gebhart/patrepeval huggingface dataset:
Phenylacetylglycine, a putative biomarker of phospholipidosis: Its origins and relevance to phospholipid accumulation using amiodarone treated rats as a model (2004)

Amiodarone was given to male Sprague-Dawley rats at a dose of 150 mg kg(-1) day(-1) for 7 consecutive days to induce phospholipidosis in the lungs of treated rats. Amiodarone was given alone or concurrently with phenobarbitone. Animals given amiodarone had raised total phospholipid in serum, lung and lymphocytes, and elevated lyso(bis)phosphatidic acid (LBPA) in all tissues. Urinary and plasma phenylacetylglycine (PAG) and hepatic portal:aortal phenylacetate (PA) ratio were increased, whereas hepatic phenylalanine hydroxylase (PAH) activity and plasma phenylalanine:tyrosine ratio were not affected. Phenobarbitone treatment increased hepatic total P450 content and induced 7-pentoxyresorufin O-dealkylatian (PROD) activity, as expected, but had no effect on any other biochemical parameter. Plasma amiodarone concentration was reduced in rats co-administered both drugs and phospholipid accumulation in target tissues was attenuated compared with rats treated with amiodarone alone. However, phenobarbitone co-administration failed to alter the magnitude of response with regards to urinary PAG excretion and plasma concentration of its precursors after amiodarone treatment. Increased intestinal absorption of PAG precursors probably resulted in the raised urinary PAG after amiodarone treatment. Urinary PAG correlated weakly with serum, lymphocyte and lung phospholipids. However, urinary PAG excretion was similar in rats dosed solely with amiodarone or in combination with phenobarbitone, despite the fact that the degree of phospholipid accumulation was far less in rats given the combined treatment. Nevertheless, urinary PAG was raised only in animals exhibiting abnormal phospholipid accumulation in target tissues and may thus be useful as a surrogate biomarker for phospholipidosis.
Hardware Subdivision and Tessellation of Catmull-Clark Surfaces (2010)

We present a table driven approach to performing Catmull-Clark subdivision in parallel utilizing one thread per output mesh vertex. We apply the procedure one or two times in order to isolate extraordinary vertices and simplify the input patch structures consumed by the hardware unit responsible for adaptive tessellation. From this simplified mesh, we evaluate the performance Stam’s direct evaluation procedure, a curvature continuous patching scheme, and a tangent plane continuous approximation suitable for displacement mapping. 1
Specific activation of the p53 pathway by low dose actinomycin D: A new route to p53 based cyclotherapy (2009)

The activation of p53 has been proposed as a novel anti-cancer treatment in two distinct contexts. In the first activation of p53 in tumor cells can promote apoptosis and senescence and enhance the anti-tumor activity of cytotoxic chemotherapeutic drugs. In the second application activation of p53 in normal tissues can cause a reversible cell cycle arrest that can be used to protect normal cells from the action of anti-mitotics. In this cyclotherapy role p53 mutant tumor cells are not arrested and remain sensitive to anti-mitotics. The advent of specific p53 activating molecules such as nutlin-3 has encouraged both approaches. We have sought for a clinically approved drug that can mimic nutlin-3. We show here that low doses of actinomycin D mimic nutlin-3 in the highly specific activation of p53 dependant transcription, in the induction of a reversible protective growth arrest in normal cells and in the enhancement of the activity of chemotherapeutic drug induced killing of p53 positive human tumor cells. While high doses of actinomycin D reveal its more non-specific activities, low doses of the drug will allow exploration of the value of p53 activation in preclinical and clinical models before nutlin-3 like drugs are approved.
Near Infrared Emission from Monomodal and Bimodal PbS Nanocrystal Superlattices (2012)

PbS colloidal nanocrystal (NC) assemblies with monomodal and bimodal size distribution have been fabricated by slow evaporation of solvent on silicon substrates. The interparticle distances of the assembled structures have been carefully defined, both in the plane and in the z direction, perpendicular to the substrate, thanks to the combination of small and wide-angle X-ray diffraction and TEM measurements. The spectroscopic characteristics of PbS NCs, both in solution and organized in a superlattice, have been investigated by steady-state and time-resolved photoluminescence measurements. The optical results reveal the occurrence of a Förster resonant energy transfer (FRET) mechanism between closed-packed neighboring PbS NCs. The occurrence of FRET is dependent on NC assembly geometry, and thus on their interparticle distance, suggesting that only when NCs are close enough, as in the close-packed arrangement of the monomodal assembly, the energy transfer can be promoted. In bimodal assemblies, the energy transfer between large and small NCs is negligible, due to the low spectral overlap between the emission and absorption bands of the different sized nanoparticles and to the large interparticle distance. Moreover, recombination lifetimes on the microsecond time scale have been observed and explained in terms of dielectric screening effect, in agreement with previous findings on lead chalcogenide NC optical properties.
Query by image and video content: the QBIC system (1995)

Research on ways to extend and improve query methods for image databases is widespread. We have developed the QBIC (Query by Image Content) system to explore content-based retrieval methods. QBIC allows queries on large image and video databases based on example images, user-constructed sketches and drawings, selected color and texture patterns, camera and object motion, and other graphical information. Two key properties of QBIC are (1) its use of image and video content-computable properties of color, texture, shape and motion of images, videos and their objects-in the queries, and (2) its graphical query language, in which queries are posed by drawing, selecting and other graphical means. This article describes the QBIC system and demonstrates its query capabilities. QBIC technology is part of several IBM products.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Frequent Carriage of Panton-Valentine Leucocidin Genes by Staphylococcus aureus Isolates from Surgically Drained Abscesses (2005)

ABSTRACT Between 1 February and 15 April 2002, 95 patients were admitted to Gaston Bourret Territorial Hospital (New Caledonia, France) for drainage of community-acquired soft tissue abscesses. Staphylococcus aureus was detected in 68 cases (72%). Two-thirds of the patients with S. aureus infection had furuncles, which were located on the limbs in 82% of cases. The median interval between symptom onset and hospital admission was 5.7 days. Three-quarters of the patients were Melanesians living in tribes. Fifty-four S. aureus isolates were screened for toxin genes. Panton-Valentine leucocidin (PVL) genes were detected in 48 isolates (89%), the exfoliative toxin A gene was detected in 1 isolate, and no toxin genes were detected in 4 isolates. S. aureus nasal carriage was detected in 39.7% of patients with S. aureus infections. Two infecting S. aureus strains and two nasal carriage strains were resistant to methicillin. Comparative pulsed-field gel electrophoresis, performed in 16 cases, showed that five of six patients with PVL-positive nasal carriage strains were infected by the same strains. In contrast, 8 of 10 patients with PVL-negative nasal carriage strains were infected by PVL-positive strains. PVL genes thus appear to be a major virulence factor in both primary and secondary S. aureus skin infections.
Proliferating dendritic cell progenitors in human blood. (1994)

CD34+ cells in human cord blood and marrow are known to give rise to dendritic cells (DC), as well as to other myeloid lineages. CD34+ cells are rare in adult blood, however, making it difficult to use CD34+ cells to ascertain if DC progenitors are present in the circulation and if blood can be a starting point to obtain large numbers of these immunostimulatory antigen-presenting cells for clinical studies. A systematic search for DC progenitors was therefore carried out in several contexts. In each case, we looked initially for the distinctive proliferating aggregates that were described previously in mice. In cord blood, it was only necessary to deplete erythroid progenitors, and add granulocyte/macrophage colony-stimulating factor (GM-CSF) together with tumor necrosis factor (TNF), to observe many aggregates and the production of typical DC progeny. In adult blood from patients receiving CSFs after chemotherapy for malignancy, GM-CSF and TNF likewise generated characteristic DCs from HLA-DR negative precursors. However, in adult blood from healthy donors, the above approaches only generated small DC aggregates which then seemed to become monocytes. When interleukin 4 was used to suppress monocyte development (Jansen, J. H., G.-J. H. M. Wientjens, W. E. Fibbe, R. Willemze, and H. C. Kluin-Nelemans. 1989. J. Exp. Med. 170:577.), the addition of GM-CSF led to the formation of large proliferating DC aggregates and within 5-7 d, many nonproliferating progeny, about 3-8 million cells per 40 ml of blood. The progeny had a characteristic morphology and surface composition (e.g., abundant HLA-DR and accessory molecules for cell-mediated immunity) and were potent stimulators of quiescent T cells. Therefore, large numbers of DCs can be mobilized by specific cytokines from progenitors in the blood stream. These relatively large numbers of DC progeny should facilitate future studies of their Fc epsilon RI and CD4 receptors, and their use in stimulating T cell-mediated resistance to viruses and tumors.
Reversible Inhibition of Mitochondrial Protein Synthesis during Linezolid-Related Hyperlactatemia (2006)

The objective of the present study was to determine the mitochondrial toxicity mechanisms of linezolid-related hyperlactatemia. Five patients on a long-term schedule of linezolid treatment were studied during the acute phase of hyperlactatemia and after clinical recovery and lactate normalization following linezolid withdrawal. Mitochondrial studies were performed with peripheral blood mononuclear cells and consisted of measurement of mitochondrial mass, mitochondrial protein synthesis homeostasis (cytochrome c oxidase [COX] activity, COX-II subunit expression, COX-II mRNA abundance, and mitochondrial DNA [mtDNA] content), and overall mitochondrial function (mitochondrial membrane potential and intact-cell oxidative capacity). During linezolid-induced hyperlactatemia, we found extremely reduced protein expression (16% of the remaining content compared to control values [100%], P < 0.001) for the mitochondrially coded, transcribed, and translated COX-II subunit. Accordingly, COX activity was also found to be decreased (51% of the remaining activity, P < 0.05). These reductions were observed despite the numbers of COX-II mitochondrial RNA transcripts being abnormally increased (297%, P = 0.10 [not significant]) and the mitochondrial DNA content remaining stable. These abnormalities persisted even after the correction for mitochondrial mass, which was mildly decreased during the hyperlactatemic phase. Most of the mitochondrial abnormalities returned to control ranges after linezolid withdrawal, lactate normalization, and clinical recovery. Linezolid inhibits mitochondrial protein synthesis, leading to decreased mitochondrial enzymatic activity, which causes linezolid-related hyperlactatemia, which resolves upon discontinuation of linezolid treatment.
Informed prefetching and caching (1995)

In this paper, we present aggressive, proactive mechanisms that tailor file system resource management to the needs of l/O-intensive applications. In particular, we show how to use applicationdisclosed access patterns (hints) to expose and exploit I/O parallelism, and to dynamically allocate file buffers among three competing demands: prefetching hinted blocks, caching hinted blocks for reuse, and caching recently used data for unhinted accesses. Our approach estimates the impact of alternative buffer allocations on application execution time and applies cost-benefit analysis to allocate buffers where they will have the greatest impact. We have implemented informed prefetching and caching in Digital's OSF/1 operating system and measured its performance on a 150 MHz Alpha equipped with 15 disks nmning a range of applications. Informed prefetching reduces the execution time of text sewch, scientific visualization, relational database queries, speech recognition, and object linking by 20-83%. Informed caching reduces the execution time of computational physics by up to 42% and contributes to the performance improvement of the object linker and the database. Moreover, applied to multiprogrammed, I/Ointensive workloads, informed prefetching and caching increase overall throughput.
Issues Surrounding MDI Formulation Development with Non-CFC Propellants (1991)

Reformulation of metered-dose inhalers (MDIs) without the use of chlorofluorocarbon (CFC) propellants presents numerous obstacles because there are no alternative propellants that can serve as immediate replacements for pharmaceutical use. Hydrofluorocarbons (HFCs), hydrochlorofluorocarbons (HCFCs) and hydrocarbons (HCs) are all under consideration as possible alternatives for CFC propellants. However, no single propellant or combination of propellants has been identified with all of the physical-chemical properties of CFCs. Based on their zero ozone depletion potentials, relatively low global warming potentials, non-flammabilities, densities, and vapor pressures, HFA-134a and HFA-227 are the most attractive replacement propellants identified to date. Yet, their use in MDIs will still require: (1) identification of a metering valve with propellant and formulation-compatible gaskets, (2) use of current suspending agents at levels much lower than in present MDIs or identification (and characterization) of new suspending agents, and (3) modification of existing manufacturing technologies. Demonstration of acceptable final product stability, safety and efficacy will be necessary prior to submission to worldwide registration authorities.
Characterization of angiotensin receptors mediating prostaglandin synthesis in C6 glioma cells (1991)

The heptapeptide angiotensin (ANG)-(1-7) mimics some but not all the central actions of ANG II, suggesting that receptor subtypes may exist. The effects of ANG-(1-7), ANG II, and ANG I on prostaglandin (PG) E2 and prostacyclin (PGI2) synthesis were investigated in neurally derived rat C6 glioma cells. All three ANG peptides stimulated PG release in a dose-dependent manner with the order of potency ANG-(1-7) greater than ANG I greater than ANG II. PGE2 release induced by ANG-(1-7) (10(-7) M) was partially blocked by [Sar1,Ile8]ANG II (10(-6) M), [Sar1,Thr8]ANG II (10(-6) M), or the subtype 1 selective antagonist Du Pont 753 (10(-5) M) but not by the subtype 2 selective antagonist CGP 42112A (10(-7)-10(-5) M). PGI2 release was inhibited only by [Sar1,Thr8]ANG II. ANG II-induced PGE2 release was blocked by [Sar1,Thr8]ANG II (10(-6) M), [Sar1,Ile8]ANG II (10(-6) M), or Du Pont 753 (10(-7) M) but not by CGP 42112A (10(-7)-10(-5) M). In contrast, ANG II-induced PGI2 release was blocked by Du Pont 753 (10(-7) M) as well as [Sar1,Ile8]ANG II (10(-6) M) but not by [Sar1,Thr8]ANG II or CGP 42112A. Thus ANG II-stimulated PGE2 and PGI2 syntheses in C6 glioma cells are mediated via receptor subtype 1. ANG-(1-7)-induced PGE2 synthesis is also mediated via subtype 1 receptors; however, PGI2 release was blocked by [Sar1,Thr8]ANG II only.(ABSTRACT TRUNCATED AT 250 WORDS)
Role for Cystic Fibrosis Transmembrane Conductance Regulator Protein in a Glutathione Response to Bronchopulmonary Pseudomonas Infection (2004)

The lung maintains an elevated level of glutathione (GSH) in epithelial lining fluid (ELF) compared to serum. The mechanism(s) by which the lung maintains high levels of ELF GSH and factors that modulate them are largely unexplored. We hypothesized that lung cystic fibrosis transmembrane conductance regulator protein (CFTR) modulates GSH efflux in response to extracellular stress, which occurs with lung infections. Mice were challenged intratracheally with Pseudomonas aeruginosa, and on the third day of infection bronchoalveolar lavage fluid was obtained and analyzed for cytokines and antioxidants. Lung tissue antioxidants and enzyme activities were also assessed. P. aeruginosa lung infection increased levels of inflammatory cytokines and neutrophils in the ELF. This corresponded with a marked threefold increase in GSH and a twofold increase in urate levels in the ELF of P. aeruginosa-infected wild-type mice. A twofold increase in urate levels was also observed among lung tissue antioxidants of P. aeruginosa-infected wild-type mice. There were no changes in markers of lung oxidative stress associated with the P. aeruginosa lung infection. In contrast with wild-type mice, the CFTR knockout mice lacked a significant increase in ELF GSH when challenged with P. aeruginosa, and this correlated with a decrease in the ratio of reduced to oxidized GSH in the ELF, a marker of oxidative stress. These data would suggest that the lung adapts to infectious agents with elevated ELF GSH and urate. Individuals with lung diseases associated with altered antioxidant transport, such as cystic fibrosis, might lack the ability to adapt to the infection and present with a more severe inflammatory response.
hsp70-protein complexes. Complex stability and conformation of bound substrate protein. (1994)

The presence of bound substrate protein increases the thermostability of hsp70 molecular chaperones (heat shock proteins of molecular mass 70 kDa). Complexes between hsp70 and unfolded substrate proteins were isolated by size-exclusion high performance liquid chromatography. The isolated complexes were observed to dissociate at a significant rate even in the absence of ATP. The presence of ADP caused a substantial increase in the stability of the complex. Both ADP and inorganic phosphate were found to inhibit the ATP-induced dissociation of complex. ADP was also observed to increase both the rate of complex formation and its stability as a function of temperature, suggesting an important regulatory role for nucleotides during heat shock. Circular dichroism and fluorescence studies of the complex between DnaK and a thermally unstable mutant of staphylococcal nuclease indicate that the bound substrate protein is significantly unfolded. A model for hsp70 cycle of complex formation and dissociation, which accounts for the regulatory role of nucleotides, is proposed.
Robust video fingerprints based on subspace embedding (2008)

We present a novel video fingerprinting method based on subspace embedding. The proposed method is particularly robust against frame-rate conversion attacks and geometric attacks among other attacks including compression and spatial scaling. Using a sliding window, we extract fingerprints from a group of subsequent video frames. For the generation of the fingerprints, we first calculate the basis vectors of a coarse representation of this group of frames using a singular value decomposition (SVD). Then, we project the coarse representation of the video frames onto a subset of the basis vectors. Thus, we obtain a subspace representation of the input video frames. Finally, we extract the fingerprint bits by projecting a temporal average of these representations onto pseudorandom basis vectors. Since the subspace is estimated from the input video data itself, any global attack on video such as rotation would result in a corresponding change in estimated basis vectors thereby preserving the subspace representation. We present experimental results on 250 hrs of video to show the robustness and sensitivity of the proposed signature extraction method.
Electrogelation for Protein Adhesives (2009)

Novel electrochemical behavior of silk protein to generate an adhesive electrogel is reported. The biomimetic system demonstrates reversible adhesive properties (see image) and functions on both hydrated and dry surfaces. Further, the system utilizes all-biocompatible components and functions in an all-aqueous process at ambient conditions. Potential applications in medical devices and in environmentally compatible material systems are described. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Establishment of a Human Monoclonal Antibody to Hanganutziu‐Deicher Antigen as a Tumor‐associated Carbohydrate Antigen (1988)

We have established a human-human hybridoma producing a monoclonal antibody against a tumor-associated carbohydrate-specific antigen, Hanganutziu-Deicher (HD) antigen. Human spleen lymphocytes from a patient with esophageal varices complicated with liver cirrhosis were cultured in serum-free medium and co-stimulated with both anti-human mu-chain antibodies and supernatants of concanavalin A-stimulated human spleen cell culture (ConA sup). The activated lymphocytes were subsequently primed in vitro with particulate HD3 antigen and fused with a parent hybrid myeloma cell line, KR-12. A hybridoma, 1F43E31G7 produced anti-HD human monoclonal antibody (IgM lambda). This monoclonal antibody reacted strongly with N-glycolylneuraminyl alpha 2-3 lactosylceramide (HD3) and slightly with N-glycolylneuraminyl alpha 2-3 lactoneotetraosylceramide (HD5), but did not react with N-glycolylneuraminyl alpha 2-3 lactoneohexaosylceramide (HD7), N-acetylneuraminyl alpha 2-3 lactosylceramide (GM3) and other derivatives of HD3 prepared by chemical modification of the sialic acid residue of HD3, which indicates that the monoclonal antibody is directed precisely toward the terminal sialic acid and whole structure of HD3.
In vitro and in vivo megakaryocyte differentiation of fresh and ex-vivo expanded cord blood cells: rapid and transient megakaryocyte reconstitution. (2003)

Fast Mk-engraftment can be obtained by in vitro selective lineage-commitment of baseline and ex vivo expanded CB cells.
Photofunctional Vesicles Containing Prussian Blue and Azobenzene (1999)

The intercalation of inorganic materials into organized organic assemblies presents many opportunities for the development of new functional materials with superior physicochemical properties. We have designed a composite material comprising Prussian blue intercalated into photoresponsive organic molecules (azobenzene-containing multibilayer vesicles). Photoisomerization in the solid system was achieved by diluting the azobenzene-containing bilayer membrane in a poly(vinyl alcohol) matrix. The photoisomerization of the film was accompanied by a geometrically confined structural change within the vesicles, as reflected by changes in the dipole moment and electrostatic field. As a result, we were able to control the magnetic properties of this material by photoillumination.