gebhart/patrepeval huggingface dataset:
Interleukin-21 inhibits dendritic cell activation and maturation (2003)

Interleukin 21 (IL-21) is a newly described cytokine with homology to IL-4 and IL-15. They belong to a cytokine family that uses the common gamma chain for signaling but also have their private high-affinity receptors. Since it is well known that IL-4 modulates differentiation and activation of dendritic cells (DCs), we analyzed effects of IL-21 compared with IL-15 on DC differentiation, maturation, and function. Here we show that DCs generated with granulocyte-macrophage colony-stimulating factor (GMCSF) in the presence of IL-21 (IL-21DCs) differentiated into phenotypically and functionally altered DCs characterized by reduced major histocompatibility complex class II (MHCII) expression, high antigen uptake, and low stimulatory capacity for T-cell activation in vitro. Additionally, IL-21DCs completely failed to induce antigen (Ag)-specific T-cell mediated contact hypersensitivity. Furthermore, IL-21 blocked lipopolysaccharide (LPS)-induced activation and maturation of DCs, which was not mediated by release of the anti-inflammatory cytokine IL-10. In contrast, when supplementing GMCSF with IL-15, DCs differentiated into mature antigen-presenting cells (APCs) with low antigen uptake and highly significant increased capacities to stimulate T cells in vitro and in vivo. Taken together, these results identify a dichotomous action of these structurally related cytokines on DCs, establishing IL-21 as inhibitory cytokine on DC activation and IL-15 as potent stimulator of DC function, making both cytokines interesting targets for therapeutic manipulation of DC-induced immune reactions.
Comparative analysis of gene expression among low G+C gram-positive genomes (2004)

We present a comparative analysis of predicted highly expressed (PHX) genes in the low G+C Gram-positive genomes of Bacillus subtilis, Bacillus halodurans, Listeria monocytogenes, Listeria innocua, Lactococcus lactis, Streptococcus pyogenes, Streptococcus pneumoniae, Staphylococcus aureus, Clostridium acetobutylicum, and Clostridium perfringens. Most enzymes acting in glycolysis and fermentation pathways are PHX in these genomes, but not those involved in the TCA cycle and respiration, suggesting that these organisms have predominantly adapted to grow rapidly in an anaerobic environment. Only B. subtilis and B. halodurans have several TCA cycle PHX genes, whereas the TCA pathway is entirely missing from the metabolic repertoire of the two Streptococcus species and is incomplete in Listeria, Lactococcus, and Clostridium. Pyruvate-formate lyase, an enzyme critical in mixed acid fermentation, is among the highest PHX genes in all these genomes except for C. acetobutylicum (not PHX), and B. subtilis, and B. halodurans (missing). Pyruvate-formate lyase is also prominently PHX in enteric gamma-proteobacteria, but not in other prokaryotes. Phosphotransferase system genes are generally PHX with selection of different substrates in different genomes. The various substrate specificities among phosphotransferase systems in different genomes apparently reflect on differences in habitat, lifestyle, and nutrient sources.
Secure DRM scheme for future mobile networks based on trusted mobile platform (2005)

With the emergence of wide bandwidth wireless networks, mobile Internet is set to provide a significant channel for multimedia content distribution. The need for mobile digital right management (DRM) solution is thus intensified in order to safeguard mobile media content. The open mobile alliance (OMA) has been set to define open DRM technologic specifications to protect copyrighted content against piracy, unauthorized use and distribution over mobile networks. However, we argue that there still are some potential security flaws in its recent version 2 specifications. A secure DRM scheme based on trusted mobile platform (TMP) is proposed in this paper to enhance the security of OMA DRM specification v2 and provide interoperability and compatibility between trusted computing (TC) and OMA DRM. According to our analysis thereafter the TMP in conjunction with OMA DRM v2 may offer a considerably more robust DRM system for future mobile networks.
Inhibition of in vitro angiogenesis by 2‐methoxy‐ and 2‐ethyl‐estrogen sulfamates (2004)

Sulfamoylation of 2-methoxyestrone (2-MeOE1) was shown previously to enhance its potency as an anti-proliferative agent against breast cancer cells. We have examined the ability of a series of 2-methoxyestradiol (2-MeOE2) and 2-ethylestradiol (2-EtE2) sulfamates to inhibit angiogenesis in vitro. 2-MeOE2 bis-sulfamate and 2-EtE2 sulfamate were potent inhibitors of human umbilical vein endothelial cell (HUVEC) proliferation with IC(50) values of 0.05 microM and 0.01 microM, respectively. A novel co-culture system, in which endothelial cells were cultured in a matrix of human dermal fibroblasts, was also used to assess the anti-angiogenic potential of these drugs. In this system endothelial cells proliferate and migrate through the culture matrix to form tubule structures. Whereas 2-MeOE2 (1.0 microM) caused a small reduction in tubule formation, both 2-MeOE2 bis-sulfamate (0.1 microM) and 2-EtE2 sulfamate (0.1 microM) almost completely abolished tubule formation. 2-MeOE2 bis-sulfamate and 2-EtE2 sulfamate both induced BCL-2 phosphorylation, p53 protein expression and apoptosis in HUVECs. Microarray analysis of a limited number of genes known to be involved in the angiogenic process did not show any gross changes in cells treated with the 2-substituted estrogens. The sulfamoylated derivatives of 2-MeOE2 and 2-EtE2 are potent inhibitors of in vitro angiogenesis and both compounds should have therapeutic potential.
Competing ICA techniques in biomedical signal analysis (2002)

We present the background for the statistical decomposition of a signal called independent component analysis (ICA) and survey its application to blind source separation (BSS). We review principal component analysis (PCA), and gradient and cumulant ICA techniques for the complete noiseless BSS problem (more sensors than sources). Results for noisy systems are also discussed. The application of these techniques in the analysis of biomedical signals like EEG, ECG and fMRI, and their early success, is reviewed. We also propose the separation of the current EEG and ECG electrical recordings into independent brain (iEEG) and heart signals (iECG) in order to provide better signals for compression, browsability, and noninvasive medical diagnosis.
Expression of CD154 (CD40 Ligand) by Human Lung Fibroblasts: Differential Regulation by IFN-γ and IL-13, and Implications for Fibrosis (2004)

The CD40-CD40 ligand (CD40L) system (CD154) is a central means of immune cell communication crucial for Ig class switching and enhanced Ag presentation. CD40 is also a key signaling conduit to activate nonhematopoietic cells, such as fibroblasts and endothelial cells, to produce proinflammatory mediators. Disruption of the CD40-CD40L pathway reduces lung inflammation and fibrosis, autoimmune disease and atherosclerosis. Non-bone marrow-derived structural cells are not known to express CD40L. In this study, we reveal the intriguing finding that primary strains of human lung fibroblasts derived from normal and scarred lung express both CD40L mRNA and protein. Interestingly, CD40L expression is down-regulated by IFN-gamma, a type 1 cytokine with antiscarring properties, and is up-regulated by the profibrogenic type 2 cytokine IL-13. Flow cytometry and laser confocal microscopy revealed that the majority of CD40L was located intracellularly. Importantly, fibroblast strains from human idiopathic pulmonary fibrosis tissue expressed increased levels of CD40L compared with fibroblasts from nonscarred lung. Fibroblasts in the scarred areas of human lung tissue expressed high levels of CD40L. Finally, the blood and lung lavage levels of CD40L are significantly elevated in fibrosis patients compared with normals. These new findings demonstrate that fibroblasts are a new source of CD40L and that those involved in scarring may have undergone a selected expansion for high CD40L expression. Moreover, the antifibrotic activity of IFN-gamma may involve the down-regulation of fibroblast CD40L levels. We speculate that fibroblast-derived CD40L plays a role in promoting fibroblast activation and possibly in interaction with CD40 bearing cells.
A Preliminary Fluorodeoxyglucose Positron Emission Tomography Study in Healthy Adults Reporting Dream-Enactment Behavior (2006)

These preliminary findings suggest that cognitively normal persons with DEB have reduced CMRgl in brain regions known to be metabolically affected by DLB, supporting further study of DEB as a possible risk factor for the development of DLB.
Macrophage Colony-Stimulating Factor-1 Receptor Expression Is Associated with Poor Outcome in Breast Cancer by Large Cohort Tissue Microarray Analysis (2004)

CSF-1R expression is a strong predictor of poor outcome in nonmetastatic breast cancer. It is significantly more frequently expressed in patients with nodal involvement. Among the node-negative patients, it has a stronger association with survival than among the node-positive patients. Our findings support other preclinical findings that CSF-1R may be involved in local invasion and metastasis. Thus, this receptor may be an effective target for therapeutic agents.
Wavelets in Physics (1999)

A guided tour J. C. van den Berg 1. Wavelet analysis, a new tool in physics J.-P. Antoine 2. The 2-D wavelet transform, physical applications J.-P. Antoine 3. Wavelets and astrophysical applications A. Bijaoui 4. Turbulence analysis, modelling and computing using wavelets M. Farge, N. K.-R. Kevlahan, V. Perrier and K. Schneider 5. Wavelets and detection of coherent structures in fluid turbulence L. Hudgins and J. H. Kaspersen 6. Wavelets, non-linearity and turbulence in fusion plasmas B. Ph. van Milligen 7. Transfers and fluxes of wind kinetic energy between orthogonal wavelet components during atmospheric blocking A. Fournier 8. Wavelets in atomic physics and in solid state physics J.-P. Antoine, Ph. Antoine and B. Piraux 9. The thermodynamics of fractals revisited with wavelets A. Arneodo, E. Bacry and J. F. Muzy 10. Wavelets in medicine and physiology P. Ch. Ivanov, A. L. Goldberger, S. Havlin, C.-K. Peng, M. G. Rosenblum and H. E. Stanley 11. Wavelet dimension and time evolution Ch.-A. Guerin and M. Holschneider.
The participation of macrophages, glomerular procoagulant activity, and factor VIII in glomerular fibrin deposition. Studies on anti-GBM antibody-induced glomerulonephritis in rabbits. (1986)

The temporal relationships of macrophage accumulation, glomerular fibrin deposition, the expression of glomerular procoagulant activity (PCA), and Factor VIII antigen deposition were studied in rabbits in which antiglomerular basement membrane antibody-induced glomerulonephritis (anti-GBM GN) developed. The initiation of injury coincided with the accumulation of glomerular macrophages. Glomerular fibrin, assessed by immunofluorescence and by deposition of 125I-fibrinogen, paralleled the development of glomerular crescents and renal impairment. Macrophage ingress clearly preceded the deposition of 125I-fibrinogen within glomeruli. Augmented levels of PCA were present in glomeruli prior to the initiation of fibrin deposition, and peak levels coincided with the peak glomerular macrophage presence. Factor VIII related antigen was apparent late in the disease and was present mainly at the margins of fibrinous crescents. These data demonstrate that accumulation of glomerular macrophages precedes glomerular fibrin deposition in anti-GBM GN. The augmentation of PCA, coincident with the appearance of glomerular macrophages, suggests a role for macrophage PCA in the initiation of fibrin deposition within the glomerular tuft in this model.
CdSe/CdS/ZnS and CdSe/ZnSe/ZnS Core−Shell−Shell Nanocrystals (2004)

We report the synthesis and characterization of highly luminescent colloidal nanocrystals consisting of CdSe cores protected with double inorganic shells (core−shell−shell nanocrystals). The outer ZnS shell provides efficient confinement of electron and hole wave functions inside the nanocrystal as well as high photochemical stability. Introducing the middle shell (CdS or ZnSe) sandwiched between CdSe core and ZnS outer shell allows considerable reducing strain inside nanocrystals because CdS and ZnSe have the lattice parameter intermediate to those of CdSe and ZnS. In contrast to CdSe/ZnS core−shells, in the core−shell−shell nanocrystals ZnS shell grows nearly defect free. Due to high quality of the ZnS shell, the core−shell−shell nanocrystals exhibit PL efficiency and photostability exceeding those of CdSe/ZnS nanocrystals. Preferential growth of the middle CdS shell in one crystallographic direction allows engineering the shape and luminescence polarization of the core−shell−shell nanocrystals.
Nanoscience and Nanostructures for Photovoltaics and Solar Fuels (2010)

Quantum confinement of electronic particles (negative electrons and positive holes) in nanocrystals produces unique optical and electronic properties that have the potential to enhance the power conversion efficiency of solar cells for photovoltaic and solar fuels production at lower cost. These approaches and applications are labeled third generation solar photon conversion. Prominent among these unique properties is the efficient formation of more than one electron-hole pair (called excitons in nanocrystals) from a single absorbed photon. In isolated nanocrystals that have three-dimensional confinement of charge carriers (quantum dots) or two-dimensional confinement (quantum wires and rods) this process is termed multiple exciton generation. This Perspective presents a summary of our present understanding of the science of optoelectronic properties of nanocrystals and a prognosis for and review of the technological status of nanocrystals and nanostructures for third generation photovoltaic cells and solar fuels production.
Translocation of a Channel-Forming Antimicrobial Peptide, Magainin 2, across Lipid Bilayers by Forming a Pore (1995)

A channel-forming antimicrobial peptide, magainin 2, has been shown to translocate across phospholipid bilayers by forming a pore comprising multimeric peptides. The translocation was demonstrated by four sets of experiments by use of resonance energy transfer from tryptophan introduced into the peptide to a dansyl chromophore incorporated into the lipid membrane. The translocation was coupled to pore formation, as detected by the dye efflux from the lipid vesicles; about 30% of the total peptide molecules translocated into the inner leaflets over 10 min, while 80% of the dye molecules leaked out at a lipid to peptide ratio of 57. This novel model can explain the problems debated so far, i.e., the peptide forms an ion channel whereas the magainin helix essentially lies parallel to the membrane surface. Channel (pore) formation in the vesicles is a transient process observable mainly during the early stage of the peptide membrane interactions.
Graphene Oxide−MnO2 Nanocomposites for Supercapacitors (2010)

A composite of graphene oxide supported by needle-like MnO(2) nanocrystals (GO-MnO(2) nanocomposites) has been fabricated through a simple soft chemical route in a water-isopropyl alcohol system. The formation mechanism of these intriguing nanocomposites investigated by transmission electron microscopy and Raman and ultraviolet-visible absorption spectroscopy is proposed as intercalation and adsorption of manganese ions onto the GO sheets, followed by the nucleation and growth of the crystal species in a double solvent system via dissolution-crystallization and oriented attachment mechanisms, which in turn results in the exfoliation of GO sheets. Interestingly, it was found that the electrochemical performance of as-prepared nanocomposites could be enhanced by the chemical interaction between GO and MnO(2). This method provides a facile and straightforward approach to deposit MnO(2) nanoparticles onto the graphene oxide sheets (single layer of graphite oxide) and may be readily extended to the preparation of other classes of hybrids based on GO sheets for technological applications.
Engineering a Photoactivated Caspase-7 for Rapid Induction of Apoptosis (2011)

Apoptosis is a cell death program involved in the development of multicellular organisms, immunity, and pathologies ranging from cancer to HIV/AIDS. We present an engineered protein that causes rapid apoptosis of targeted cells in monolayer culture after stimulation with blue light. Cells transfected with the protein switch L57V, a tandem fusion of the light-sensing LOV2 domain and the apoptosis-executing domain from caspase-7, rapidly undergo apoptosis within 60 min after light stimulation. Constant illumination of under 5 min or oscillating with 1 min exposure had no effect, suggesting that cells have natural tolerance to a short duration of caspase-7 activity. Furthermore, the overexpression of Bcl-2 prevented L57V-mediated apoptosis, suggesting that although caspase-7 activation is sufficient to start apoptosis, it requires mitochondrial contribution to fully commit.
Bacteriorhodopsin and Related Pigments of Halobacteria (1982)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More
Impact of Hemorrhage on Trauma Outcome: An Overview of Epidemiology, Clinical Presentations, and Therapeutic Considerations (2006)

The world-wide impact of traumatic injury and associated hemorrhage on human health and well-being cannot be overstated. Twelve percent of the global disease burden is the result of violence or accidental injury. Hemorrhage is responsible for 30 to 40% of trauma mortality, and of these deaths, 33 to 56% occur during the prehospital period. Among those who reach care, early mortality is caused by continued hemorrhage, coagulopathy, and incomplete resuscitation. The techniques of early care, including blood transfusion, may underlie late mortality and long-term morbidity. While the volume of blood lost cannot be measured, physiologic and chemical measures and the number of units of blood given are readily recorded and analyzed. Improvements in early hemorrhage control and resuscitation and the prevention and aggressive treatment of coagulopathy appear to have the greatest potential to improve outcomes in severely injured trauma patients.
Cerebrospinal fluid tau, Aß, and phosphorylated tau protein for the diagnosis of Alzheimer's disease (2006)

The diagnosis of AD is still largely based on exclusion criteria of secondary causes and other forms of dementia with similar clinical pictures, than the diagnostic accuracy of AD is low. Improved methods of early diagnosis are needed, particularly because drugs treatment is more effective in the early stages of the disease. Recent research focused the attention to biochemical diagnostic markers (biomarkers) and according to the proposal of a consensus group on biomarkers, three candidate CSF markers reflecting the pathological AD processes, have recently been identified: total tau protein (t-tau), amyloid beta(1-42) protein (A beta42), and tau protein phosphorylated at AD-specific epitopes (p-tau). Several articles report reduced CSF levels of A beta42 and increased CSF levels of t-tau and p-tau in AD; the sensitivity and specificity of these data are able for discrimination of AD patients from controls. However, the specificity for other dementias is low. According to the literature analysis reported in the present review, we can conclude that the combination of the CSF markers and their ratios may significantly increase the specificity and the accuracy of AD diagnosis.
Generation ofstella-GFP transgenic mice: A novel tool to study germ cell development (2006)

The relationship between germ cells and pluripotent embryonic stem (ES) cells is of particular interest, together with approaches to generate primordial germ cell (PGCs) from ES cells. A critical requirement in these experiments is the ability to unambiguously detect PGCs with the use of, for example, reporter genes. The currently available transgenic reporters do not show exclusive expression in PGCs at their earliest developmental stages. Here we describe the use of germline-restricted expression of stella, which is currently the best marker gene for PGCs. We generated two stella-GFP reporters and show that both transgenes surpass other reporters in terms of timing and specificity of expression in PGCs. Additionally, we demonstrate the usefulness of stella-GFP during the derivation of PGCs from ES cells.
Application Resource Demand Phase Analysis and Prediction in Support of Dynamic Resource Provisioning (2007)

Profiling the execution phases of an application can lead to optimizing the utilization of the underlying resources. This is the thrust of this paper, which presents a novel system-level application resource demand phase analysis and prediction prototype to support on-demand resource provisioning. The phase profile learned from historical runs is used to classify and predict phase behavior using a set of algorithms based on clustering. The process takes into consideration application's resource consumption patterns, pricing schedules defined by the resource provider, and penalties associated with service-level agreement (SLA) violations.
A Study of Options for High-Speed TDM-PON Beyond 10G (2017)

In this paper, we present and discuss options for increasing the serial bitrate of time-division-multiplexed passive optical network (TDM-PON) beyond 10 Gbps. The objective of this paper is to give an overview of the candidate technologies for increasing the serial bitrate beyond 10 Gbps and investigate which is the most suitable based on cost and technical performance. For PON-based systems, the main target is to increase the serial bitrate while decreasing the cost per bit. Challenges associated with increasing the serial bitrate beyond 10 Gbps are studied. Technologies that have the potential to enable the increase of the serial bitrate in a cost effective way are presented and discussed. Different modulation schemes are presented and the tradeoffs for each scheme are studied. An overview of experimental results on 25 and 40 Gbps TDM-PON reported in the literature is given as well.
RNA interference (RNAi) induction with various types of synthetic oligonucleotide duplexes in cultured human cells (2002)

Various types of synthetic oligonucleotide duplexes against the Photinus luciferase gene were tested on their induction of the sequence-specific RNA interference (RNAi) activity in transfected human cells. Results indicate that RNA duplexes with ribonucleotide 3' overhangs rather than those with deoxyribonucleotide 3' overhangs induce more efficient RNAi activity, and that sense-stranded DNA/antisense-stranded RNA hybrids induce a moderate RNAi activity. These results suggest that there is a difference in the potential of oligonucleotide duplexes to be RNAi mediators, i.e. short interfering RNAs (siRNAs), between human RNAi and invertebrate RNAi. The data further show that different siRNAs induce different levels of RNAi.