gebhart/patrepeval huggingface dataset:
Detection of CirculatingAspergillus fumigatusDNA by Real-Time PCR Assay of Large Serum Volumes Improves Early Diagnosis of Invasive Aspergillosis in High-Risk Adult Patients under Hematologic Surveillance (2008)

Detection of galactomannan antigen (GMA) in serum is the standard assay for the diagnosis of invasive aspergillosis (IA) in high-risk patients with hematological disorders. Detection of Aspergillus DNA in serum has been proposed, but its sensitivity is lower than that of GMA when small serum volumes (SSV) are used. In this study, we investigated whether extraction of DNA from large serum volumes (LSV) improves diagnostic yield. In a 13-month prospective study, we compared the performances of twice-weekly screening of serum for GMA by an enzyme immunoassay and weekly screening for Aspergillus fumigatus DNA by a real-time PCR (RT-PCR) assay of 1.0 ml (LSV) or 100 mul (SSV) of serum. We included 124 patients (138 treatment episodes), with 17 episodes of EORTC (European Organization for Research and Treatment of Cancer)/MSG (Mycoses Study Group)-documented IA. In all, 1,870 samples were screened for GMA. The sensitivity (Se), specificity (Sp), and positive and negative predictive values (PPV and NPV, respectively) of GMA for IA were 88.2%, 95.8%, 75%, and 98.3%, respectively. We screened 938 samples for Aspergillus DNA by using LSV; 404 of these samples were also tested with SSV. The Se, Sp, PPV, and NPV of RT-PCR were 100%, 96.7%, 81%, and 100%, respectively, with LSV and 76.5%, 96.7%, 81.3%, and 95.6%, respectively, with SSV. DNA detection gave a positive result when performed on LSV in two cases of IA where the GMA assay result remained negative. Furthermore, in four IA cases, DNA was detected earlier than GMA. The use of LSV for extraction improved the performance of the RT-PCR, which appears highly sensitive and specific for the early diagnosis of IA in high-risk patients with hematological disorders.
Inhibition of MDR1 gene expression by chimeric HNA antisense oligonucleotides (2004)

Hexitol nucleic acids (HNAs) are nuclease resistant and provide strong hybridization to RNA. However, there is relatively little information on the biological properties of HNA antisense oligonucleotides. In this study, we compared the antisense effects of a chimeric HNA 'gapmer' oligonucleotide comprising a phosphorothioate central sequence flanked by 5' and 3' HNA sequences to conventional phosphorothioate oligonucleotides and to a 2'-O-methoxyethyl (2'-O-ME) phosphorothioate 'gapmer'. The antisense oligomers each targeted a sequence bracketing the start codon of the message of MDR1, a gene involved in multi-drug resistance in cancer cells. Antisense and control oligonucleotides were delivered to MDR1-expressing cells using transfection with the cationic lipid Lipofectamine 2000. The anti-MDR1 HNA gapmer was substantially more potent than a phosphorothioate oligonucleotide of the same sequence in reducing expression of P-glycoprotein, the MDR1 gene product. HNA and 2'-O-ME gapmers displayed similar potency, but a pure HNA antisense oligonucleotide (lacking the phosphorothioate 'gap') was ineffective, indicating that RNase H activity was likely required. Treatment with anti-MDR1 HNA gapmer resulted in increased cellular accumulation of the drug surrogate Rhodamine 123 that correlated well with the reduced cell surface expression of P-glycoprotein. Thus, HNA gapmers may provide a valuable additional tool for antisense-based investigations and therapeutic approaches.
Protein Kinase B Kinases That Mediate Phosphatidylinositol 3,4,5-Trisphosphate-Dependent Activation of Protein Kinase B (1998)

Protein kinase B (PKB) is activated in response to phosphoinositide 3-kinases and their lipid products phosphatidylinositol 3,4, 5-trisphosphate [PtdIns(3,4,5)P3] and PtdIns(3,4)P2 in the signaling pathways used by a wide variety of growth factors, antigens, and inflammatory stimuli. PKB is a direct target of these lipids, but this regulation is complex. The lipids can bind to the pleckstrin homologous domain of PKB, causing its translocation to the membrane, and also enable upstream, Thr308-directed kinases to phosphorylate and activate PKB. Four isoforms of these PKB kinases were purified from sheep brain. They bound PtdIns(3,4,5)P3 and associated with lipid vesicles containing it. These kinases contain an NH2-terminal catalytic domain and a COOH-terminal pleckstrin homologous domain, and their heterologous expression augments receptor activation of PKB, which suggests they are the primary signal transducers that enable PtdIns(3,4,5)P3 or PtdIns- (3,4)P2 to activate PKB and hence to control signaling pathways regulating cell survival, glucose uptake, and glycogen metabolism.
Activation requirements for the induction of CD4+CD25+ T cell suppressor function (2004)

The in vivo differentiation/survival of CD4(+)CD25(+) T suppressor cells is dependent on IL-2 and CD28-mediated costimulatory signals. To determine the cytokine and costimulatory requirements for CD25(+) T cells in vitro, we established a two-stage culture system where CD25(+) T cells were activated in a primary culture. In the subsequent culture, activated CD4(+)CD25(+) cells were then mixed with responders in order to assess their suppressor function. Pre-culture of CD25(+) T cells with anti-CD3 alone resulted in poor survival and minimal induction of suppressor activity. Pre-culture in the presence of anti-CD3 and IL-2 or IL-4, but not IL-6, IL-7, IL-9, IL-10 or IL-15, resulted in proliferation of the CD25(+) cells and induction of potent suppressor function. Inhibition of the interaction of CD28 or cytotoxic T lymphocyte-associated antigen-4 (CTLA-4) with CD80/CD86 in the pre-culture of CD4(+)CD25(+) cells did not prevent the induction of suppressor function. Furthermore, the inhibition of costimulatory signals did not inhibit the ability of fresh CD25(+) T cells to inhibit CD8(+) responders under conditions where activation of the responders was independent of CD80/CD86. These studies support the view that activation of CD25(+) T cells requires IL-2/IL-4 for their survival/differentiation into effector cells, but is independent of CD28/CTLA-4-mediated costimulation.
Inflammatory Cytokine-Induced Intercellular Adhesion Molecule-1 and Vascular Cell Adhesion Molecule-1 in Mesenchymal Stem Cells Are Critical for Immunosuppression (2010)

Cell-cell adhesion mediated by ICAM-1 and VCAM-1 is critical for T cell activation and leukocyte recruitment to the inflammation site and, therefore, plays an important role in evoking effective immune responses. However, we found that ICAM-1 and VCAM-1 were critical for mesenchymal stem cell (MSC)-mediated immunosuppression. When MSCs were cocultured with T cells in the presence of T cell Ag receptor activation, they significantly upregulated the adhesive capability of T cells due to the increased expression of ICAM-1 and VCAM-1. By comparing the immunosuppressive effect of MSCs toward various subtypes of T cells and the expression of these adhesion molecules, we found that the greater expression of ICAM-1 and VCAM-1 by MSCs, the greater the immunosuppressive capacity that they exhibited. Furthermore, ICAM-1 and VCAM-1 were found to be inducible by the concomitant presence of IFN-gamma and inflammatory cytokines (TNF-alpha or IL-1). Finally, MSC-mediated immunosuppression was significantly reversed in vitro and in vivo when the adhesion molecules were genetically deleted or functionally blocked, which corroborated the importance of cell-cell contact in immunosuppression by MSCs. Taken together, these findings reveal a novel function of adhesion molecules in immunoregulation by MSCs and provide new insights for the clinical studies of antiadhesion therapies in various immune disorders.
Clinical uses of GM-CSF, a critical appraisal and update (2008)

The role of granulocyte-macrophage-colony-stimulating factor (GM-CSF) in the supportive care of cancer patients has been evaluated with promising results. More recently, GM-CSF has been added to regimens for the mobilization of hematopoietic progenitor cells. An expanding role for GM-CSF in regulating immune responses has been recognized based upon its activity on the development and maturation of antigen presenting cells and its capability for skewing the immune system toward Th1-type responses. GM-CSF has been shown to preferentially enhance both the numbers and activity of type 1 dendritic cells (DC1), the subsets of dendritic cells responsible for initiating cytotoxic immune responses. The increase in DC1 content and activity following local and systemic GM-CSF administration support a role for GM-CSF as an immune stimulant and vaccine adjuvant in cancer patients. GM-CSF has shown clinical activity as an immune stimulant in tumor cell and dendritic cell vaccines, and may increase antibody-dependent cellular cytotoxicity. The successful use of myeloid acting cytokines to enhance anti-tumor responses will likely require the utilization of GM-CSF in combination with cytotoxic or other targeted therapies.
Development of angiogenesis inhibitors to vascular endothelial growth factor receptor 2. current status and future perspective (2005)

Angiogenesis, the recruitment of new blood vessels is a crucial mechanism required for both tumor growth and metastasis. Advances in the understanding of the molecular mechanisms underlying the angiogenesis process have led to the discovery of a variety of pharmaceutical agents with antiangiogenic activity. The potential application of these angiogenesis inhibitors is currently under intense clinical investigation. Decades of investigation suggest that vascular endothelial growth factor (VEGF) and its receptors, particularly VEGF receptor 2 (VEGFR2, or kinase insert domain-containing receptor, KDR), play a critical role in tumor-associated angiogenesis. KDR, therefore, represents a good target for therapeutic intervention. A number of agents designed selectively for targeting KDR are being evaluated in various phases of clinical trials in cancer patients. This manuscript reviews briefly the biology of VEGF family of ligands and receptors and of KDR in particular. The attempts to develop effective KDR antagonists, including small molecules, antibodies and others, for therapeutic purposes are discussed comprehensively with special emphasis on tumor angiogenesis.
Overexpression of S100A2 protein as a prognostic marker for patients with stage I non small cell lung cancer (2005)

S100A2, a calcium-binding protein, recently became of major interest because of its differential expression during transformation and metastasis in various tumors. The purpose of this study was to investigate the prognostic significance of S100A2 expression in the early-stage non small lung cancer (NSCLC). Immunohistochemical analysis to determine the percentage of cells staining positive for S100A2 was performed on 11 NSCLC tissue microarray slides containing samples from 113 patients with pathologic stage I NSCLC who had undergone curative surgery. S100A2 was expressed in samples from 79 patients (69.9%). Kaplan-Meier analysis showed that patients whose tumors had positive S100A2 expression had a significantly lower overall survival and disease-specific survival rate at 5 years after surgery than did patients with negative S100A2 expression (p < 0.001 and p < 0.001, respectively). Age at diagnosis, histologic type of cancer, degree of differentiation and smoking history did not have a statistically significant effect on survival. Multivariate analysis confirmed that S100A2 expression is a better predictor for disease-specific survival than were other clinical and histologic variables tested. Our results suggested that the expression of the S100A2 protein in stage I NSCLC indicates poor prognosis and may be used to identify patients with early-stage NSCLC who might benefit from adjuvant treatment.
Quadrature Duobinary for High-Spectral Efficiency 100G Transmission (2009)

This paper proposes and analyzes a quadrature duobinary modulation format with coherent detection for high-spectral efficiency wavelength-division-multiplexing transmission systems at 112 Gb/s per channel. A practical system design of a dual polarization quadrature duobinary (DP-QDB) format with coherent heterodyne detection is analyzed and compared with the DP-differential quadrature phase-shift keying format for feasibility of 112 Gb/s transmission. Using simulation analysis, we show that the relatively narrow spectrum of quadrature duobinary modulation provides an effective practical means for realizing high-spectral efficiency transmission, approaching the theoretical limit of 4 bits/s/Hz, while also providing excellent tolerance to optical filter cascades for a robust optical networking functionality.
Evaluation of pyrimidine PNA binding to ssDNA targets from nonequilibrium melting experiments (1997)

Slow kinetics of homopyrimidine PNA binding to single stranded DNA and RNA targets is manifested in significant hysteresis in thermal UV absorption experiments. We have compared temperatures of dissociation (Tdis) and reassociation (Tass) for triplexes formed by DNA and single or bis PNAs with K50 derived from gel mobility experiments. Results indicated there was no correlation between Tdis and K50 while reasonable correlation between Tass and K50 was found. This correlation enabled use of easy thermal UV absorption experiments for evaluation of PNA binding to DNA/RNA targets.
Fractal Image Compression (1997)

Abstract What is multimedia? It is a special publication or “title”; it can be “read” inter actively on a computer screen and it is made up of text, pictures and probably sound and motion video as well. Early multimedia titles ran on microcomputers such as the Apple Mac or IBM PCs and popular sources of material for such early titles were the text and pictures in old-fashioned, paper-based encyclopaedias. These days however, multimedia titles do not need to be tied to one computer; they can be stored on company-wide networks or even on the information super-highway.
Three-co-ordination in lanthanide chemistry: tris[bis(trimethylsilyl)amido]lanthanide(III) compounds (1972)

The new compounds M[N(SiMe3)2]3(M = La, Pr, Sm, Eu, Gd, Lu) have been isolated and shown to be the first examples of 3-co-ordinated lanthanides.
ZrO2 nanofibers/activated carbon composite as a novel and effective electrode material for the enhancement of capacitive deionization performance (2017)

Among the various forms of carbon materials, activated carbon still possesses the maximum attention as an optimum commercially available, cheap, and effective electrode material for the capacitive deionization desalination process.
Force Detection of Nuclear Magnetic Resonance (1994)

Micromechanical sensing of magnetic force was used to detect nuclear magnetic resonance with exceptional sensitivity and spatial resolution. With a 900 angstrom thick silicon nitride cantilever capable of detecting subfemtonewton forces, a single shot sensitivity of 1.6 x 10(13) protons was achieved for an ammonium nitrate sample mounted on the cantilever. A nearby millimeter-size iron particle produced a 600 tesla per meter magnetic field gradient, resulting in a spatial resolution of 2.6 micrometers in one dimension. These results suggest that magnetic force sensing is a viable approach for enhancing the sensitivity and spatial resolution of nuclear magnetic resonance microimaging.
Diabetes Surgery: A New Approach to an Old Disease (2009)

Since its earliest description several thousand years ago, diabetes has remained a chronic progressive disease (1). The disease now affects ∼200 million people worldwide, and diabetes-related death is expected to increase by >50% in the next 10 years (2). The situation is only getting worse. The prevalence of diabetes among the elderly has increased 63% in the 10 years 1994–2004 (3). This increasing prevalence is a testament to improvement in managing diabetes-related complications, as well as our global “modernization” and the accompanying metabolic derangements. Diabetes is now ranked as the sixth leading cause of death by disease in the U.S. (4). In many places, it ranks far higher. The economic burden in 2007 alone exceeded $174 billion (5).

Diet modification and oral hypoglycemic medications have proven inadequate, whereas insulin therapy only solves the problem temporarily. In the U.K. Prospective Diabetes Study, diabetic patients were treated with diet modification, metformin, sulfonylurea, or insulin. Consistent with the progressive nature of diabetes, monotherapy was abandoned in 75% of the patients studied in a follow-up of 9 years (6). Even with the newest pharmaco-therapies, patients continue to develop macro- and microvascular complications. Diabetes is associated with increased cardiac- and stroke-related deaths, kidney failure, blindness, and 60% of nontrauma lower-limb amputations (4). In cardiac surgery, diabetes as a preoperative risk factor confers greater morbidity than a previous myocardial infarction (7,8).

While these numbers show that diabetes will be the global health crisis of the next generation, its true pathophysiology has yet to be delineated. Alternative treatments targeting different models of this disease require careful and responsible examination. A large body of evidence now demonstrates surgery for type 2 diabetes can achieve up to complete disease remission, a goal almost unheard of in current diabetes care. Evidence collected over decades of bariatric …
Identification of differentially expressed mRNA species by an improved disply technique (DDRT-PCR) (1993)

We have significantly improved a method originally developed by Liang and Pardee [Science 257 (1992) 967-971] to display a broad spectrum of expressed genes and to detect differences in expression between different cell types. We have analysed various aspects of the technique and have modified it for both, the application to fast and efficient identification of genes and the use with automatic analysis systems. Based on the mathematical background we have devised the appropriate number of optimal PCR primers. We have also introduced nondenaturating gels for separating double stranded fragments as single bands. By applying the method to regenerating mouse liver, we have identified, out of a total of 38,000 bands, about 70 fragments where the expression of the corresponding genes seems to be differentially regulated at different time points. Application of the method to an automatic DNA sequencer was successfully done. Thus, we have confirmed the usefulness and increased the power of the RNA display technique, which we named differential display reverse transcription PCR (DDRT-PCR), and have extended the range of its application.
Brain grey matter abnormalities in medication-free patients with major depressive disorder: a meta-analysis (2014)

By excluding interference from medication effects, the present study identified grey matter reduction in the prefrontal-limbic network in MDD. The subgroup meta-analysis results suggest that an increased right thalamus volume might be a trait directly related to MDD, while an increased anterior cingulate cortex volume might be an effect of medication. The meta-regression results perhaps reveal the structural underpinning of the sex differences in epidemiological and clinical aspects of MDD.
Electron Transfer Reactions in DNA (1997)

This paper introduces to an active and provocative area of current research. It describes motivations for studying electron transfer (ET) chemistry in general and ET reactions in DNA in particular. A rate expression for a semiclassical electron transfer model is given along with a description of appropriate conditions for its use. Formulas describing the distance dependence of electronic coupling (HAB) and solvent reorganization energy are also provided as a basis for understanding and interpreting recent experiments. Three different long-range ET experiments are presented, and their results are compared with one another and with the results of similar experiments in proteins. Discrepancies and difficulties are noted, and suggestions for new experiments are made.
Highly nonlinear contact interaction and dynamic energy dissipation by forest of carbon nanotubes (2004)

Mechanical response and energy dissipation of an array of carbon nanotubes under high-strain rate deformation was studied using a simple drop-ball test with the measurement of the dynamic force between the ball and forest of nanotubes. This convenient process allows extracting force–displacement curves and evaluating dissipated energy by the nanotubes. The contact force exhibits a strongly nonlinear dependence on displacement being fundamentally different than the Hertz law. The forest of vertically aligned nanotubes may be used as a strongly nonlinear spring in discrete systems for monitoring signal propagation speed, and as a microstructure for localized energy absorption.
Metal Oxide Nanoparticles as Bactericidal Agents (2002)

Reactive magnesium oxide nanoparticles and halogen (Cl2, Br2) adducts of these MgO particles were allowed to contact certain bacteria and spore cells. Bacteriological test data, atomic force microscopy (AFM) images, and electron microscopy (TEM) images are provided, which yield insight into the biocidal action of these nanoscale materials. The tests show that these materials are very effective against Gram-positive and Gram-negative bacteria as well as spores. ζ-Potential measurements show an attractive interaction between the MgO nanoparticles and bacteria and spore cells, which is confirmed by confocal microscopy images. The AFM studies illustrate considerable changes in the cell membranes upon treatment, resulting in the death of the cells. TEM micrographs confirm these results and supply additional information about the processes inside the cells. Overall, the results presented illustrate that dry powder nanoparticulate formulations as well as water slurries are effective. It is proposed that abrasiveness, basic character, electrostatic attraction, and oxidizing power (due to the presence of active halogen) combine to promote these biocidal properties.
Adenosine and renal tubular function (2008)

Intrarenal adenosine and its receptors have important regulatory functions in the renal epithelium. A complete understanding of this autocrine/paracrine system holds great potential for novel therapeutic strategies, such as the use of nucleoside analogues for reno-protection in renal ischemia.
Glucagon-Like Peptide 1 Secretion by the L-Cell (2006)

Glucagon-like peptide 1 (GLP-1) is a gut-derived peptide secreted from intestinal L-cells after a meal. GLP-1 has numerous physiological actions, including potentiation of glucose-stimulated insulin secretion, enhancement of β-cell growth and survival, and inhibition of glucagon release, gastric emptying, and food intake. These antidiabetic effects of GLP-1 have led to intense interest in the use of this peptide for the treatment of patients with type 2 diabetes. Oral nutrients such as glucose and fat are potent physiological regulators of GLP-1 secretion, but non-nutrient stimulators of GLP-1 release have also been identified, including the neuromodulators acetylcholine and gastrin-releasing peptide. Peripheral hormones that participate in energy homeostasis, such as leptin, have also been implicated in the regulation of GLP-1 release. Recent studies have begun to elucidate the intracellular signaling pathways that mediate the effects of GLP-1 secretagogues on the intestinal L-cell. The purpose of this review is to summarize the known signaling mechanisms of GLP-1 secretagogues based on the available literature. A better understanding of the pathways underlying GLP-1 secretion may lead to novel approaches by which the levels of this important insulinotropic hormone can be enhanced in patients with type 2 diabetes.
Introduction to Food Processing (1985)

Introduction to food processing , Introduction to food processing , مرکز فناوری اطلاعات و اطلاع رسانی کشاورزی