gebhart/patrepeval huggingface dataset:
Union of MDCT Bases for Audio Coding (2008)

This paper investigates the use of sparse overcomplete decompositions for audio coding. Audio signals are decomposed over a redundant union of modified discrete cosine transform (MDCT) bases having eight different scales. This approach produces a sparser decomposition than the traditional MDCT-based orthogonal transform and allows better coding efficiency at low bitrates. Contrary to state-of-the-art low bitrate coders, which are based on pure parametric or hybrid representations, our approach is able to provide transparency. Moreover, we use a bitplane encoding approach, which provides a fine-grain scalable coder that can seamlessly operate from very low bitrates up to transparency. Objective evaluation, as well as listening tests, show that the performance of our coder is significantly better than a state-of-the-art transform coder at very low bitrates and has similar performance at high bitrates. We provide a link to test soundfiles and source code to allow better evaluation and reproducibility of the results.
Magic bullets for the 21st century: the reemergence of immunotherapy for multi- and pan-resistant microbes (2012)

In our current world, antibiotic resistance among pathogenic microbes keeps getting worse with few new antibiotics being pursued by pharmaceutical companies. Modern-day immunotherapies, reminiscent of the serotherapy approaches used in the early days of antimicrobial treatments, are a potential counter-measure, but are usually limited by the narrow spectrum against target antigens. Surprisingly, many multidrug-resistant (MDR) bacteria share a common surface polysaccharide, poly-β-1,6-N-acetylglucosamine (PNAG). Natural antibodies to PNAG are present in normal human sera, but are not protective. However, human monoclonal antibodies (MAbs) or polyclonal antisera raised to a deacetylated glycoform of PNAG mediate opsonic killing and protect mice against infections due to all PNAG-positive MDR pathogens tested. An MAb is currently in Phase II clinical trials. These discoveries could lead to utilization of antibodies to PNAG for either therapeutic use in patients infected by PNAG-producing MDR bacteria or prophylactic use in patients at risk of developing MDR infections.
Extracorporeal Circulation Causes Release of Neutrophil Gelatinase‐Associated Lipocalin (NGAL) (1999)

Extracorporeal circulation (ECC) used during cardiac surgery causes activation of several inflammatory systems. These events are not fully understood but are responsible for complications during the immediate postoperative period. Neutrophil gelatinase-associated lipocalin (NGAL), a member of the expanding lipocalin family, has recently been described as an inflammatory protein. In this study, the release of NGAL into the circulation in 41 patients undergoing heart surgery with ECC was evaluated. A 4- to 5-fold elevation of the concentration of NGAL in plasma was observed during the immediate postoperative course with a rapid elimination during the first postoperative day. Four patients undergoing lung surgery (without ECC) were also studied. The plasma concentration of NGAL only increased with a factor of 1.1-2.2 over the operation. We conclude that NGAL is released into the circulation during heart surgery, probably as a result of the inflammatory activation of leukocytes initiated by the extracorporeal circulation.
Chromium-Catalyzed Radical Cyclization of Bromo and Chloro Acetals (2010)

Cyclopentadienyl chromium β-diketiminate catalysts are used for the radical cyclization of bromo and chloro acetals. Mn powder activated with PbBr2 or PbCl2 is the stoichiometric reductant, and γ-terpinene is the hydrogen atom donor. Although the primary cyclized product can be isolated and structurally characterized as the Cr(III) complex, this substrate can also be reduced catalytically under mild photolysis conditions.
A swatch in the fabric of time: internet time and the spatio-temporal organisation of everyday computer use (2000)

Abstract not available.
Simultaneous expression of the S and L surface antigens of hepatitis B, and formation of mixed particles in the methylotrophic yeast, Hansenula polymorpha (1991)

An expression system has been developed for the methylotrophic yeast Hansenula polymorpha and used to co-express both the L (preS1-S2-S) and S hepatitis B surface antigens (HBsAg) under the control of strong methanol-inducible promoters derived from the methanol oxidase and from the formate dehydrogenase genes. A unique feature of this H. polymorpha expression system is the possibility of integrating up to 100 copies of an expression cassette via a multimeric integration mechanism. Several multimeric integrants containing various numbers of L and S expression cassettes were constructed to give a spectrum of strains characterized by different L to S ratios. The expression level of S antigen was 5-8% of the total soluble cell protein. Analysis by sucrose and CsCl density gradient centrifugation and by particle-specific immunoassays demonstrated that the synthesized HBsAg spontaneously assembled into composite subviral particles containing both S and L proteins. Only a minor portion of the L protein was found to be glycosylated. These H polymorpha-derived composite particles can be used for the production of a hepatitis B virus vaccine with the potential for improved immunogenicity due to the presence of a wider spectrum of epitopes and negligible glycosylation.
Application of reference gene for real-time RT-PCR (2011)

Objective To establish a Taqman real-time RT-PCR 2-step assay for quantitative detection of the expression of human βactin.Methods Specific primers and probes were designed for real-time RT-PCR according to β-actin cDNA sequence.Plasmid standard preparations were constructed by T-A clone,extracted and prepared for establishing standard curve used for relative quantification real-time RT-PCR.The expression levels of β-actin were measured by real-time RT-PCR in HepG2 cells to detect the specificity and reproducibility of real-time RT-PCR assay.Results An effective real-time RT-PCR assay was established for detecting β-actin mRNA expression levels.Conclusions The real-time PCR assay for the expression of β-actin is a sensitive,specific tool for quantitative assay of mRNA expression levels of other gene when using β-actin as reference genes.
MPEG Spatial Audio Coding / MPEG Surround: Overview and Current Status (2005)

Recently, the MPEG Audio standardization group started a new work item on Spatial Audio Coding. This new approach allows for a fully backward compatible representation of multi-channel audio at bit rates that are only slightly higher than common rates currently used for coding of mono / stereo sound. This paper briefly describes the underlying idea and reports on the current status of the MPEG standardization activities. It provides an overview of the resulting "MPEG Surround" technology, and discusses its capabilities. The current level of performance will be illustrated by listening test results.
Reconstruction of genomic rearrangements in great apes and gibbons by chromosome painting. (1992)

The homology between hylobatid chromosomes and other primates has long remained elusive. We used chromosomal in situ suppression hybridization of all human chromosome-specific DNA libraries to "paint" the chromosomes of primates and establish homologies between the human, great ape (chimpanzee, gorilla, and orangutan), and gibbon karyotypes (Hylobates lar species group, 2n = 44). The hybridization patterns unequivocally demonstrate the high degree of chromosomal homology and synteny of great ape and human chromosomes. Relative to human, no translocations were detected in great apes, except for the well-known fusion-origin of human chromosome 2 and a 5;17 translocation in the gorilla. In contrast, numerous translocations were detected that have led to the massive reorganization of the gibbon karyotype: the 22 autosomal human chromosomes have been divided into 51 elements to compose the 21 gibbon autosomes. Molecular cytogenetics promises to finally allow hylobatids to be integrated into the overall picture of chromosomal evolution in the primates.
Binding of vascular anticoagulant alpha (annexin V) to the aortic intima of the hypercholesterolemic rabbit. An autoradiographic study (1994)

Qualitative ultrastructural autoradiography was used to study the binding of the vascular anticoagulant alpha (annexin V) to normal and atherosclerotic (AS) rabbit aortic intima. Recombinant annexin V was labelled with 125I by the Iodogen method. Rabbits were fed a hypercholesterolemic (HC) diet up to 10 months. After laparotomy and exsanguination, the aortae were perfused with dilutions of 125I-annexin V (I-AV) for 10-15 min, either on ice or at 22 degrees C and then perfusion-fixed with aldehydes. Fragments of the labelled aortae were used for en face contact autoradiography, followed by Sudan Black staining of intimal lipid. Specimens were also included in Epon and sectioned for light- and electron-microscopic autoradiography. The binding of I-AV was increased on the AS aortae as compared with the normal ones, with an apparent preference for the lesioned areas. Microscopically, I-AV was found at the luminal front of aortic intima, on endothelial cells (EC), on macrophage foam cells, and on their disrupted remnants. The presence of the AV binding sites (reportedly known to interact with high affinity with phosphatidylserine) in the rabbit AS aortic intima, together with other known procoagulant conditions, may contribute to the initiation of coagulation events into the lesioned vascular wall, and may offer a rationale for the use of annexin V as an anticoagulant drug.
Synthesis of R- and S- Fluoxetine, Norfluoxetine and Related Compounds from Styrene Oxide (1995)

Abstract A facile, high yield synthesis of R—or S—fluoxetine and norfluoxetine is described. This synthetic route utilizes readily available starting materials.
Characterizing digital image acquisition devices (1991)

Despite the popularity of digital imaging devices (e.g., CCD array cameras) the problem of accurately characterizing the spatial frequency response of such systems has been largely neglected in the literature. This paper describes a simple method for accurately estimating the optical transfer function of digital image acquisition devices. The method is based on the traditional knife-edge technique but explicitly deals with fundamental sampled system considerations: insufficient and anisotropic sampling. Results for both simulated and real imaging systems demonstrate the accuracy of the method.
Amyloid ion channels: A common structural link for protein-misfolding disease (2005)

Protein conformational diseases, including Alzheimer's, Huntington's, and Parkinson's diseases, result from protein misfolding, giving a distinct fibrillar feature termed amyloid. Recent studies show that only the globular (not fibrillar) conformation of amyloid proteins is sufficient to induce cellular pathophysiology. However, the 3D structural conformations of these globular structures, a key missing link in designing effective prevention and treatment, remain undefined as of yet. By using atomic force microscopy, circular dichroism, gel electrophoresis, and electrophysiological recordings, we show here that an array of amyloid molecules, including amyloid-beta(1-40), alpha-synuclein, ABri, ADan, serum amyloid A, and amylin undergo supramolecular conformational change. In reconstituted membranes, they form morphologically compatible ion-channel-like structures and elicit single ion-channel currents. These ion channels would destabilize cellular ionic homeostasis and hence induce cell pathophysiology and degeneration in amyloid diseases.
Structure-function studies of the human immunodeficiency virus type 1 matrix protein, p17 (1997)

The human immunodeficiency virus type 1 (HIV-1) matrix protein, p17, plays important roles in both the early and late stages of the viral life cycle. Using our previously determined solution structure of p17, we have undertaken a rational mutagenesis program aimed at mapping structure-function relationships within the molecule. Amino acids hypothesized to be important for p17 function were mutated and examined for effect in an infectious proviral clone of HIV-1. In parallel, we analyzed by nuclear magnetic resonance spectroscopy the structure of recombinant p17 protein containing such substitutions. These analyses identified three classes of mutants that were defective in viral replication: (i) proteins containing substitutions at internal residues that grossly distorted the structure of recombinant p17 and prevented viral particle formation, (ii) mutations at putative p17 trimer interfaces that allowed correct folding of recombinant protein but produced virus that was defective in particle assembly, and (iii) substitution of basic residues in helix A that caused some relocation of virus assembly to intracellular locations and produced normally budded virions that were completely noninfectious.
Rev-Independent Expression of Synthetic gag-pol Genes of Human Immunodeficiency Virus Type 1 and Simian Immunodeficiency Virus: Implications for the Safety of Lentiviral Vectors (2000)

The safety of lentiviral vectors for clinical applications is still a major concern. The gag-pol expression plasmids and the lentiviral vectors used in previous studies contain homologous regions, which constitute a risk for recombination events. Synthetic gag-pol genes of human immunodeficiency virus type 1 (HIV-1) and simian immunodeficiency virus (SIV) were therefore constructed, in which the codon usage was optimized for expression in human cells without altering the amino acid sequences. The synthetic gag-pol genes allowed efficient expression of these genes in the absence of Rev and the 5' untranslated leader region. Both the HIV-1 and the SIV synthetic gag-pol expression plasmids could mediate transduction of an SIV vector into nondividing human cells with titers of about 10(6) transducing units/ml. Similar titers were obtained with a four-plasmid vector-packaging system based on HIV-1. Using a biological assay, homologous recombination events between the synthetic gag-pol expression plasmids and an SIV vector were undetectable and in comparison with a previously used gag-pol expression plasmid at least approximately 100-fold less frequent. By eliminating regions of homology and sequences involved in packaging, synthetic gag-pol genes should improve the safety profile of lentiviral vectors.
Free Space Computation Using Stochastic Occupancy Grids and Dynamic Programming (2008)

Abstract. The computation of free space available in an environment is an essential task for many intelligent automotive and robotic applications. This paper proposes a new approach, which builds a stochastic occupancy grid to address the free space problem as a dynamic programming task. Stereo measurements are integrated over time reducing disparity uncertainty. These integrated measurements are entered into an occupancy grid, taking into account the noise properties of the measurements. In order to cope with real-time requirements of the application, three occupancy grid types are proposed. Their applicabilities and implementations are also discussed. Experimental results with real stereo sequences show the robustness and accuracy of the method. The current implementation of the method runs on off-the-shelf hardware at 20 Hz. 1
The complete genome sequence of the murine respiratory pathogen Mycoplasma pulmonis (2001)

Mycoplasma pulmonis is a wall-less eubacterium belonging to the Mollicutes (trivial name, mycoplasmas) and responsible for murine respiratory diseases. The genome of strain UAB CTIP is composed of a single circular 963 879 bp chromosome with a G + C content of 26.6 mol%, i.e. the lowest reported among bacteria, Ureaplasma urealyticum apart. This genome contains 782 putative coding sequences (CDSs) covering 91.4% of its length and a function could be assigned to 486 CDSs whilst 92 matched the gene sequences of hypothetical proteins, leaving 204 CDSs without significant database match. The genome contains a single set of rRNA genes and only 29 tRNAs genes. The replication origin oriC was localized by sequence analysis and by using the G + C skew method. Sequence polymorphisms within stretches of repeated nucleotides generate phase-variable protein antigens whilst a recombinase gene is likely to catalyse the site-specific DNA inversions in major M.pulmonis surface antigens. Furthermore, a hemolysin, secreted nucleases and a glyco-protease are predicted virulence factors. Surprisingly, several of the genes previously reported to be essential for a self-replicating minimal cell are missing in the M.pulmonis genome although this one is larger than the other mycoplasma genomes fully sequenced until now.
Coupling of the RAS-MAPK Pathway to Gene Activation by RSK2, a Growth Factor-Regulated CREB Kinase (1996)

A signaling pathway has been elucidated whereby growth factors activate the transcription factor cyclic adenosine monophosphate response element-binding protein (CREB), a critical regulator of immediate early gene transcription. Growth factor-stimulated CREB phosphorylation at serine-133 is mediated by the RAS-mitogen-activated protein kinase (MAPK) pathway. MAPK activates CREB kinase, which in turn phosphorylates and activates CREB. Purification, sequencing, and biochemical characterization of CREB kinase revealed that it is identical to a member of the pp90(RSK) family, RSK2. RSK2 was shown to mediate growth factor induction of CREB serine-133 phosphorylation both in vitro and in vivo. These findings identify a cellular function for RSK2 and define a mechanism whereby growth factor signals mediated by RAS and MAPK are transmitted to the nucleus to activate gene expression.
Regulation of apoptosis by the papillomavirus E6 oncogene (2005)

Infection with human papillomaviruses is strongly associated with the development of multiple cancers including esophageal squamous cell carcinoma. The HPV E6 gene is essential for the oncogenic potential of HPV. The regulation of apoptosis by oncogene has been related to carcinogenesis closely; therefore, the modulation of E6 on cellular apoptosis has become a hot research topic recently. Inactivation of the pro-apoptotic tumor suppressor p53 by E6 is an important mechanism by which E6 promotes cell growth; it is expected that inactivation of p53 by E6 should lead to a reduction in cellular apoptosis, numerous studies showed that E6 could in fact sensitize cells to apoptosis. The molecular basis for apoptosis modulation by E6 is poorly understood. In this article, we will present an overview of observations and current understanding of molecular basis for E6-induced apoptosis.
Rapid plate agglutination procedure for serotyping Pasteurella haemolytica (1978)

A specific, rapid plate agglutination procedure for serotyping Pasteurella haemolytica was performed. The procedure did not require special antigen preparation and yielded essentially the same results as the indirect hemagglutination procedure.
ENERGY TRANSFER VIA PROTEIN‐PROTEIN INTERACTION IN RENILLA BIOLUMINESCENCE (1978)

Abstract—Radiationless energy transfer is known to play biologically important roles in both photosynthesis and bioluminescence. In photosynthesis, accessory pigments serve as “antennae”, transferring excitation energy into the “reaction centers”. In the bioluminescent coelenterates, energy is transferred from the site of reaction via an accessory protein known as the green‐fluorescent protein (GFP). Coelenterate bioluminescence systems such as that of the sea pansy, Renilla , are well characterized biochemically, and their energy transfer process can be duplicated in vitro using isolated and purified components. We have measured efficient in vitro energy transfer from the electronic excited state of the enzyme‐bound oxyluciferin to the green‐fluorescent protein at protein concentrations of 0.1 μ M . We have also demonstrated a 1:l complex between these proteins, under conditions of energy transfer, by the chromato‐graphic technique of Hummel and Dreyer. These observations indicate that bioluminescent energy transfer is mediated via protein‐protein interaction. Furthermore, with inter‐species cross‐reaction studies and protein modification techniques we have shown that the interaction between luciferase and GFP is highly specific. These features make the Renilla system an attractive alternative to the photosynthetic systems as a tool for studying radiationless energy transfer.
Serologic Response and Antibody‐Titer Decay in Adults with Pertussis (2004)

Pertussis is a frequent and significant illness in adults. Because acellular pertussis vaccines for use in adolescents and adults have now been developed, it is important to compare serologic responses in adults after infection with serologic responses in adults after vaccination. We measured IgG and IgA antibodies to 4 Bordetella pertussis antigens at approximately 6-month intervals for 28 months in 11 adults with pertussis. After reaching peak levels, titers of antibody to pertussis toxin decreased more than did titers of antibodies to filamentous hemagglutinin, pertactin, and fimbriae type 1 and type 2. Although studies of adults who have been vaccinated with acellular pertussis vaccines have had shorter follow-up periods than studies of adults with pertussis infection, the antibody decay patterns are similar in both groups.
Treatment With 9-cisβ-Carotene–Rich Powder in Patients With Retinitis Pigmentosa (2013)

clinicaltrials.gov Identifier: NCT01256697.
La girolline, nouvelle substance antitumorale extraite de l'éponge, Pseudaxinyssa cantharella n. sp. ( Axinellidae ) (1988)

Alain AHOND, Manuel BEDOYA ZURITA, Michel COLIN, Christian FIZAMES, Pierre LABOUTE, Francois LAVELLE, Dominique LAURENT, Christiane POUPAT, Jacques PUSSET, Michelle PUSSET, Odile THOISON et Pierre POTIER Resume Une nouvelle substance antitumorale a ete isolee d'une Eponge neo-caledonienne, Pseudaxinyssa cantharella. Sa structure a ete etablie a l'aide de ses caracteristiques spectrales et par preparation de derives selectivement substitues.
Reconstruction of Vectorial Wavefronts (1965)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text A. W. Lohmann, "Reconstruction of Vectorial Wavefronts," Appl. Opt. 4, 1667-1668 (1965) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Alkynyl sugar analogs for the labeling and visualization of glycoconjugates in cells (2007)

Developing tools for investigating the cellular activity of glycans will help to delineate the molecular basis for aberrant glycosylation in pathological processes such as cancer. Metabolic oligosaccharide engineering, which inserts sugar-reporting groups into cellular glycoconjugates, represents a powerful method for imaging the localization, trafficking, and dynamics of glycans and isolating them for glyco-proteomic analysis. Herein, we show that the alkyne-reporting group can be incorporated into cellular glycans. The alkyne group is a small, inert, bio-orthogonal handle that can be chemoselectively labeled by using the Cu(I) catalyzed [3 + 2] azide-alkyne cycloaddition, or click chemistry. Alkynyl sugar monomers, based on fucose (Fuc) and N-acetylmannosamine (ManNAc), were incorporated into fucosylated and sialylated glycans in several cancer cell lines, allowing for cell surface and intracellular visualization of glycoconjugates, as well as, observation of alkyne-bearing glycoproteins. Similarly to our previous results with an azido Fuc/alkynyl probe system, we demonstrated that click-activated fluorogenic probes are practical tools for efficiently and selectively labeling alkynyl-modified glycans. Because Fuc and sialic acid are terminal glycan residues with a notably increased presence in many tumors, we hope that our method will provide useful information about their roles in cancer and ultimately can be used for diagnostic and therapeutic purposes.