gebhart/patrepeval huggingface dataset:
Proteasome-Dependent Degradation of Daxx by the Viral E1B-55K Protein in Human Adenovirus-Infected Cells (2010)

The death-associated protein Daxx found in PML (promyelocytic leukemia protein) nuclear bodies (PML-NBs) is involved in transcriptional regulation and cellular intrinsic antiviral resistence against incoming viruses. We found that knockdown of Daxx in a nontransformed human hepatocyte cell line using RNA interference (RNAi) techniques results in significantly increased adenoviral (Ad) replication, including enhanced viral mRNA synthesis and viral protein expression. This Daxx restriction imposed upon adenovirus growth is counteracted by early protein E1B-55K (early region 1B 55-kDa protein), a multifunctional regulator of cell-cycle-independent Ad5 replication. The viral protein binds to Daxx and induces its degradation through a proteasome-dependent pathway. We show that this process is independent of Ad E4orf6 (early region 4 open reading frame 6), known to promote the proteasomal degradation of cellular p53, Mre11, DNA ligase IV, and integrin alpha3 in combination with E1B-55K. These results illustrate the importance of the PML-NB-associated factor Daxx in virus growth restriction and suggest that E1B-55K antagonizes innate antiviral activities of Daxx and PML-NBs to stimulate viral replication at a posttranslational level.
[Experimental study on co-culture of early embryo and cancer cells in vitro]. (2009)

The co-culture system of early embryos and cancer cells is an important means to observe the biological behavior changes of embryos and cancer cells in vitro. In this study, we co-cultured the 3.5 dpc mouse embryo with malignant tumor cells, investigated the development of blastocyst by observing the hatchment, attachment and outgrowth, observed the biological behavior changes of cancer cells in the embryonic circumstances, and detected the proliferation and apoptosis of cancer cells. Compared with the control, the embryos developed normally in the tumor environments, and the rate of hatchment, attachment and outgrowth increased significantly (P<0.05). However, there was no significant change of cancer cells in morphology, proliferation and apoptosis in the co-culture system (P>0.05). Under the co-culture system, the early embryo developed normally, and the cancer cells also grew well. There may be similarities between the embryos and cancer cell's choice for living. Moreover, the growth of embryos could be promoted by cancer cells in the co-culture system. This might be related to the similarities of gene expression, growth factors and signal transduction mechanisms between embryos and cancer cells.
Coupling Strategies for the Synthesis of Peptide-Oligonucleotide Conjugates for Patterned Synthetic Biomineralization (2011)

This work describes preparation strategies for peptide-oligonucleotide conjugates that combine the self-assembling behavior of DNA oligonucleotides with the molecular recognition capabilities of peptides. The syntheses include a solution-phase fragment coupling reaction and a solid-phase fragment coupling strategy where the oligonucleotide has been immobilized on DEAE Sepharose. The yield of four coupling reagents is evaluated, two reagents in water, EDC (1-ethyl-3-(3-dimethylaminopropyl) carbodiimide hydrochloride) and DMTMM (4-(4,6-dimethoxy[1,3,5]triazin-2-yl)-4-methyl-morpholinium chloride), and two in dimethylformamide (DMF), PyBOP ((Benzotriazol-1-yloxy) tripyrrolidinophosphonium hexafluorophosphate) and HBTU (O-benzotriazole-N,N,N',N'-tetramethyluronium hexafluorophosphate), while the oligonucleotide fragment is either in solution or immobilized on DEAE. These coupling strategies rely on an unprotected 5' amino linker on the oligonucleotide reacting with the peptide C-terminus. The peptide, selected from a combinatorial library for its gold-binding behavior, was 12 amino acids long with an N-terminus acetyl cap. Formation of the conjugates was confirmed by gel electrophoresis and mass spectrometry while molecular recognition functionality of the peptide portion was verified using atomic force microscopy. Solution-phase yields were superior to their solid-phase counterparts. EDC resulted in the highest yield for both solution-phase (95%) and solid-phase strategies (24%), while the DMF-based reagents, PyBOP and HBTU, resulted in low yields with reduced recovery. All recoverable conjugates demonstrated gold nanoparticle templating capability.
Building a Semantic Knowledge-base for Painting Conservators (2011)

The Twentieth Century Paint project is a collaboration between the Asia Pacific Twentieth Century Conservation Art Research Network (APTCCARN) and the eResearch Lab at the University of Queensland. It is a collaborative effort to explore the preservation of twentieth-century paintings in Asia and the Pacific. One of the key objectives is to establish an online knowledge-base that will provide conservators with access to integrated, structured information and a portfolio of experiments and case studies that document the different causes of paint degradation and the optimum conservation treatments. This paper describes the knowledge-base and the associated ontology and services developed by the eResearch Lab in collaboration with APTCCARN. This work provides a flexible but robust framework that will enable future expansion of the knowledge base through both harvesting of structured data and collaborative input by domain experts.
Inhibition of 5‐lipoxygenase by vitamin E (1985)

Purified 5-lipoxygenase from potato tubers was inhibited strongly by vitamin E and its analogs. The inhibition by d-alpha-tocopherol was found to be irreversible and non-competitive with respect to arachidonic acid. An IC50 of 5 microM was calculated for d-alpha-tocopherol. The inhibition appears to be unrelated to its antioxidant function. Binding studies with 14C-labelled d-alpha-tocopherol revealed that there is a strong interaction between vitamin E and 5-lipoxygenase. Tryptic digestion and peptide mapping of 5-lipoxygenase-vitamin E complex indicate that vitamin E binds strongly to a single peptide. These studies suggest that cellular vitamin E levels may have profound influence on the formation of leukotrienes.
[Alpha-galactosidases and alpha-N-acetylgalactosaminidase. Biochemical bases of Fabry's disease]. (1984)

The first part of this review deals with the new biochemical and genetical data concerning alpha-galactosidase and alpha-N-acetylgalactosaminidase. Molecular forms of these both enzymes can be classified into two groups following their physical, enzymatic and genetical properties: - the 3 forms of the alpha-galactosidase A group differ by the number of sialyl residues and their isoelectric point. All the forms of this group are heat-labile, hydrolyse only alpha-galactosides and proceed from the same alpha-GalA, X-linked gene. - alpha-galactosidase B is an alpha-N-acetylgalactosaminidase with broad substrate specificity, in vitro, is heat-stable and proceed from the alpha- GalB or alpha- NAGA gene of the chromosome 22. Structural and enzymatic data concerning these enzymes and their functions in the catabolism of glycosphingolipids and glycoproteins are reviewed. The second part deals with the pathophysiology of Fabry disease. The more prominent genetical and biochemical data and their diagnostic uses are reported: isozymic determination, cell cloning, quantitative determination of accumulated glycolipids. At last, were pointed the new developments of the research on Fabry disease: cultured cells as experimental model (fibroblasts, lymphoid cell lines) and therapeutic attempts.
Targeting dexamethasone to macrophages (1995)

Dexamethasone-21-phosphate (Dex-21-P) was encapsulated in human erythrocytes by a procedure of hypotonic hemolysis and isotonic resealing in a wide range of concentrations (0.2 to 8.5 mm). The erythrocyte membrane was then modified by the addition of Zn and bis(sulfosuccinimidyl)suberate inducing the formation of stable antigenic sites that are recognized by autologous immunoglobulins with subsequent complement deposition (C3b). Dexamethasone-21-phosphateloaded erythrocytes, modified as above, are readily recognized by macrophages through their Fe and C3b receptors with consequent phagocytosis and delivery of Dex-21-P from erythrocytes to the macrophages. In vitro targeting of Dex-21-P-loaded erythrocytes to human monocyte-derived macrophages was found to re-duce by more than 60% the phorbol 12-myristate 13-acetate-stimulated O2- release. Thus, the targeting of glucocorticoids to macrophages is feasible and results in the inhibition of respiratory burst.
Controlled Expression in <i>Klebsiella pneumoniae</i> and <i>Shigella flexneri</i> Using a Bacteriophage P1-Derived C1-Regulated Promoter System (2001)

The utility of promoters regulated by the bacteriophage P1 temperature-sensitive C1 repressor was examined in Shigella flexneri and Klebsiella pneumoniae. Promoters carrying C1 operator sites driving LacZ expression had induction/repression ratios of up to 240-fold in S. flexneri and up to 50-fold in K. pneumoniae. The promoters exhibited remarkably low basal expression, demonstrated modulation by temperature, and showed rapid induction. This system will provide a new opportunity for controlled gene expression in enteric gram-negative bacteria.
Learning Fine-Scaled Depth Maps from Single RGB Images. (2016)

Inferring the underlying depth map from a single image is an ill-posed and inherently ambiguous problem. State-of-the-art deep learning methods can now estimate accurate depth maps, but when projected into 3D, still lack local detail and are often highly distorted. We propose a multi-scale convolution neural network to learn from single RGB images fine-scaled depth maps that result in realistic 3D reconstructions. To encourage spatial coherency, we introduce spatial coordinate feature maps and a local relative depth constraint. In our network, the three scales are closely integrated with skip fusion layers, making it highly efficient to train with large-scale data. Experiments on the NYU Depth v2 dataset shows that our depth predictions are not only competitive with state-of-the-art but also leading to 3D reconstructions that are accurate and rich with detail.
Neural Network Compression Using Higher-Order Statistics and Auxiliary Reconstruction Losses (2020)

In this paper, the problem of pruning and compressing the weights of various layers of deep neural networks is investigated. The proposed method aims to remove redundant filters from the network to reduce computational complexity and storage requirements, while improving the performance of the original network. More specifically, a novel filter selection criterion is introduced based on the fact that filters whose weights follow a Gaussian distribution correspond to hidden units that do not capture important aspects of data. To this end, Higher Order Statistics (HOS) are used and filters with low cumulant values that do not deviate significantly from Gaussian distribution are identified and removed from the network. In addition, a novel pruning strategy is proposed aiming to decide on the pruning ratio of each layer using the Shapiro-Wilk normality test. The use of auxiliary MSE losses (intermediate and after the softmax layer) during the fine-tuning phase further improves the overall performance of the compressed network. Extensive experiments with different network architectures and comparison with state-of-the-art approaches on well-known public datasets, such as CIFAR-10, CIFAR-100 and ILSCVR-12, demonstrate the great potential of the proposed approach.
Toward a Fault-Tolerance Framework for COTS Many-Core Systems (2015)

Commercial-off-the-shelf (COTS) many-core processors offer the performance needed for computational-intensive safety-critical real-time applications such as autonomous driving. However, these consumer-grade many-core processors are increasingly susceptible to faults because of their highly integrated design.In this paper, we present a fault-tolerance framework that eases the usage of COTS many-core processors for safety-critical applications. Our framework employs an adaptable software-based fault-tolerance mechanism that combines N Modular Redundancy (NMR) with a repair process and a rejuvenating round robin voting scheme. A Stochastic Activity Network (SAN) model of the fault-tolerance mechanism allows the framework to adapt the parameters of the mechanism such that a specified target availability is achieved with minimum overhead. Experiments on a cycle-accurate simulator empirically prove the correctness of the SAN model and evaluate the overhead of the framework.
The effect of particle size on the osteointegration of injectable silicate‐substituted calcium phosphate bone substitute materials (2013)

Calcium phosphate (CaP) particles as a carrier in an injectable bone filler allows less invasive treatment of bony defects. The effect of changing granule size within a poloxamer filler on the osteointegration of silicate-substituted calcium phosphate (SiCaP) bone substitute materials was investigated in an ovine critical-sized femoral condyle defect model. Treatment group (TG) 1 consisted of SiCaP granules sized 1000-2000 μm in diameter (100 vol %). TG2 investigated a granule size of 250-500 μm (75 vol %), TG3 a granule size of 90-125 μm (75 vol %) and TG4 a granule size of 90-125 μm (50 vol %). Following a 4 and 8 week in vivo period, bone area, bone-implant contact, and remaining implant area were quantified within each defect. At 4 weeks, significantly increased bone formation was measured in TG2 (13.32% ± 1.38%) when compared with all other groups (p = 0.021 in all cases). Bone in contact with the bone substitute surface was also significantly higher in TG2. At 8 weeks most new bone was associated within defects containing the smallest granule size investigated (at the lower volume) (TG4) (42.78 ± 3.36%) however this group was also associated with higher amounts of fragmented SiCaP. These smaller particles were phagocytosed by macrophages and did not appear to have a negative influence on healing. In conclusion, SiCaP granules of 250-500 μm in size may be a more suitable scaffold when used as an injectable bone filler and may be a convenient method for treating bony defects.
In vivo priming of two distinct antitumor effector populations: the role of MHC class I expression. (1994)

Downregulation of major histocompatibility complex (MHC) class I expression is an important mechanism by which tumors evade classical T cell-dependent immune responses. Therefore, a system was designed to evaluate parameters for active immunization against MHC class I- tumors. Mice were capable of rejecting a MHC class I- tumor challenge after immunization with an irradiated granulocyte/macrophage colony-stimulating factor (GM-CSF) transduced MHC class I- tumor vaccine. This response was critically dependent on CD4+ T cells and natural killer (NK) cells, but minimally on CD8+ T cells. A strong protective response against MHC class I+ variants of the tumor could be elicited when mice were immunized with irradiated MHC class I+ GM-CSF-secreting tumor cells. This response required CD4+ and CD8+ T cells, and in addition, elimination of NK cells resulted in outgrowth of tumors that had lost expression of at least one MHC class I gene. Finally, class I MHC expression on the vaccinating cells inhibited the response generated against a MHC class I- tumor challenge. These results demonstrate that the host is capable of being immunized against a tumor that has lost MHC class I expression and reveal conditions under which distinct effector cells play a role in the systemic antitumor immune response.
A Membrane Topology Model for Human Interferon Inducible Transmembrane Protein 1 (2014)

InterFeron Inducible TransMembrane proteins 1-3 (IFITM1, IFITM2 and IFITM3) are a family of proteins capable of inhibiting the cellular entry of numerous human and animal viruses. IFITM1-3 are unique amongst the currently described viral restriction factors in their apparent ability to block viral entry. This restrictive property is dependant on the localisation of the proteins to plasma and endosomal membranes, which constitute the main portals of viral entry into cells. The topology of the IFITM proteins within cell membranes is an unresolved aspect of their biology. Here we present data from immunofluorescence microscopy, protease cleavage, biotin-labelling and immuno-electron microscopy assays, showing that human IFITM1 has a membrane topology in which the N-terminal domain resides in the cytoplasm, and the C-terminal domain is extracellular. Furthermore, we provide evidence that this topology is conserved for all of the human interferon-induced IFITM proteins. This model is consistent with that recently proposed for murine IFITM3, but differs from that proposed for murine IFITM1.
Self-consistent gain analysis of type-II ‘W’ InGaN–GaNAs quantum well lasers (2008)

Type-II InGaN–GaNAs quantum wells (QWs) with thin dilute-As (∼3%) GaNAs layer are analyzed self-consistently as improved III-nitride gain media for diode lasers. The band structure is calculated by using a six-band k⋅p formalism, taking into account valence band mixing, strain effect, spontaneous and piezoelectric polarizations, as well as the carrier screening effect. The type-II InGaN–GaNAs QW structure allows large electron-hole wave function overlap by confining the hole wave function in the GaNAs layer of the QW. The findings based on self-consistent analysis indicate that type-II InGaN-GaNAs QW active region results in superior performance for laser diodes, in comparison to that of conventional InGaN QW. Both the spontaneous emission radiative recombination rate and optical gain of type-II InGaN–GaNAs QW structure are significantly enhanced. Reduction in the threshold current density of InGaN–GaNAs QW lasers is also predicted.
Admission control mechanisms for continuous queries in the cloud (2010)

Amazon, Google, and IBM now sell cloud computing services.We consider the setting of a for-profit business selling data stream monitoring/management services and we investigate auction-based mechanisms for admission control of continuous queries. When submitting a query, each user also submits a bid of how much she is willing to pay for that query to run. The admission control auction mechanism then determines which queries to admit, and how much to charge each user in a way that maximizes system revenue while being strategyproof and sybil immune, incentivizing users to use the system honestly. Specifically, we require that each user maximizes her payoff by bidding her true value of having her query run. We design several payment mechanisms and experimentally evaluate them. We describe the provable game theoretic characteristics of each mechanism alongside its performance with respect to maximizing profit and total user payoff.
Monolithic GaAlAs/GaAs infrared-to-visible wavelength converter with optical power amplification (1981)

A monolithic wavelength converter has been constructed in the GaAlAs alloy system which comprises a wide gap emitter phototransistor and a double heterojunction (DH) light emitting diode (LED) in a bifacial configuration. The liquid phase epitaxy (LPE)-grown structure is capable of efficiently converting IR light with λ < 870 nm into the red spectral range in conjunction with optical power amplification.
Light‐Activated Transfer of Nitric Oxide from a Porous Material (2004)

A light-dark-light-dark sequence was used to demonstrate that only NO is released from a new mesoporous material that contains immobilized Ru(NO) sites. No release is observed during the dark phases (shown schematically). Since this release is regulated by light, the controlled transfer of NO to cobalt(II) tetraphenylphorphyrin as well as equine skeletal muscle myoglobin is possible.
TREATING AND DISPOSING OF RADIOACTIVE WASTES (1959)

S>The problem of handling and storage of radioactive waste is discussed. The treatment of wastes by evaporation, fixation in solids precipitation ion exchange, and calcination is described. Ultimate disposal methods such as salt cavities deep wells and ocean burial are described. (W.L.H.)
An Adaptive Load Balance and Handoff Management Strategy for Hierarchical Infrastructure Networks (2014)

Hierarchical cellular networks that employ microcells with overlaying macrocells have been proposed to increase the traffic-carrying capacity and circuit quality. Variations in the traffic loads among cells will lessen the traffic-carrying capacity. Moreover, the handoff procedure usually takes place when the call crosses the cell boundary. An ineffective management will increase the system overheads, such as channel switch, data switch, and even network switch. The invetigation proposes an effective load balance and handoff management strategy. This strategy are implemented to solve traffic-adaption problem that can enhance the traffic-carrying capacity for variations in traffic. For the management of handoff procedure, our strategy considers the mobility of mobile hosts and the bandwidth utilization in macrocells. It can descrease the number of handoffs and, accordingly, lessen the system overhead. Furthermore, the simulation results are presented to confirm the efficiency of the proposed strategy.
Proteomics‐based identification of autoantibodies in the sera of healthy Chinese individuals from Beijing (2006)

The identification of panels of tumor antigens that elicit an antibody response may have utility in cancer screening, diagnosis and in establishing prognosis. However, autoantibodies normally exist in sera of healthy individuals and are enormously diversified. To explore the reservoir of autoantibody in healthy population, we performed a proteomics investigation of autoantibody profiles in the sera of 36 healthy Chinese individuals from Beijing, which may provide valuable reference information to the identification of disease-specific autoantibodies. The results showed that autoantibody profiles varied individually, but some autoantibodies were identified at a high frequency in the healthy population. The autoantibodies against alpha-enolase and those against heterogeneous nuclear ribonucleoprotein L were positive in more than 50% of the sera samples. The autoantibodies identified in more than 20% of samples included those against annexin II, F-actin capping protein beta subunit and calreticulin. Some of these autoantibodies have been previously reported to be involved in autoimmune conditions and cancers. Autoantibodies in the healthy population are important as a foundation from which disease-specific autoantibodies can be defined. Thus our report on autoantibodies in healthy individuals may be useful as a reference for defining new autoantibody biomarkers.
How to Study on Automotive Torque Converter (1998)

The automotive torque converter is a complex turbomachine used to transfer power smoothly from an engine to a transmission. Its hydrodynamic design technology has been advanced very much during the past few years. A review of technologies for developing the torque converter was presented. In this paper, the technologies in the torque converter were divided into four parts: one-dimensional analysis, experimental study, numerical study, and new design method of the torque converter. In order to provide useful guidances to the torque converter designer, numerous papers published previously were incited and summarized briefly in this paper.
Les cultures protohistòriques de la comarca del Matarranya: un estat de la qüestió (1978)

Oxygen wastage in stunning is predominantly caused by a decreased myofibrillar efficiency and to a lesser extent by an increased oxygen cost of contractility. Considering that EMD 60263 reversed both causes of oxygen wastage, it is most likely that this drug increases myofibrillar Ca(2+)-sensitivity without increasing myofibrillar cross-bridge cycling.