gebhart/patrepeval huggingface dataset:
Dealing with disaster (1996)

Today’s extensible operating systems allow applications to modify kernel behavior by providing mechanisms for application code to run in the kernel address space. The advantage of this approach is that it provides improved application flexibility and performance; the disadvantage is that buggy or malicious code can jeopardize the integrity of the kernel. It has been demonstrated that it is feasible to use safe languages, software fault isolation, or virtual memory protection to safeguard the main kernel. However, such protection mechanisms do not address the full range of problems, such as resource hoarding, that can arise when application code is introduced into the kernel. In this paper, we present an analysis of extension mechanisms in the VINO kernel. VINO uses software fault isolation as its safety mechanism and a lightweight transaction system to cope with resource-hoarding. We explain how these two mechanisms are sufficient to protect against a large class of errant or malicious extensions, and we quantify the overhead that this protection introduces. We find that while the overhead of these techniques is high relative to the cost of the extensions themselves, it is low relative to the benefits that extensibility brings.
Making nested rotations convenient for the user (1978)

Subimage motion in a three-dimensional computer graphic system is much easier for the user to control if the subimage moves the same direction as his hand while he manipulates the control device. The implementation of such coordinated motion of hand and subimage implies modification of the normal procedure for calculating transformations. The convenience of such manipulation also depends on appropriate selection or design of the input device. This paper reviews the relevant attributes of locator devices and presents an approach to selection. It presents the mathematics of transformation nesting and “compensation” to preserve motionsynchrony. Finally, it offers a case history of an interactive graphic system whose human factors were improved by these techniques.
Oligomerization of the HIV Type 2 Nef Protein: Mutational Analysis of the Heptad Leucine Repeat Motif and Cysteine Residues (1995)

The human immunodeficiency virus type 2 (HIV-2) Nef protein expressed in Escherichia coli forms highly stable homooligomeric complexes in vitro. Similarly, the native protein synthesized in the persistently infected H9 T cell line also forms stable homooligomers in vivo. To determine whether homooligomer formation is mediated by the leucine zipper-type sequence located in the middle region of the protein, site-directed mutagenesis was used to introduce double and triple point mutations at heptad leucine positions L1, L2, and L4 within the HIV-2NIHZ Nef protein sequence. Here, we show that substitution of a serine residue for the L1 (residue 108) and L2 (residue 115) heptad leucines, and a glutamine residue for the L4 (residue 129) heptad leucine, did not prevent Nef homooligomer formation in vitro. However, a more drastic substitution of alpha-helix-breaking proline residue for the L2 and L4 heptad leucines significantly abrogated ability of the protein to form stable homooligomers. In addition, because significantly higher levels of the Nef oligomers were consistently observed under the nonreducing SDS-PAGE condition, site-specific mutagenesis was also used to examine the role of cysteine residues in generating disulfide-linked Nef dimers in vitro. Here, we also show that single cysteine-to-glycine substitutions at positions 28, 32, or 55 drastically reduced covalent Nef dimer formation and thermal stability of the Nef protein in vitro. Therefore, these results demonstrate that the leucine zipper-type motif in the HIV-2 Nef protein mediates stable homooligomer formation in vitro, and also establish a role for covalent disulfide bonds in the formation of linked Nef dimers and thermal stability of the monomer Nef in vitro.
Low-delay rate control for real-time H.264/AVC video coding (2006)

This paper presents an efficient rate control scheme for the H.264/AVC video coding in low-delay environments. In our scheme, we propose an enhancement to the buffer-status based H.264/AVC bit allocation method. The enhancement is by using a PSNR-based frame complexity estimation to improve the existing mean absolute difference based (MAD-based) complexity measure. Bit allocation to each frame is not just computed by encoder buffer status but also adjusted by a combined frame complexity measure. To prevent the buffer from undesirable overflow or underflow under small buffer size constraint in low delay environment,the computed quantization parameter (QP) for the current MB is adjusted based on actual encoding results at that point. We also propose to compare the bits produced by each mode with the average target bits per MB to dynamically modify Lagrange multiplier (/spl lambda//sub MODE/) for mode decision. The objective of QP and /spl lambda//sub MODE/ adjustment is to produce bits as close to the frame target as possible, which is especially important for low delay applications. Simulation results show that the H.264 coder, using our proposed scheme, obtains significant improvement for the mismatch ratio of target bits and actual bits in all testing cases, achieves a visual quality improvement of about 0.6 dB on the average, performs better for buffer overflow and underflow,and achieves a similar or smaller PSNR deviation.
Assembling DNA through Affinity Binding to Achieve Ultrasensitive Protein Detection (2013)

Recent advances in DNA assembly and affinity binding have enabled exciting developments of nanosensors and ultrasensitive assays for specific proteins. These sensors and assays share three main attractive features: 1) the detection of proteins can be accomplished by the detection of amplifiable DNA, thereby dramatically enhancing the sensitivity; 2) assembly of DNA is triggered by affinity binding of two or more probes to a single target molecule, thereby resulting in increased specificity; and 3) the assay is conducted in solution with no need for separation, thus making the assay attractive for potential point-of-care applications. We illustrate here the principle of assembling DNA through affinity binding, and we highlight novel applications to the detection of proteins.
Clock Buffer Chip With Absolute Delay Regulation Over Process And Environmental Variations (1992)

A technique is described for accurate:ly regulating the propagation delay of clock buffer chips to an inte- gral number of clock periods, thus shairply reducing system clock skew due to variations in process, volt- age, temperature, and load capacitance (F'VTL).
‘Mild Uncoupling’ does not decrease mitochondrial superoxide levels in cultured cerebellar granule neurons but decreases spare respiratory capacity and increases toxicity to glutamate and oxidative stress (2007)

Cultured rat cerebellar granule neurons were incubated with low nanomolar concentrations of the protonophore carbonylcyanide-p-trifluoromethoxyphenyl hydrazone (FCCP) to test the hypothesis that 'mild uncoupling' could be neuroprotective by decreasing oxidative stress. To quantify the uncoupling, respiration and mitochondrial membrane potential (Deltapsi(m)) were determined in parallel as a function of FCCP concentration. Deltapsi(m) dropped by less than 10 mV before respiratory control was lost. Conditions for the valid estimation of matrix superoxide levels were determined from the rate of oxidation of the matrix-targeted fluorescent probe MitoSOX. No significant change in the level of matrix superoxide could be detected on addition of FCCP while respiratory control was retained, although cytoplasmic superoxide levels measured by dihydroethidium oxidation increased. 'Mild uncoupling' by 30 nmol/L FCCP did not alleviate neuronal dysregulation induced by glutathione depletion and significantly enhanced that due to menadione-induced oxidative stress. Low protonophore concentrations enhanced N-methyl-d-aspartate receptor-induced delayed calcium deregulation consistent with a decrease in the spare respiratory capacity available to match the bioenergetic demand of chronic receptor activation. It is concluded that the 'mild uncoupling' hypothesis is not supported by this model.
PILOT-SCALE BASE HYDROLYSIS PROCESSING OF HMX-BASED PLASTIC-BONDED EXPLOSIVES (1997)

Los Alamos National Laboratory has demonstrated that many energetic materials can be rendered non-energetic via reaction with sodium hydroxide or ammonia. This process is known as base hydrolysis. A pilot scale reactor has been developed to process up to 20 kg of plastic bonded explosive in a single batch operation. In this report, we discuss the design and operation of the pilot scale reactor for the processing of PBX 9404, a standard Department of Energy plastic bonded explosive containing HMX and nitrocellulose. Products from base hydrolysis, although non-energetic, still require additional processing before release to the environment. Decomposition products, destruction efficiencies, and rates of reaction for base hydrolysis will be presented. Hydrothermal processing, previously known as supercritical water oxidation, has been proposed for converting organic products from hydrolysis to carbon dioxide, nitrogen, and nitrous oxide. Base hydrolysis in combination with hydrothermal processing may yield a viable alternative to open burning/open detonation for destruction of many energetic materials.
Modes of binding and internalization of monoclonal antibodies to human melanoma cell lines. (1986)

The process of monoclonal antibody (MAb) binding to tumor cells is greatly influenced by the biology of the respective antigen. This was concluded from an analysis of binding and release of MAbs and MAb fragments to melanoma cells at different concentration levels and different temperatures. With an antigen known to be stably expressed at the cell surface (i.e., Mr 97,000 protein) rapid binding of MAbs was observed at both 0 degrees C and 37 degrees C, and this was reversed by treatment with isoosmolar acid buffer. With another group of antigens, MAb binding increased continuously up to considerable levels at 37 degrees C, but not at 0 degrees C. Concomitantly, the portion of radioactive MAb not desorbable by acid buffer treatment increased, pointing to temperature-dependent internalization. With still another group of (glycolipid) antigens, the highest MAb binding was obtained with fixed cells at 0 degrees C. In this situation MAb release was particularly rapid, thus pointing to a shedding process.
Application of the Ritter Reaction to Mesityl Oxide and Chalcone (1957)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTApplication of the Ritter Reaction to Mesityl Oxide and ChalconePAUL J. SCHEUER, HENYLSON C. BOTELHO, and CRELLIN PAULINGCite this: J. Org. Chem. 1957, 22, 6, 674–676Publication Date (Print):June 1, 1957Publication History Published online1 May 2002Published inissue 1 June 1957https://pubs.acs.org/doi/10.1021/jo01357a024https://doi.org/10.1021/jo01357a024research-articleACS PublicationsRequest reuse permissionsArticle Views367Altmetric-Citations14LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Synergy Tests by E Test and Checkerboard Methods of Antimicrobial Combinations against Brucella melitensis (2005)

Two different synergy testing methods, the checkerboard and the E test methods, were used to compare the in vitro efficacies of various antimicrobial combinations against 16 Brucella melitensis strains isolated from blood cultures. The rate of agreement of the E test and checkerboard methods was found to be 55%. The most concordant results were found for the streptomycin-doxycycline combination in 12 (75%) tests, in which four strains showed synergistic activity by E test and antagonistic activity by the checkerboard method and in which one strain showed antagonistic activity by both methods. Even though each of these methods uses different conditions and endpoints, the results of both methods frequently agreed.
Current methods for the synthesis of homogeneous antibody–drug conjugates (2015)

Development of efficient and safe cancer therapy is one of the major challenges of the modern medicine. Over the last few years antibody-drug conjugates (ADCs) have become a powerful tool in cancer treatment with two of them, Adcetris® (brentuximab vedotin) and Kadcyla® (ado-trastuzumab emtansine), having recently been approved by the Food and Drug Administration (FDA). Essentially, an ADC is a bioconjugate that comprises a monoclonal antibody that specifically binds tumor surface antigen and a highly potent drug, which is attached to the antibody via either cleavable or stable linker. This approach ensures specificity and efficacy in fighting cancer cells, while healthy tissues remain largely unaffected. Conventional ADCs, that employ cysteine or lysine residues as conjugation sites, are highly heterogeneous. This means that the species contain various populations of the ADCs with different drug-to-antibody ratios (DARs) and different drug load distributions. DAR and drug-load distribution are essential parameters of ADCs as they determine their stability and efficacy. Therefore, various drug-loaded forms of ADCs (usually from zero to eight conjugated molecules per antibody) may have distinct pharmacokinetics (PK) in vivo and may differ in clinical performance. Recently, a significant progress has been made in the field of site-specific conjugation which resulted in a number of strategies for synthesis of the homogeneous ADCs. This review describes newly-developed methods that ensure homogeneity of the ADCs including use of engineered reactive cysteine residues (THIOMAB), unnatural amino acids, aldehyde tags, enzymatic transglutaminase- and glycotransferase-based approaches and novel chemical methods. Furthermore, we briefly discuss the limitation of these methods emphasizing the need for further improvement in the ADC design and development.
Treatment of Pancreatic Cancer Cells with Dicumarol Induces Cytotoxicity and Oxidative Stress (2004)

Inhibition of NQO(1) with dicumarol induces cell killing and oxidative stress in pancreatic cancer cells and speculate that dicumarol may prove to be useful in pancreatic cancer therapeutics.
Selective medium for Pseudomonas cepacia containing 9-chloro-9-(4-diethylaminophenyl)-10-phenylacridan and polymyxin B sulfate (1984)

Contamination of solutions and lotions with Pseudomonas cepacia is a growing concern among health professionals. The identification of P. cepacia usually requires a long series of biochemical tests. In an effort to develop a more direct method, we evaluated plate count agar containing 9-chloro-9-(4-diethylaminophenyl)-10-phenylacridan and polymyxin B sulfate at respective concentrations of 1 and 75 micrograms/ml as a medium for selectively isolating P. cepacia. The medium inhibited the growth of all gram-negative bacilli and gram-positive cocci tested except P. cepacia and Serratia marcescens. These two microorganisms could easily be differentiated by their colony morphology and their reactions in the oxidase test. When nonsterilized water samples were inoculated with P. cepacia and spread or streaked on the selective medium, all P. cepacia organisms were recovered. These results demonstrate the usefulness of 9-chloro-9-(4-diethylaminophenyl)-10-phenylacridan and polymyxin B sulfate in the detection of P. cepacia. We believe that this selective medium could be useful in isolating P. cepacia from mixed bacterial flora that might be present in environmental water and water-related samples, such as solutions and lotions.
Angle gathers from reverse time migration using analytic wavefield propagation and decomposition in the time domain (2015)

ABSTRACT Angle-domain common imaging gathers (ADCIGs) are important input data for migration velocity analysis and amplitude variation with angle analysis. Compared with Kirchhoff migration and one-way wave equation migration, reverse time migration (RTM) is the most accurate imaging method in complex areas, such as the subsalt area. We have developed a method to generate ADCIGs from RTM using analytic wavefield propagation and decomposition. To estimate the wave-propagation direction and angle by spatial Fourier transform during the time domain wave extrapolation, we have developed an analytic wavefield extrapolation method. Then, we decomposed the extrapolated source and receiver wavefields into their local angle components (i.e., local plane-wave components) and applied the angle-domain imaging condition to form ADCIGs. Because the angle-domain imaging condition is a convolution imaging condition about the source and receiver propagation angles, it is costly. To increase the efficiency of the angle-domain imaging condition, we have developed a local plane-wave decomposition method using matching pursuit. Numerical examples of synthetic and real data found that this method could generate high-quality ADCIGs. And these examples also found that the computational cost of this approach was related to the complexity of the source and receiver wavefields.
Glutathione Transferases and Cancer (1992)

The glutathione transferases, a family of multifunctional proteins, catalyze the glutathione conjugation reaction with electrophilic compounds biotransformed from xenobiotics, including carcinogens. In preneoplastic cells as well as neoplastic cells, specific molecular forms of glutathione transferase are known to be expressed and have been known to participate in the mechanisms of their resistance to drugs. In this article, following a brief description of recently identified molecular forms, we review new findings regarding the respective molecular forms involved in carcinogenesis and anticancer drug resistance, with particular emphasis on Pi class forms in preneoplastic tissues. The rat Pi class form, GST-P (GST 7-7), is strongly expressed not only in hepatic foci and hepatomas, but also in initiated cells that occur at the very early stages of chemical hepatocarcinogenesis, and is regarded as one of the most reliable markers for preneoplastic lesions in the rat liver. 12-O-Tetradecanoylphorbol-13-acetate (TPA)-responsive element-like sequences have been identified in upstream regions of the GST-P gene, and oncogene products c-jun and c-fos are suggested to activate the gene. The Pi-class forms possess unique enzymatic properties, including broad substrate specificity, glutathione peroxidase activity toward lipid hydroperoxides, low sensitivity to organic anion inhibitors, and high sensitivity to active oxygen species. The possible functions of Pi class glutathione transferases in neoplastic tissues and drug-resistant cells are discussed.
Multifunctional Shape‐Memory Polymers (2010)

The thermally-induced shape-memory effect (SME) is the capability of a material to change its shape in a predefined way in response to heat. In shape-memory polymers (SMP) this shape change is the entropy-driven recovery of a mechanical deformation, which was obtained before by application of external stress and was temporarily fixed by formation of physical crosslinks. The high technological significance of SMP becomes apparent in many established products (e.g., packaging materials, assembling devices, textiles, and membranes) and the broad SMP development activities in the field of biomedical as well as aerospace applications (e.g., medical devices or morphing structures for aerospace vehicles). Inspired by the complex and diverse requirements of these applications fundamental research is aiming at multifunctional SMP, in which SME is combined with additional functions and is proceeding rapidly. In this review different concepts for the creation of multifunctionality are derived from the various polymer network architectures of thermally-induced SMP. Multimaterial systems, such as nanocomposites, are described as well as one-component polymer systems, in which independent functions are integrated. Future challenges will be to transfer the concept of multifunctionality to other emerging shape-memory technologies like light-sensitive SMP, reversible shape changing effects or triple-shape polymers.
Effect of Pulse Shape on the Efficiency of Multiphoton Processes: Implications for Biological Microscopy (1999)

The effects of spectral shape on two photon fluorescence excitation are investigated experimentally using an acousto-optic pulse shaper to modify femtosecond pulses from a Ti:sapphire laser. By using different spectral window shapes, we find that the measured two photon efficiency can vary by a factor of 2 for differently shaped spectra with the same full width at half maximum. We find that these effects are described well by a simple model assuming transform-limited pulses. The fact that even small changes in the spectral wings can significantly affect the efficiency of nonlinear processes has implications for biological multiphoton imaging, where it may be desirable to minimize sample exposure to radiation and maximize fluorescence or harmonic efficiency. © 1999 Society of Photo-Optical Instrumentation Engineers.
A pyrrhic victory over the RCT? (1991)

Where does the moral authority reside to determine what shall be the norms of conduct within a profession? Key documents in nursing, especially "A Social Policy Statement," are analyzed. From this literature it is apparent that nursing is committed to the philosophy that society "owns" the profession. Consequently, moral authority is rooted in the general public. Examining nursing reactions to the registered care technician (RCT) with this philosophy for consistency, we conclude that in this case nursing did not clearly acknowledge the moral authority of society. The public record of the debate suggests that nursing, like medicine, is guilty of a form of paternalism (i.e., nursing is in the best position to decide what is best for society). Nursing needs to evaluate its level of awareness with regard to stated social policy philosophy and the extent to which this philosophy is consciously used to focus discussion about such issues as are raised by the RCT. Most important, if nursing sincerely believes in the moral authority of society, the profession has an obligation to devise creative means of involving society in more direct ways in decision making about health care priorities.
Reactogenicity of yellow fever vaccines in a randomized, placebo-controlled trial (2005)

The frequency of adverse events post-immunization against YF, accounting for the background occurrence of nonspecific signs and symptoms, was shown for the first time to be similar for vaccines from 17D and 17DD substrains. The data also provided evidence against viscerotropism of vaccine virus.