention devices has limited the application of perfusion culture systems in the biopharmaceutical industry. Two types of cell retention devices were developed in this work for long-term perfusion culture systems: a modification of an inclined gravity settler and a variation of an ultrasonic filter. Both bench-top and large-scale tests showed that the gravity settler can effectively retain viable cells and preferentially remove nonviable cells in perfusion culture systems. The viable cell retention rate can be maintained well above 90 during long-term perfusion culture period while the nonviable cell retention rate is 20-30 lower than that of viable cells. The design of this settler enables its manufacture as a single-use device to be used in conjunction with disposable bioreactors. An apparatus for measuring the settling velocities of both the viable and nonviable cells, which is both simple and inexpensive to use, was developed in order to predict optimal operation parameters of the gravity settler. The gravity settler was also effective in an algae dewatering process. The ultrasonic filter has a cell retention capacity 21-fold greater than that of the gravity settler for the same working surface area. Due to its unique design, this ultrasonic filter can operate continuously, as opposed to the currently available ultrasonic filters that need on-off intervals for removal of retained cells
Antinociceptive and Adverse Effects of µ‐ and κ‐Opioid Receptor Agonists: A Comparison of Morphine and U50488‐H (2008)

Although mu-opioids such as morphine are undoubtedly effective in the treatment of acute and postoperative pain, kappa-opioids are of interest for the modulation of visceral pain. In the present study, we compared a kappa-opioid agonist (U50488-H; 0.63-40 mg/kg) with a mu-opioid agonist (morphine; 0.63-40 mg/kg) in different pain models (tail withdrawal, writhing, formalin and plantar test) to represent acute, peritoneovisceral and inflammatory pain states in rats. The effects of the respective receptor agonists on gastrointestinal motility, muscle rigidity and abuse liability were also studied in appropriate animal models (charcoal, castor oil, rotarod and drug discrimination learning). Morphine was highly efficacious in all the nociceptive models employed, but also elicited a potent inhibition of gastric motility, caused severe muscle rigidity and locomotor disturbances and displayed a potential for abuse liability at the higher doses tested (> or =10 mg/kg morphine). In contrast, U50488-H was inactive in the tail withdrawal test, but was more effective in visceral and inflammatory pain settings. Although U50488-H did not elicit any gastrointestinal inhibition, a loss of muscle tone following administration of the compound led to detrimental effects on rotarod performance. The findings presented here indicate that kappa-opioids possess antinociceptive efficacy in visceral and inflammatory pain settings, but their administration can lead to a loss of muscle tone. In contrast, mu-opioids are highly active as analgesics against a range of nociceptive stimuli, but also concomitantly elicit strongly adverse effects.
Exergy Analysis of a Single-Effect Water-Lithium Bromide Absorption Chiller Powered by Waste Energy Source for Different Cooling Capacities (2013)

A thermodynamic analysis of a 1 kW and 10 kW single-effect water-lithium bromide absorption chiller have been studied. The analysis includes both first law and second law of thermodynamics. The coefficient of performance (COP), exergetic coefficient of performance (ECOP) and the exergy losses (∆E) through each component of the system at different operating conditions and cooling capacities are obtained. A COP of about 0.72, 0.78 and 0.76 can be achieved for 1 kW cooling load at 1.5, 5 and 10°C evaporator temperatures respectively. For 10 kW cooling load, the minimum and maximum values of COP was found to be around 80 and 90°C respectively. While the minimum and maximum value ECOP was found to be around 100 and 90°C generator temperature respectively. About 40% of the system exergy losses were found to be in the generator. The minimum exergy losses in the absorber with 1 kW cooling load occurs at generator temperature of 80°C for 10°C evaporator temperature. The optimum evaporator temperature for maximum COP was found to be 5℃ for both 1 kW and 10 kW cooling capacities. While at 1.5℃ evaporator temperature the ECOP was found to be maximum.
EAL Domain Protein YdiV Acts as an Anti-FlhD 4 C 2 Factor Responsible for Nutritional Control of the Flagellar Regulon in Salmonella enterica Serovar Typhimurium (2011)

ABSTRACT Flagellar operons are divided into three classes with respect to their transcriptional hierarchy in Salmonella enterica serovar Typhimurium. The class 1 gene products FlhD and FlhC act together in an FlhD 4 C 2 heterohexamer, which binds upstream of the class 2 promoters to facilitate binding of RNA polymerase. In this study, we showed that flagellar expression was much reduced in the cells grown in poor medium compared to those grown in rich medium. This nutritional control was shown to be executed at a step after class 1 transcription. We isolated five Tn 5 insertion mutants in which the class 2 expression was derepressed in poor medium. These insertions were located in the ydiV ( cdgR ) gene or a gene just upstream of ydiV . The ydiV gene is known to encode an EAL domain protein and to act as a negative regulator of flagellar expression. Gene disruption and complementation analyses revealed that the ydiV gene is responsible for nutritional control. Expression analysis of the ydiV gene showed that its translation, but not transcription, was enhanced by growth in poor medium. The ydiV mutation did not have a significant effect on either the steady-state level of flhDC mRNA or that of FlhC protein. Purified YdiV protein was shown in vitro to bind to FlhD 4 C 2 through interaction with FlhD subunit and to inhibit its binding to the class 2 promoter, resulting in inhibition of FlhD 4 C 2 -dependent transcription. Taking these data together, we conclude that YdiV is a novel anti-FlhD 4 C 2 factor responsible for nutritional control of the flagellar regulon.
A New Method for Conjugation of Carbohydrates to Proteins Using an Aminooxy-Thiol Heterobifunctional Linker (2005)

A new, efficient, and mild protocol is presented for the coupling of saccharides to proteins. First, a heterobifunctional aminooxy-thiol linker is coupled to the bromoacylated protein to introduce aminooxy groups through thioether linkages. Condensation of the aminooxylated protein and aldehydo/keto-derivatized carbohydrates affords covalent saccharide-protein constructs. Uncoupled saccharide can be recovered in its original form. The scope of our protocol is exemplified by the coupling of neutral mono- and tetrasaccharides and a negatively charged ribitol-phosphate construct to BSA.
G‐CSF administration after myocardial infarction in mice attenuates late ischemic cardiomyopathy by enhanced arteriogenesis (2006)

Granulocyte-colony stimulating factor (G-CSF) has been shown to improve cardiac function after myocardial infarction (MI) by bone marrow cell mobilization and by protecting cardiomyocytes from apoptotic cell death. However, its role in collateral artery growth (arteriogenesis) has not been elucidated. Here, we investigated the effect of G-CSF on arteriolar growth and cardiac function in a murine MI model. Mice were treated with G-CSF (100 microg/kg/day) directly after MI for 5 consecutive days. G-CSF application resulted in a significant increase of circulating mononuclear cells expressing stem cell markers. Arterioles in the border zone of infarcted myocardium showed an increased expression of ICAM-1 accompanied by an accumulation of bone marrow derived cells and a pronounced proliferation of endothelial and smooth muscle cells. Histology of G-CSF treated mice revealed a lower amount of granulation tissue (67.8 vs. 84.4%) associated with a subsequent reduction in free LV wall thinning and scar extension (23.1 vs. 30.8% of LV). Furthermore, G-CSF treated animals showed a significant improvement of post-MI survival (68.8 vs. 46.2%). Pressure-volume relations revealed a partially restored myocardial function at day 30 (EF: 32.5 vs. 17.2%). Our results demonstrate that G-CSF administration after MI stimulates arteriogenesis and attenuates ischemic cardiomyopathy after MI.
IN VITRO EVIDENCE FOR MYCOPHENOLIC ACID DOSE-RELATED CYTOTOXICITY IN HUMAN RETINAL CELLS (2013)

Intraocular delivery may be a potential alternative for the treatment of noninfectious uveitis, either by intravitreal injection or sustained-release drug-delivery systems, in doses of 50 µg/mL or lower.
Concise Review: Bone Marrow for the Treatment of Spinal Cord Injury: Mechanisms and Clinical Applications (2010)

Transplantation of bone marrow stem cells into spinal cord lesions enhances axonal regeneration and promotes functional recovery in animal studies. There are two types of adult bone marrow stem cell; hematopoietic stem cells (HSCs), and mesenchymal stem cells (MSCs). The mechanisms by which HSCs and MSCs might promote spinal cord repair following transplantation have been extensively investigated. The objective of this review is to discuss these mechanisms; we briefly consider the controversial topic of HSC and MSC transdifferentiation into central nervous system cells but focus on the neurotrophic, tissue sparing, and reparative action of MSC grafts in the context of the spinal cord injury (SCI) milieu. We then discuss some of the specific issues related to the translation of HSC and MSC therapies for patients with SCI and present a comprehensive critique of the current bone marrow cell clinical trials for the treatment of SCI to date.
Dendritic cells with antigen-presenting capability reside in airway epithelium, lung parenchyma, and visceral pleura. (1986)

In this study, we identified a population of dendritic cells (DC) that exists throughout human and mouse pulmonary tissues, including the trachea, bronchi, alveoli, and visceral pleura. In human tissue, these DC were shown to be positive for HLA-DR and T200 antigens. In the mouse, the DC expressed not only Ia and the T200 antigen, but also Fc-IgG and C3bi receptors. Unlike alveolar macrophages, the DC were negative for nonspecific esterase staining and shared ultrastructural similarities with the DC described by Steinman (1), and with Langerhans' cells, even though they did not contain Birbeck granules. We were able to demonstrate that mouse pulmonary DC function in antigen presentation, as observed with the other DC. Thus, the respiratory tract contains DC that are capable of functioning in antigen presentation and that may be important in pulmonary immune responses.
Transmission blocking immunity in Plasmodium vivax malaria: antibodies raised against a peptide block parasite development in the mosquito vector. (1995)

One approach towards the development of a vaccine against malaria is to immunize against the parasite sexual stages that mediate transmission of the parasite from man to mosquito. Antibodies against these stages, ingested with the blood meal, inhibit the parasite development in the mosquito vector, constituting "transmission blocking immunity." Most epitopes involved in transmission-blocking immunity depend on the tertiary conformational structure of surface antigens. However, one of the transmission-blocking monoclonal antibodies we have raised against Plasmodium vivax reacts with a linear epitope on both asexual stages and gametes. This monoclonal antibody (A12) is capable of totally blocking development of the parasite in the mosquito host when tested in membrane feeding assays with gametocytes from P. vivax-infected patients. Immune screening of a P. vivax lambda gt11 genomic expression library with A12 led to the isolation of a clone to which was mapped the six-amino acid epitope recognized by A12. Antisera raised in mice against a 12-mer synthetic peptide containing this epitope coupled to bovine serum albumin not only had high titers of antipeptide antibodies as measured by enzyme-linked immunosorbent assay, but in addition recognized the same 24- and 57-kD parasite components as A12 on Western blots and reacted with the parasite by immunofluorescence. When tested in membrane feeding assays, these antibodies have significant suppressive effects on parasite development in the mosquito.