gebhart/patrepeval huggingface dataset:
Humoral immune responses to Shiga-like toxins and Escherichia coli O157 lipopolysaccharide in hemolytic-uremic syndrome patients and healthy subjects (1994)

Shiga-like-toxin (SLT)-producing Escherichia coli strains, especially serotype O157:H7, are important causes of bloody diarrhea and are associated with the development of hemolytic-uremic syndrome (HUS). Enzyme-linked immunosorbent assays (ELISAs) were developed for the serologic detection of immunoglobulin M (IgM), IgG, and IgA to Shiga toxin (ST) and SLT-I, IgG to SLT-II, and IgM and IgG reactive against E. coli O157 lipopolysaccharide (LPS). Serum samples were collected from 27 HUS patients (25 pediatric and 2 adult) and tested in the ELISAs. Of 27 patients, 10 (37%) were positive for at least one class of antibody to ST/SLT-I. None of the patients were positive for IgG antibody to SLT-II. Twenty-one of the 27 patients (78%) were positive for antibody to E. coli O157 LPS; 19 of 27 (70%) were positive for IgM, and 20 of 27 (74%) were positive for IgG. None of 48 control serum samples were positive in any of the toxin assays, and only 1 of 48 (2%) and 2 of 48 (4%) were positive for IgM and IgG, respectively, to E. coli O157 LPS. Twelve of the 24 patients (50%) from whom stool specimens were collected were positive by culture for E. coli O157. Overall, serology and culture produced confirmation of infection by SLT-producing organisms in 23 of 27 (85%) HUS patients. A combination of ELISA for antibodies to E. coli O157 LPS and culture provided evidence for 22 of 27 (82%) of these patients. The results indicate that while ELISAs for ST/SLT-I and SLT-II antibodies were of limited diagnostic value, the ELISAs for IgM and IgG to E. coli O157 LPS provided valuable and sensitive adjuncts to culture.
The Molecular Basis for the Lack of Immunostimulatory Activity of Vertebrate DNA (2003)

Macrophages and B cells are activated by unmethylated CpG-containing sequences in bacterial DNA. The lack of activity of self DNA has generally been attributed to CpG suppression and methylation, although the role of methylation is in doubt. The frequency of CpG in the mouse genome is 12.5% of Escherichia coli, with unmethylated CpG occurring at approximately 3% the frequency of E. coli. This suppression of CpG alone is insufficient to explain the inactivity of self DNA; vertebrate DNA was inactive at 100 micro g/ml, 3000 times the concentration at which E. coli DNA activity was observed. We sought to resolve why self DNA does not activate macrophages. Known active CpG motifs occurred in the mouse genome at 18% of random occurrence, similar to general CpG suppression. To examine the contribution of methylation, genomic DNAs were PCR amplified. Removal of methylation from the mouse genome revealed activity that was 23-fold lower than E. coli DNA, although there is only a 7-fold lower frequency of known active CpG motifs in the mouse genome. This discrepancy may be explained by G-rich sequences such as GGAGGGG, which potently inhibited activation and are found in greater frequency in the mouse than the E. coli genome. In summary, general CpG suppression, CpG methylation, inhibitory motifs, and saturable DNA uptake combined to explain the inactivity of self DNA. The immunostimulatory activity of DNA is determined by the frequency of unmethylated stimulatory sequences within an individual DNA strand and the ratio of stimulatory to inhibitory sequences.
Efficacy of a Dry Fibrin Sealant Dressing for Hemorrhage Control After Ballistic Injury (1998)

The DFSD was superior to gauze in decreasing blood loss and maintaining blood pressure while retaining the simplicity of standard dressing application.
Underwriter Reputation, Initial Returns, and the Long‐Run Performance of IPO Stocks (1998)

We find that the underperformance of IPO stocks relative to the market over a three‐year holding period is less severe for IPOs handled by more prestigious underwriters. Consistent with prior studies, we also find that IPOs managed by more reputable underwriters are associated with less short‐run underpricing. Among the various existing proxies for underwriter reputation, the Carter–Manaster measure is the most significant in the context of initial returns and also in the context of the three‐year performance of IPOs. The study also provides an updated list of the Carter–Manaster measure for various underwriters.
Current status and strategies of Electronic waste management in Bangladesh (2012)

The production of electric and electronic equipment (EEE) is one of the fastest growing areas. This development has resulted in an increase of waste electric and electronic equipment (WEEE). Recycling of WEEE is an important subject not only from the point of waste treatment but also from the recovery of valuable materials The current practices of e-waste management in Bangladesh suffer from a number of drawbacks like the difficulty in inventorisation, unhealthy conditions of informal recycling, inadequate legislation, poor awareness and reluctance on part of the corporate to address the critical issues. The consequences are that (i) toxic materials enter the waste stream with no special precautions to avoid the known adverse effects on the environment and human health and (ii) resources are wasted when economically valuable materials are dumped or unhealthy conditions are developed during the informal recycling. This paper gives readers an overview on the e-waste topic—how e-waste is defined, what it is composed of. The paper highlights current status and strategies to address this emerging problem, in the light of initiatives in Bangladesh. The paper presents a waste management system with shared responsibility for the collection and recycling of electronic wastes amongst the manufacturers/assemblers, importers, recyclers, regulatory bodies and the consumers.
A Study of the Scintillation Properties of Various Hydrogenous and Non-Hydrogenous Solutes Dissolved in Hexafluorobenzene (1966)

To enhance the gamma-ray sensitivity relative to that of fast neutrons, haxafluorobenzene (C6F6), was substituted for the primary solvent in a standard hydrogenous scintillator solution. The solutes used included p-terphenyl, α-NPO, PPO, POPOP, DM-POPOP and decafluorobiphenyl. Optical absorption and emission spectra were measured. The sensitivity relative to NE-211 was determined for Co60 radiation, 14 MeV neutrons and 2.6 MeV neutrons as a function of solute concentration ranging between 0.03 g/liter and 3.0 g/liter. Sensitivity measurements were carried out by measuring the total integrated light output from the scintillators. For all samples studied, the relative sensitivity to Co60 gamma radiation was greater than that for fast neutrons by factors ranging between 5 and 15.
Enabling functional genomics with genome engineering (2015)

Advances in genome engineering technologies have made the precise control over genome sequence and regulation possible across a variety of disciplines. These tools can expand our understanding of fundamental biological processes and create new opportunities for therapeutic designs. The rapid evolution of these methods has also catalyzed a new era of genomics that includes multiple approaches to functionally characterize and manipulate the regulation of genomic information. Here, we review the recent advances of the most widely adopted genome engineering platforms and their application to functional genomics. This includes engineered zinc finger proteins, TALEs/TALENs, and the CRISPR/Cas9 system as nucleases for genome editing, transcription factors for epigenome editing, and other emerging applications. We also present current and potential future applications of these tools, as well as their current limitations and areas for future advances.
The biologic concept of continuous passive motion of synovial joints. The first 18 years of basic research and its clinical application. (1989)

The notoriously limited capacity of articular cartilage to heal or to regenerate plus the author's clinical observations and research on the deleterious effects of immobilization on joints led him to the biologic concept of continuous passive motion (CPM) of synovial joints in 1970. The hypothesis that CPM should stimulate pluripotential mesenchymal cells to differentiate into articular cartilage and should accelerate the healing of articular tissues has been validated by numerous scientific investigations of a variety of experimental models of the knee joint. These models have included full-thickness defects, intraarticular fractures, acute septic arthritis, partial thickness lacerations of the patellar tendon, semitendinosus tenodesis to replace the medial collateral ligament, autogeneic osteoperiosteal grafts in major defects, free autogeneic periosteal grafts, and periosteal allografts. In 1978, the author collaborated with Saringer, an engineer, to develop CPM devices for humans. CPM is clinically indicated following such procedures as open reduction of fractures, arthrolysis for posttraumatic arthritis, synovectomy, drainage of septic arthritis, release of joint contractures, total arthroplasty, tendon repair, and ligament reconstruction. Clinically, CPM is an important stimulus to joint regeneration processes.
Signal Transduction Pathways Mediated by PECAM-1 (2003)

Recent studies of platelet endothelial cell adhesion molecule-1 (PECAM-1 [CD31])-deficient mice have revealed that this molecule plays an important role in controlling the activation and survival of cells on which it is expressed. In this review, we focus on the complex cytoplasmic domain of PECAM-1 and describe what is presently known about its structure, posttranslational modifications, and binding partners. In addition, we summarize findings that implicate PECAM-1 as an inhibitor of cellular activation via protein tyrosine kinase-dependent signaling pathways, an activator of integrins, and a suppressor of cell death via pathways that depend on damage to the mitochondria. The challenge of future research will be to bridge our understanding of the functional and biochemical properties of PECAM-1 by establishing mechanistic links between signals transduced by the PECAM-1 cytoplasmic domain and discrete cellular responses.
Photochromism of Spirooxazine-Doped Gels (1996)

Spirooxazine photochromic dyes were trapped in gel thin films. Organically modified doped gels showed normal photochromism. The kinetics of the photochromism in these gels was quantified using both Gaussian and simple biexponential models in order to take into account the inhomogeneous distribution of free volume in the gel matrix and to compare the photodynamics with that in organic polymers. In organic−inorganic hybrid matrices, a competition was observed between normal and reverse photochromisms because of the presence of two chemical environments for the dye molecules. The kinetics of photodegradation for dye-doped gels was deduced from the recording of the excitation/emission spectra during UV light irradiation.
Redox cycling and kinetic analysis of single molecules of solution-phase nitrite reductase (2011)

Single-molecule measurements are a valuable tool for revealing details of enzyme mechanisms by enabling observation of unsynchronized behavior. However, this approach often requires immobilizing the enzyme on a substrate, a process which may alter enzyme behavior. We apply a microfluidic trapping device to allow, for the first time, prolonged solution-phase measurement of single enzymes in solution. Individual redox events are observed for single molecules of a blue nitrite reductase and are used to extract the microscopic kinetic parameters of the proposed catalytic cycle. Changes in parameters as a function of substrate concentration are consistent with a random sequential substrate binding mechanism.
難聴児童に対する算数文章題の指導に関する研究 : 「問題づくり」を用いた減法問題の指導について (2005)

これまで聴覚障害児の算数学習において、計算はできるが文章題の理解が困難であることがたびたび指摘されてきた。そしてその状況は小学部だけでなくそれ以降の学部においても見られることが指摘されている。そうした状況の改善のためにこれまでいくつかの方法が紹介されているが、そこに関係する要因が複雑であり、必ずしも解決の手だてが聴覚障害児教育において十分に確立されているわけではない。本研究では、文章題に関する理解が困難な1名の難聴児童を対象として、文章題に対する動機付けを高める手段として「問題づくり」の手法を用い、減法の文章題中の数量関係の把捉を視覚的な手がかりを用いながら行うとともに、数的な処理の意識化ができるようにすることを目的に個別に指導を行った。その結果、指導後において解答の立式だけでなく、数量構造の把捉も可能となり、今後の文章題指導の手がかりが示唆された。
The conserved SOCS box motif in suppressors of cytokine signaling binds to elongins B and C and may couple bound proteins to proteasomal degradation (1999)

The suppressors of cytokine signaling (SOCS) family of proteins act as intracellular inhibitors of several cytokine signal transduction pathways. Their expression is induced by cytokine activation of the Janus kinase/signal transducer and activator of transcription (JAK/STAT) pathway and they act as a negative feedback loop by subsequently inhibiting the JAK/STAT pathway either by direct interaction with activated JAKs or with the receptors. These interactions are mediated at least in part by the SH2 domain of SOCS proteins but these proteins also contain a highly conserved C-terminal homology domain termed the SOCS box. Here we show that the SOCS box mediates interactions with elongins B and C, which in turn may couple SOCS proteins and their substrates to the proteasomal protein degradation pathway. Analogous to the family of F-box-containing proteins, it appears that the SOCS proteins may act as adaptor molecules that target activated cell signaling proteins to the protein degradation pathway.
Self-aligned ground-plane FDSOI MOSFET (2002)

We report the fabrication and the electrical characteristics of fully depleted n-channel SOI MOSFETs with a self-aligned ground-plane electrode in the silicon mechanical substrate underneath the buried oxide. The ground-plane electrode is shown to reduce short-channel effects.
Migration of cells from human anterior cruciate ligament explants into collagen‐glycosaminoglycan scaffolds (2000)

Regeneration of the human anterior cruciate ligament after complete rupture offers several theoretical advantages over reconstruction, including maintenance of the complex insertion sites and fan-shape of the ligament and preservation of remaining proprioceptive fibers within the ligament substance. Well vascularized connective tissues, such as dermis, heal as a result of migration of fibroblasts into a provisional scaffold, the fibrin clot. Wound closure is subsequently facilitated by a contractile cell phenotype. This study was designed to determine if fibroblasts intrinsic to the human anterior cruciate ligament were capable of migrating from their native extracellular matrix onto an adjacent provisional scaffold in vitro. Another objective was to determine whether any of the cells that successfully migrated into the scaffold expressed the contractile actin isoform, alpha-smooth muscle actin, associated with wound contraction in other tissues. The results demonstrated that the cells intrinsic to the human anterior cruciate ligament were able to migrate into a collagen-glycosaminoglycan scaffold, bridging a gap between transected fascicles in vitro. As a result of this cell migration and proliferation, areas in the scaffold contained cell number densities similar to those seen in the human anterior cruciate ligament in vivo. No extracellular matrix or tissue formation was seen in the gap between directly apposed transected ends of the anterior cruciate ligament explants cultured without an interposed collagen-glycosaminoglycan scaffold. The fascicle-collagen-glycosaminoglycan-fascicle constructs and the fascicle-fascicle explants displayed minimal adherence after 6 weeks in culture. Any disruption in the contact area between explant and scaffold, even as small a gap as 50 microm, prevented cell migration from the explant to the collagen-glycosaminoglycan scaffold at the area of loss of contact. All cells that migrated into the scaffold at early time periods expressed the alpha-smooth muscle actin isoform. These results demonstrate that cells that migrate into and proliferate within the collagen-glycosaminoglycan matrix have contractile potential as reflected in their expression of the alpha-smooth muscle actin isoform. The role of these contractile cells in the healing process warrants further investigation. Moreover, this study demonstrates the potential of cells intrinsic to the human anterior cruciate ligament to migrate into collagen-glycosaminoglycan scaffolds that may ultimately be investigated as implants to facilitate ligament healing and regeneration.
Biochemistry &amp; molecular biology of plants (2001)

Since its publication in 2000, Biochemistry & Molecular Biology of Plants, has been hailed as a major contribution to the plant sciences literature and critical acclaim has been matched by global sales success. Maintaining the scope and focus of the first edition, the second will provide a major update, include much new material and reorganise some chapters to further improve the presentation. This book is meticulously organised and richly illustrated, having over 1,000 full-colour illustrations and 500 photographs. It is divided into five parts covering: Compartments: Cell Reproduction: Energy Flow; Metabolic and Developmental Integration; and Plant Environment and Agriculture. Specific changes to this edition include: Completely revised with over half of the chapters having a major rewrite. Includes two new chapters on signal transduction and responses to pathogens. Restructuring of section on cell reproduction for improved presentation. Dedicated website to include all illustrative material. Biochemistry & Molecular Biology of Plants holds a unique place in the plant sciences literature as it provides the only comprehensive, authoritative, integrated single volume book in this essential field of study.
Short-lag spatial coherence of backscattered echoes: imaging characteristics (2011)

Conventional ultrasound images are formed by delay-and-sum beamforming of the backscattered echoes received by individual elements of the transducer aperture. Although the delay-and-sum beamformer is well suited for ultrasound image formation, it is corrupted by speckle noise and challenged by acoustic clutter and phase aberration. We propose an alternative method of imaging utilizing the short-lag spatial coherence (SLSC) of the backscattered echoes. Compared with matched B-mode images, SLSC images demonstrate superior SNR and contrast-to-noise ratio in simulated and experimental speckle-generating phantom targets, but are shown to be challenged by limited point target conspicuity. Matched B-mode and SLSC images of a human thyroid are presented. The challenges and opportunities of real-time implementation of SLSC imaging are discussed.
Microbial Metabolism and Community Structure in Response to Bioelectrochemically Enhanced Remediation of Petroleum Hydrocarbon-Contaminated Soil (2014)

This study demonstrates that electrodes in a bioelectrochemical system (BES) can potentially serve as a nonexhaustible electron acceptor for in situ bioremediation of hydrocarbon contaminated soil. The deployment of BES not only eliminates aeration or supplement of electron acceptors as in contemporary bioremediation but also significantly shortens the remediation period and produces sustainable electricity. More interestingly, the study reveals that microbial metabolism and community structure distinctively respond to the bioelectrochemically enhanced remediation. Tubular BESs with carbon cloth anode (CCA) or biochar anode (BCA) were inserted into raw water saturated soils containing petroleum hydrocarbons for enhancing in situ remediation. Results show that total petroleum hydrocarbon (TPH) removal rate almost doubled in soils close to the anode (63.5-78.7%) than that in the open circuit positive controls (37.6-43.4%) during a period of 64 days. The maximum current density from the BESs ranged from 73 to 86 mA/m(2). Comprehensive microbial and chemical characterizations and statistical analyses show that the residual TPH has a strongly positive correlation with hydrocarbon-degrading microorganisms (HDM) numbers, dehydrogenase activity, and lipase activity and a negative correlation with soil pH, conductivity, and catalase activity. Distinctive microbial communities were identified at the anode, in soil with electrodes, and soil without electrodes. Uncommon electrochemically active bacteria capable of hydrocarbon degradation such as Comamonas testosteroni, Pseudomonas putida, and Ochrobactrum anthropi were selectively enriched on the anode, while hydrocarbon oxidizing bacteria were dominant in soil samples. Results from genus or phylum level characterizations well agree with the data from cluster analysis. Data from this study suggests that a unique constitution of microbial communities may play a key role in BES enhancement of petroleum hydrocarbons biodegradation in soils.
A new label technology for the detection of specific polymerase chain reaction products in a closed tube (2000)

A novel signal generation principle suitable for real time and end-point detection of specific PCR products in a closed tube is described. Linear DNA probes were labeled at their 5'-ends with a stable, fluorescent terbium chelate. The fluorescence intensity of this chelate is lower when it is coupled to single-stranded DNA than when the chelate is free in solution. The synthesized probes were used in the real time monitoring of PCR using a prototype instrument that consisted of a fluorometer coupled to a thermal cycler. When the probe anneals to a complementary target amplicon, the 5'-->3' exonucleolytic activity of DNA polymerase detaches the label from the probe. This results in an enhanced terbium fluorescence signal. Since terbium has a long excited state lifetime, its fluorescence can be measured in a time-resolved manner, which results in a low background fluorescence and a 1000-fold signal amplification. The detection method is quantitative over an extremely wide linear range (at least 10-10(7)initial template molecules). The label strategy can easily be combined with existing label technologies, such as TaqMan 5'-exonuclease assays, in order to carry out multiplex assays that do not suffer from overlapping emission peaks of the fluorophores.
Stent-Graft Arteriovenous Fistula: An Endovascular Technique in Hemodialysis Access (1998)

Endoluminal stent-grafts can be successfully inserted into the axillary vein for creation of an AV fistula and remain patent for 2 years or more. This method may be most useful in patients with very small, unusable arm veins or multiple failed AV grafts.
Selective Modification of Glutathione Metabolism (1983)

Glutathione, a tripeptide thiol found in virtually all cells, functions in metabolism, transport, and cellular protection. It participates in the reduction of disulfides and other molecules, and conjugates with compounds of exogenous and endogenous origin. It protects cells against the destructive effects of reactive oxygen intermediates and free radicals. Modifications of glutathione metabolism may be achieved by administration of selective enzyme inhibitors, and also by giving compounds that increase glutathione synthesis. Such effects are useful in chemotherapy and radiation therapy and in protecting cells against the toxic effects of drugs, other foreign compounds, and oxygen.
Nanofocusing in laterally tapered plasmonic waveguides (2008)

We investigate the focusing of surface plasmon polaritons (SPPs) excited with 1.5 microm light in a tapered Au waveguide on a planar dielectric substrate by experiments and simulations. We find that nanofocusing can be obtained when the asymmetric bound mode at the substrate side of the metal film is excited. The propagation and concentration of this mode to the tip is demonstrated. No sign of a cutoff waveguide width is observed as the SPPs propagate along the tapered waveguide. Simulations show that such concentrating behavior is not possible for excitation of the mode at the low-index side of the film. The mode that enables the focusing exhibits a strong resemblance to the asymmetric mode responsible for focusing in conical waveguides. This work demonstrates a practical implementation of plasmonic nanofocusing on a planar substrate.