gebhart/patrepeval huggingface dataset:
Activation of the glutathione peroxidase 2 (GPx2) promoter by β-catenin (2007)

GPx2, formerly named gastrointestinal glutathione peroxidase, is highly expressed in the proliferative area of the intestinal crypt-to-villus axis and in Paneth cells. Additionally, GPx2 is transiently up-regulated during development of gastrointestinal adenocarcinomas. Because both normal proliferation and differentiation of intestinal epithelial cells as well as carcinogenesis are regulated by the Wnt pathway, it was tested whether GPx2 may be a target of the beta-catenin/TCF complex which transfers Wnt signals. The GPx2 promoter contains five putative beta-catenin/TCF binding sites. Accordingly, the promoter was active in two cell lines with a constitutively active Wnt pathway, HepG2 and SW480, but not in BHK-21 cells in which the pathway is silent. Overexpression of beta-catenin/TCF activated the GPx2 promoter in all three cell lines. Overexpression of wild-type adenomatous polyposis coli (APC) in SW480 cells which harbor a mutated APC gene decreased basal GPx2 promoter activity. Truncation of the promoter identified one beta-catenin/TCF binding site that was sufficient for activation. Mutation of this site reduced the response to beta-catenin/TCF by more than 50%. These findings suggest a function of GPx2 in the maintenance of normal renewal of the intestinal epithelium. Whether up-regulation of GPx2 during carcinogenesis supports tumor growth or can rather be considered as a counteracting effect remains to be investigated.
Regenerative Glycosylation under Nucleophilic Catalysis (2014)

This article describes 3,3-difluoroxindole (HOFox)-mediated glycosylation. The uniqueness of this approach is that both the in situ synthesis of 3,3-difluoro-3H-indol-2-yl (OFox) glycosyl donors and activation thereof can be conducted in a regenerative fashion as is a typical reaction performed under nucleophilic catalysis. Only a catalytic amount of the OFox imidate donor and a Lewis acid activator are present in the reaction medium. The OFox imidate donor is constantly regenerated upon its consumption until glycosyl acceptor has reacted.
Effect of ultrasound on tissue-type plasminogen activator-induced thrombolysis. (1992)

Exposure of whole blood clots in vitro to intermittent ultrasound combined with t-PA caused a significant enhancement of thrombolysis compared with t-PA alone. Intermittent ultrasound also showed a trend toward enhancement of t-PA-induced clot lysis in an animal thrombosis model. These data suggest that noninvasive intermittent ultrasound may be a useful adjunct to thrombolytic therapy.
Structure analysis of sputter‐coated and ion‐beam sputter‐coated films: a comparative study (1983)

Gold, platinum and tungsten films were deposited by low energy input (7 mA, 450 V), or high deposition rate (80 mA, 1500 V), diode sputter coating and by ion beam sputter coating. Film structures on Formvar coated grids and on the surface of coated erythrocytes, resin embedded, sectioned, and recorded at high magnification in a TEM were compared using computer-assisted measurements and analysis of film thickness and grain size. The average grain size of the thinnest gold and platinum films was relatively independent of the mode or rate of deposition but as the film thickness increased, significant differences in grain size and film structure were observed. Thick platinum or gold films deposited by low energy input sputter coating contained large grain size and electron transparent cracks; however, more even films with narrower cracks but larger grain size were produced at high deposition rates. Ion beam sputter coated gold had relatively large grain size in 10 nm thick films, but beyond this thickness the grains coalesced to form a continuous film. Platinum films deposited by ion beam sputter coating were even and free of electron transparent cracks and had a very small grain size (1-2 nm), which was relatively independent of the film thickness. Tungsten deposition either by low energy input or ion beam sputter coating resulted in fine grained even films which were free of electron transparent cracks. Such films remained granular in substructure and had a grain size of about 1 nm which was relatively independent of film thickness. Tungsten films produced at high deposition rates were of poorer quality. We conclude that thick diode sputter coated platinum and gold films are best deposited at high deposition rates provided the specimens are not heat sensitive, the improvement in film structure being more significant than the slight increase in grain size. Thick diode or ion beam sputter coated gold films should be suitable for low resolution SEM, and thin discontinuous gold films for medium resolution SEM. Diode sputter coated platinum should be suitable for medium resolution SEM and ion beam sputter coated platinum for medium and some high resolution SEM. 1-5 nm thick tungsten films, deposited by low energy input or ion beam sputter coating should be suitable for high resolution SEM, particularly where contrast is of less importance than resolution.
Distorted Relation between mRNA Copy Number and Corresponding Major Histocompatibility Complex Ligand Density on the Cell Surface (2006)

The major histocompatibility complex (MHC) presents peptides derived from degraded cellular proteins to T-cells and is thus crucial for triggering specific immune responses against viral infections or cancer. Up to now, there has been no evidence for a correlation between levels of mRNA (the "transcriptome") and the density of MHC-peptide complexes (the "MHC ligandome") on cells. Because such dependences are of intrinsic importance for the detailed understanding of translation efficiency and protein turnover and thus for systems biology in general and for tumor immunotherapy in practical application, we quantitatively analyzed the levels of mRNA and corresponding MHC ligand densities in samples of renal cell carcinomas and their autologous normal kidney tissues. Relative quantification was carried out by gene chip analysis and by stable isotope peptide labeling, respectively. In comparing more than 270 pairs of gene expression and corresponding peptide presentation ratios, we demonstrate that there is no clear correlation (r = 0.32) between mRNA levels and corresponding MHC peptide levels in renal cell carcinoma. A significant number of peptides presented predominantly on tumor or normal tissue showed no or only minor changes in mRNA expression levels. In several cases, peptides could even be identified despite the virtual absence of the respective mRNA. Thus we conclude that a majority of epitopes from tumor-associated antigens will not be found in approaches based mainly on mRNA expression studies as mRNA expression reflects a distorted picture of the situation on the cell surface as visible for T-cells.
Extensive amplification of bcr/abl fusion genes clustered on three marker chromosomes in human leukemic cell line K-562. (1995)

Using fluorescence in situ hybridization (FISH), we were able to demonstrate 22-24-fold amplification of the bcr/abl fusion gene in the human leukemic cell line K-562. About 60% of the amplified sequences are localized to a large acrocentric marker chromosome, with another 30% clustered on a small acrocentric chromosome. In addition to these two masked Ph chromosomes, the remaining bcr/abl fusion genes are located on a der(2) distal to band q33. G- and C-banding analysis revealed similar unique banding patterns in both masked Ph chromosomes and suggests that amplification occurred by tandem duplication of the bcr/abl fusion site. Because the number of bcr/abl fusion genes may be increasing over time, it is critical that researchers using K-562 cells should be aware of this extensive amplification.
Novel Sulfur-Containing Phytoalexins from the Chinese Cabbage Brassica campestris L. ssp. pekinensis (Cruciferae) (1988)

Abstract The first isolation and structure elucidation of four sulfur-containing indole phytoalexins from Chinese cabbage inoculated with Pseudomonas cichorii are described.
Multimodal silica nanoparticles are effective cancer-targeted probes in a model of human melanoma (2011)

Nanoparticle-based materials, such as drug delivery vehicles and diagnostic probes, currently under evaluation in oncology clinical trials are largely not tumor selective. To be clinically successful, the next generation of nanoparticle agents should be tumor selective, nontoxic, and exhibit favorable targeting and clearance profiles. Developing probes meeting these criteria is challenging, requiring comprehensive in vivo evaluations. Here, we describe our full characterization of an approximately 7-nm diameter multimodal silica nanoparticle, exhibiting what we believe to be a unique combination of structural, optical, and biological properties. This ultrasmall cancer-selective silica particle was recently approved for a first-in-human clinical trial. Optimized for efficient renal clearance, it concurrently achieved specific tumor targeting. Dye-encapsulating particles, surface functionalized with cyclic arginine-glycine-aspartic acid peptide ligands and radioiodine, exhibited high-affinity/avidity binding, favorable tumor-to-blood residence time ratios, and enhanced tumor-selective accumulation in αvβ3 integrin-expressing melanoma xenografts in mice. Further, the sensitive, real-time detection and imaging of lymphatic drainage patterns, particle clearance rates, nodal metastases, and differential tumor burden in a large-animal model of melanoma highlighted the distinct potential advantage of this multimodal platform for staging metastatic disease in the clinical setting.
Expression and release of CD27 in human B-cell malignancies (1993)

CD27, a transmembrane disulfide-linked 55-kD homodimer, belongs to the nerve growth factor-receptor family, a group of homologous molecules involved in lymphocyte differentiation and selection. It is expressed on mature thymocytes, peripheral blood T cells, and a subpopulation of B cells. We investigated the expression of CD27 on malignant B cells representative for a broad range of stages in physiologic antigen-independent and -dependent B-cell development. In normal lymphoid tissue CD27+ B cells were only found in the peripheral blood (29.8% +/- 10.8%, n = 13) and in germinal centers. With the exception of pro-B and the majority of pre-pre-B acute lymphocytic leukemias and of myelomas, CD27 expression of variable intensity was detected on almost all immature and mature malignant B cells tested. Moreover, using a sandwich enzyme-linked immunosorbent assay we could show the presence of sometimes very high (up to 6,000 U/mL; normal values < 190 U/mL) amounts of the soluble 28- to 32-kD form of CD27 (sCD27) in the sera of patients with B-cell malignancies. The highest levels of sCD27 were observed in patients with chronic lymphocytic leukemia and low-grade non-Hodgkin's lymphomas. Most importantly, both in transversal and longitudinal studies, we found a strong correlation between sCD27 levels in the serum and tumor load, indicating that sCD27 can be used as a disease-marker in patients with acute and chronic B-cell malignancies.
Stop Smoking—Tube-In-Tube Helical System for Flameless Calcination of Minerals (2017)

Mineral calcination worldwide accounts for some 5–10% of all anthropogenic carbon dioxide (CO2) emissions per year. Roughly half of the CO2 released results from burning fossil fuels for heat generation, while the other half is a product of the calcination reaction itself. Traditionally, the fuel combustion process and the calcination reaction take place together to enhance heat transfer. Systems have been proposed that separate fuel combustion and calcination to allow for the sequestration of pure CO2 from the calcination reaction for later storage/use and capture of the combustion gases. This work presents a new tube-in-tube helical system for the calcination of minerals that can use different heat transfer fluids (HTFs), employed or foreseen in concentrated solar power (CSP) plants. The system is labeled ‘flameless’ since the HTF can be heated by other means than burning fossil fuels. If CSP or high-temperature nuclear reactors are used, direct CO2 emissions can be divided in half. The technical feasibility of the system has been accessed with a brief parametric study here. The results suggest that the introduced system is technically feasible given the parameters (total heat transfer coefficients, mass- and volume flows, outer tube friction factors, and –Nusselt numbers) that are examined. Further experimental work will be required to better understand the performance of the tube-in-tube helical system for the flameless calcination of minerals.
Deutsch-Jozsa algorithm as a test of quantum computation (1998)

A redundancy in the existing Deutsch-Jozsa quantum algorithm is removed and a refined algorithm, which reduces the size of the register and simplifies the function evaluation, is proposed. The refined version allows a simpler analysis of the use of entanglement between the qubits in the algorithm and provides criteria for deciding when the Deutsch-Jozsa algorithm constitutes a meaningful test of quantum computation.
Effect of erythromycin on D-galactose absorption and sucrase activity in rabbit jejunum (1993)

Erythromycin, an antibiotic used in the treatment of infectious diseases, produces gastrointestinal side effects such as diarrhea. The mechanisms by which erythromycin produces these effects are not known. However, erythromycin has been shown to increase gastrointestinal motor activity and to inhibit intestinal neutral amino acid absorption. Both effects could contribute to the gastrointestinal side effects observed. Because the intestinal systems of amino acid and sugar transport present similar characteristics, the aim of the present work was to determine whether erythromycin also alters D-galactose absorption and sucrase activity in rabbit jejunum. The results show that erythromycin diminishes intestinal D-galactose absorption. This effect seems to be due to an action mainly located on the Na(+)-dependent sugar transport of the mucosal border of the intestinal epithelium. Erythromycin also inhibits the Na(+)-K+ ATPase activity of the enterocyte, which might explain the inhibition of the D-galactose Na(+)-dependent transport. However, a direct action of the erythromycin molecule on the Na(+)-dependent carrier cannot be excluded. Erythromycin did not alter sucrase activity.
Time to Onset of Analgesia and Analgesic Efficacy of Effervescent Acetaminophen 1000 mg Compared to Tablet Acetaminophen 1000 mg in Postoperative Dental Pain: A Single‐Dose, Double‐Blind, Randomized, Placebo‐Controlled Study (2000)

This randomized, double-blind, placebo-controlled study compared the time to onset of analgesia and the analgesic efficacy of two formulations of acetaminophen 1000 mg--an effervescent solution and tablet--in 242 patients with moderate or severe pain following dental surgery. Onset of analgesia was determined using a two-stopwatch procedure. Analgesia was assessed over a 4-hour period. Treatments were compared using standard indexes of pain intensity and pain relief and summary measures. Both acetaminophen formulations were significantly more effective than their corresponding placebo for all efficacy assessments. The median time to onset of analgesia was significantly shorter with effervescent acetaminophen (20 minutes) compared to tablet acetaminophen (45 minutes). During the first 45 minutes after administration, effervescent acetaminophen was significantly more effective at each scheduled assessment time than tablet acetaminophen. The median time to meaningful pain relief was significantly shorter with effervescent acetaminophen (45 minutes) compared to tablet acetaminophen (60 minutes). At 4 hours after administration, the pain relief was significantly better with tablet acetaminophen than with effervescent acetaminophen. No other significant differences were observed between the active treatments. In conclusion, effervescent acetaminophen produces a significantly faster onset of analgesia than tablet acetaminophen.
Selective CVD tungsten silicide for VLSI applications (1987)

Selective CVD tungsten silicide for barrier metal and contact metallization, and for via-hole filling has been developed for VLSI devices. This new process makes possible low-temperature filling of via holes up to several order of magnitude faster than conventional selective CVD tungsten. Selective CVD tungsten silicide was investigated for its deposition characteristics, contact electrical properties, and WSi <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">x</inf> /Al bilayer properties.
Self-starting, passively mode-locked Fabry-Perot fiber soliton laser using nonlinear polarization evolution (1993)

The authors demonstrate pure self-starting mode-locked operation in a fiber Fabry-Perot cavity. The laser produces 1.6 ps transform-limited soliton pulses by means of nonlinear polarization evolution in conjunction with an intracavity fiber polarizer. This laser system can be used for the generation and study of soliton pulses in the picosecond regime. With a careful choice of the fiber dispersion and fiber length, the system should also be able to operate in the femtosecond regime. The advantage of the system over existing self-starting fiber soliton lasers is that an optical isolator (an expensive component) is not required. The replacement of the two mirrors with fiber reflection gratings would make this configuration a truly all-fiber device.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Alterations of Rings B and C of Colchicine Are Cumulative in Overall Binding to Tubulin but Modify Each Kinetic Step (1996)

The role of the elimination of ring B and/or the modification of ring C of colchicine in tubulin binding kinetics and thermodynamics has been characterized, using four different molecules. These ligands are colchicine (COL); 2-methoxy-5-(2',3',4'-trimethoxyphenyl)-2,4,6-cycloheptatrien-1-on e (MTC), in which the central ring B has been reduced to one bond; allocolchicine (ALLO), in which ring C has been replaced by a six-membered ring; and 2,3,4-trimethoxy-4'-carbomethoxy-1,1'-biphenyl (TCB), where the same two modifications are made simultaneously. This paper describes the kinetics of association of ALLO with tubulin. The binding is accompanied by a fluorescence increase with slow biphasic kinetics, indicating binding to fast and slow tubulin isotypes. Binding to each of these isotypes occurs in two steps: a fast initial binding followed by a slower isomerization step. The K1 and k2 values for ALLO at 25 degrees C are 14,000 +/- 2,000 and 25,000 +/- 6,000 M-1 (fast and slow isotypes) and 0.055 +/- 0.003 s-1 and 0.013 +/- 0.001 s-1 (fast and slow isotype), respectively. For ALLO the reaction standard enthalpy change of the initial binding is 68 +/- 5 kJ.mol-1 (fast isotype) and 45 +/- 33 kJ.mol-1 (slow isotype) and the activation energy for the second forward step is 58 +/- 14 kJ.mol-1 (fast isotype) and 81 +/- 17 kJ.mol-1 (slow isotype). Displacement kinetics of bound ALLO by podophyllotoxin was monoexponential. The activation energy for the isomerization in the off direction is 107 +/- 7 kJ.mol-1. Comparison of the thermodynamic parameters for all four compounds shows that the modifications of both rings are cumulative with respect to overall binding. For the intermediate state there is a mutual influence of both modifications, suggesting an alteration of the reaction pathway.
High-performance all-polymer integrated circuits (2000)

In this letter, we demonstrate the integration of all-polymer field-effect transistors in fully functional integrated circuits with operating frequencies of several kHz. One of the key items is an approach to incorporate low-Ohmic vertical interconnects compatible with an all-polymer approach. Inverters, NAND gates, and ring oscillators with transistor channel lengths down to 1 μm have been constructed. Inverters show voltage amplification at moderate biases and pentacene seven-stage ring oscillators show switching frequencies of a few kHz. The potential to realize large integrated circuits is demonstrated by a 15 bit code generator circuit using several hundreds of devices. The proposed concept was evaluated for three solution-processable organic semiconductors.
Drug targeting by long‐circulating liposomal glucocorticosteroids increases therapeutic efficacy in a model of multiple sclerosis (2003)

High-dose glucocorticosteroid hormones are a mainstay in the treatment of relapses in multiple sclerosis. We searched for a way to deliver ultra high doses of glucocorticosteroids to the CNS of rats with experimental autoimmune encephalomyelitis (EAE) using a novel formulation of polyethylene glycol (PEG)-coated long-circulating liposomes encapsulating prednisolone (predni solone liposomes, PL). 3H-labelled PL showed selective targeting to the inflamed CNS, where up to 4.5-fold higher radioactivity was achieved than in healthy control animals. HPLC revealed much higher and more persistent levels of prednisolone in spinal cord after PL compared with an equal dose of free prednisolone. Gold-labelled liposomes could be detected in the target tissue, mostly taken up by macrophages (Mphi), microglial cells and astrocytes. Blood-brain barrier disruption was greatly reduced by 10 mg/kg PL, which was superior to a 5-fold higher dose of free methylprednisolone (MP). PL was also superior to MP in diminishing T-cell infiltration by induction of T-cell apoptosis in spinal cord. Mphi infiltration was clearly decreased only by PL. The percentage of tumour necrosis factor-alpha (TNF-alpha)-positive T cells or Mphi was greatly reduced by PL and by MP. No adverse effects on glial cells were detected. A single injection of PL clearly ameliorated the course of adoptive transfer EAE and EAE induced by immunization. In conclusion, PL is a highly effective drug in treatment of EAE, and is superior to a 5-fold higher dose of free MP, possibly by means of drug targeting. These findings may have implications for future therapy of autoimmune disorders such as multiple sclerosis.
Estimation of mean scatterer spacing based on autoregressive spectral analysis of pre-filtered echo data (2002)

Mean scatterer spacing (MSS) has been recognized as an effective tool for characterization and discrimination of tissues that present a semi-regular lattice of scatterers. The spectrum of the ultrasound echo of these tissues presents a number of harmonics due to the semi-regular scatterer distribution. A new algorithm for estimating the MSS by exploring the harmonic contents of the ultrasound echo is presented. This algorithm also provides a reliability indicator of the MSS estimate allowing for acceptance or rejection of the estimate. Simulations show that the acceptance criterion has been effective in reducing the standard deviation of the MSS estimates. In vitro experiments were conducted to illustrate the practical use of the proposed algorithm in the estimation of MSS.