gebhart/patrepeval huggingface dataset:
Pulsed light processing of foods for microbial safety (2017)

The demand for processed foods and the awareness about food quality and safety are increasing rapidly. The consumers' demand for minimally processed foods and growing competition in the market have made the processors to adopt newer non-thermal technologies that preserve nutrients and sensory properties of the products. Conventionally, heat processing of foods is carried out to convert raw material into value-added product, reduce or eliminate microbial load to improve safety, and extend shelf life. Some of the limitations of thermal processing techniques can be overcome by employing non-thermal processes. High hydrostatic pressure, pulsed electric field, ultrasound, cold plasma, dense phase carbon dioxide, ozone, and pulsed light (PL) processing are gaining popularity in food processing. PL technology is a non-thermal technology, where sterilization and decontamination are achieved by impinging high-intensity light pulses of short durations on surfaces of foods and high-transmission liquids. Although a few reports on the PL technology are available, in-depth studies on this are needed to adopt at a commercial level. The present review provides an overview of light-based processing of foods and covers important aspects such as different PL systems used for processing of foods, mode of action of PL on microbes, the effect of PL on liquid foods, surface decontamination of foods and parameters that affect PL efficacy, combination processing with PL. With the growing demand in non-thermal processing for the technological advancement in the area of generation of light, light-based processing will be a promising technology for microbial load reduction.
Role of Secretory Immunoglobulin a and Secretory Component in the Protection of Mucosal Surfaces (2010)

The contribution of secretory immunoglobulin A (SIgA) antibodies in the defense of mucosal epithelia plays an important role in preventing pathogen adhesion to host cells, therefore blocking dissemination and further infection. This mechanism, referred to as immune exclusion, represents the dominant mode of action of the antibody. However, SIgA antibodies combine multiple facets, which together confer properties extending from intracellular and serosal neutralization of antigens, activation of non-inflammatory pathways and homeostatic control of the endogenous microbiota. The sum of these features suggests that future opportunities for translational application from research-based knowledge to clinics include the mucosal delivery of bioactive antibodies capable of preserving immunoreactivity in the lung, gastrointestinal tract, the genito-urinary tract for the treatment of infections. This article covers topics dealing with the structure of SIgA, the dissection of its mode of action in epithelia lining different mucosal surfaces and its potential in immunotherapy against infectious pathogens.
Optimized code generation of multiplication-free linear transforms (1996)

We present code generation of multiplication-free linear transforms targeted to single-register DSP architectures such as TMS320C2x/C5x. We first present an algorithm to generate optimized code from a DAG representation. We then present techniques that transform a DAG so as to minimize the number of nodes and the accumulator-spills. We then introduce a concept of spill-free DAGs and present an algorithm for synthesizing such DAGs. The results for Walsh-Hadamard, Haar and Slant transforms show 25% to 40% reduction in the cycle count using our techniques.
Removal of the detector-ground coupling effect in the vertical seismic profiling environment (1988)

Abstract In a 'controlled' experiment with the Gulf VSP tool, the detector-ground coupling was measured and removed from the recorded signal using the Washburn-Wiley algorithm. Repeat measurements were made at a common detector depth with two coupling configurations, the first to permit the true ground motion to be recorded and the second to ensure that a coupling resonance existed within the seismic frequency band. The algorithm removed the distortion of the body-wave portion of the seismogram caused by the coupling resonance for the second configuration and recovered true ground motion. However, lowering the coupling resonance into the seismic band also caused the tool to become sensitive to tube waves. This observation is helpful in evaluating current VSP tools; it implies that any VSP tool that is sensitive to tube waves has a coupling resonance within the seismic frequency band, and that the signal recorded with such a tool does not measure true ground motion.This test also showed that a detector used to monitor source signature variations must have a bandwidth comparable to the VSP signal.
Functional screening of Alzheimer risk loci identifies PTK2B as an in vivo modulator and early marker of Tau pathology (2016)

A recent genome-wide association meta-analysis for Alzheimer's disease (AD) identified 19 risk loci (in addition to APOE) in which the functional genes are unknown. Using Drosophila, we screened 296 constructs targeting orthologs of 54 candidate risk genes within these loci for their ability to modify Tau neurotoxicity by quantifying the size of >6000 eyes. Besides Drosophila Amph (ortholog of BIN1), which we previously implicated in Tau pathology, we identified p130CAS (CASS4), Eph (EPHA1), Fak (PTK2B) and Rab3-GEF (MADD) as Tau toxicity modulators. Of these, the focal adhesion kinase Fak behaved as a strong Tau toxicity suppressor in both the eye and an independent focal adhesion-related wing blister assay. Accordingly, the human Tau and PTK2B proteins biochemically interacted in vitro and PTK2B co-localized with hyperphosphorylated and oligomeric Tau in progressive pathological stages in the brains of AD patients and transgenic Tau mice. These data indicate that PTK2B acts as an early marker and in vivo modulator of Tau toxicity.
The Thai Phase III Trial (RV144) Vaccine Regimen Induces T Cell Responses That Preferentially Target Epitopes within the V2 Region of HIV-1 Envelope (2012)

The Thai HIV phase III prime/boost vaccine trial (RV144) using ALVAC-HIV (vCP1521) and AIDSVAX B/E was, to our knowledge, the first to demonstrate acquisition efficacy. Vaccine-induced, cell-mediated immune responses were assessed. T cell epitope mapping studies using IFN-γ ELISPOT was performed on PBMCs from HIV-1-uninfected vaccine (n = 61) and placebo (n = 10) recipients using HIV-1 Env peptides. Positive responses were measured in 25 (41%) vaccinees and were predominantly CD4(+) T cell-mediated. Responses were targeted within the HIV Env region, with 15 of 25 (60%) of vaccinees recognizing peptides derived from the V2 region of HIV-1 Env, which includes the α(4)β(7) integrin binding site. Intracellular cytokine staining confirmed that Env responses predominated (19 of 30; 63% of vaccine recipients) and were mediated by polyfunctional effector memory CD4(+) T cells, with the majority of responders producing both IL-2 and IFN-γ (12 of 19; 63%). HIV Env Ab titers were higher in subjects with IL-2 compared with those without IL-2-secreting HIV Env-specific effector memory T cells. Proliferation assays revealed that HIV Ag-specific T cells were CD4(+), with the majority (80%) expressing CD107a. HIV-specific T cell lines obtained from vaccine recipients confirmed V2 specificity, polyfunctionality, and functional cytolytic capacity. Although the RV144 T cell responses were modest in frequency compared with humoral immune responses, the CD4(+) T cell response was directed to HIV-1 Env and more particularly the V2 region.
Lower limb muscle activation during a 40km cycling time trial : co-activation and pedalling technique : original research article (2011)

Background: Knee extensors muscle activation could be optimized by a reduced activation of knee joint flexor muscles (co-activation) during fatigue. Time trial events are based on the management of energy resources by controlling muscle activation by focusing on optimizing performance and avoiding premature fatigue. Research question: Is there a reduction on muscle co-activation and variability of muscle activity during the recovery phase of pedal cycle which could influence pedalling technique and time trial performance? Type of study: Cross-sectional. Methods:Subjects: Eight triathletes. Experimental procedure: Maximal oxygen uptake and power output evaluation session. Cycling time trial performance session with the measurement of muscle activity by means of electromyography. Outcome measurements: Knee and ankle muscle co-activation, muscle activation variability, and muscle activation during the recovery phase of a pedal cycle. Results: Increased variability of biceps femoris and increased recruitment of vastus lateralis at the end of the time trial. No differences found for muscle co-activation. Conclusion: Individual strategies regarding biceps femoris activation are suggested based on changes in muscle activation variability. Vastus lateralis showed increased activation during the recovery phase, probably as an attempt to improve power output in the propulsion phase.
Human kidney is a target for novel severe acute respiratory syndrome coronavirus 2 infection (2021)

It is unclear whether severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) can directly infect human kidney, thus leading to acute kidney injury (AKI). Here, we perform a retrospective analysis of clinical parameters from 85 patients with laboratory-confirmed coronavirus disease 2019 (COVID-19); moreover, kidney histopathology from six additional COVID-19 patients with post-mortem examinations was performed. We find that 27% (23/85) of patients exhibited AKI. The elderly patients and cases with comorbidities (hypertension and heart failure) are more prone to develop AKI. Haematoxylin & eosin staining shows that the kidneys from COVID-19 autopsies have moderate to severe tubular damage. In situ hybridization assays illustrate that viral RNA accumulates in tubules. Immunohistochemistry shows nucleocapsid and spike protein deposits in the tubules, and immunofluorescence double staining shows that both antigens are restricted to the angiotensin converting enzyme-II-positive tubules. SARS-CoV-2 infection triggers the expression of hypoxic damage-associated molecules, including DP2 and prostaglandin D synthase in infected tubules. Moreover, it enhances CD68+ macrophages infiltration into the tubulointerstitium, and complement C5b-9 deposition on tubules is also observed. These results suggest that SARS-CoV-2 directly infects human kidney to mediate tubular pathogenesis and AKI.
Reliability of spring interconnects for high channel-count polyimide electrode arrays (2018)

Active neural implants with a high channel-count need robust and reliable operational assembly for the targeted environment in order to be classified as viable fully implantable systems. The discrete functionality of the electrode array and the implant electronics is vital for intact assembly. A critical interface exists at the interconnection sites between the electrode array and the implant electronics, especially in hybrid assemblies (e.g. retinal implants) where electrodes and electronics are not on the same substrate. Since the interconnects in such assemblies cannot be hermetically sealed, reliable protection against the physiological environment is essential for delivering high insulation resistance and low defusibility of salt ions, which are limited in complexity by current assembly techniques. This work reports on a combination of spring-type interconnects on a polyimide array with silicone rubber gasket insulation for chronically active implantable systems. The spring design of the interconnects on the backend of the electrode array compensates for the uniform thickness of the sandwiched gasket during bonding in assembly and relieves the propagation of extrinsic stresses to the bulk polyimide substrate. The contact resistance of the microflex-bonded spring interconnects with the underlying metallized ceramic test vehicles and insulation through the gasket between adjacent contacts was investigated against the MIL883 standard. The contact and insulation resistances remained stable in the exhausting environmental conditions.
A New Technique to Generate and Assess Forced Expiration from Raised Lung Volume in Infants (1995)

We have developed a new technique that allows assessment of infant lung function over an extended volume range. The lungs are rapidly inflated to a predetermined inflation pressure (PP) using a modified diaphragm pump. Forced expiratory flow-volume (FEFV) curves are then generated from raised lung volumes using an inflatable plastic jacket. We studied 26 normal infants with a median age of 14 mo (range, 3 to 23 mo). FEFV curves were obtained in each infant from end-tidal inspiration and from lung volumes set by a range of PP (15 to 20 cm H2O). Mean (SE) volume above FRC was 107 ml (9 ml), and mean forced expiratory time was 0.73 s (0.05 s) at end-tidal inspiration. Both measurements increased progressively with increases in PP to 251 ml (13 ml) and 1.04 s (0.06 s), respectively, at 20 cm H2O PP (p < 0.0001). Mean intrasubject coefficient of variation was 15.5% (95% confidence interval, 12 to 19%) for maximal flow at FRC, but it was less than 6% (95% CI, 4 to 8%) for forced expiratory volume-time (FEVt) measurements at all levels of PP. Twenty-seven recurrently wheezy infants with a median age of 13 mo (range, 6 to 18 mo) were subsequently studied using a PP of 17.5 cm H2O. Wheezy infants had a lower VmaxFRC [mean (1.39 ml/s/cm) and 95% CI (1.15 to 1.63 ml/s/cm)] than did normal infants (1.78 ml/s/cm; CI, 1.51 to 2.05) (p < 0.05). FEV1 measurements were all lower in wheezy infants than in normals infants: mean FEV0.5, 1.86 ml/cm (CI, 1.73 to 1.98) and 2.31 ml/cm (CI, 2.15 to 2.48), respectively (p < 0.0001); FEV0.75, 2.20 ml/cm (CI, 2.07 to 2.32) and 2.72 ml/cm (CI, 2.52 to 2.91), respectively (p < 0.0001); FEV1.0, 2.42 ml/cm (CI, 2.26 to 2.58) and 2.84 ml/cm (CI, 2.63 to 3.06), respectively (p < 0.005). The Ci values of each FEVt measurement did not overlap between the wheezy and normal groups; however, the CI values of VmaxFRC overlapped markedly. In addition, FEVt parameters showed greater sensitivity in detecting reduced lung function (71 to 89%) than did VmaxFRC parameters (56%). We conclude that (1) FEVt measurements derived from a lung volume set by a standardized pressure are more reproducible than flow measurements in the tidal volume range; (2) FEVt measurements are significantly lower in wheezy infants than in normal infants, show less overlap than flow measurements in the tidal volume range, and therefore are better able to separate the two populations.
A case report of a case of social anxiety disorder treated based on eye movement desensitization and reprocessing psychotherapy (2023)

Eye Movement Desensitization and Reprocessing (EMDR) is an approach originally used to treat PTSD. However, it is now used in different treatment situations.EMDR is divided into eight stages of treatment; combined with a case report of a social anxiety disorder. The basic theory, treatment process and application of EMDR psychotherapy in social anxiety disorder and its efficacy are evaluated. Keywords: Eye Movement Desensitization and Reprocessing, PTSD Social Anxiety Disorder Case
Current strategies for protein production and purification enabling membrane protein structural biology (2016)

Membrane proteins are still heavily under-represented in the protein data bank (PDB), owing to multiple bottlenecks. The typical low abundance of membrane proteins in their natural hosts makes it necessary to overexpress these proteins either in heterologous systems or through in vitro translation/cell-free expression. Heterologous expression of proteins, in turn, leads to multiple obstacles, owing to the unpredictability of compatibility of the target protein for expression in a given host. The highly hydrophobic and (or) amphipathic nature of membrane proteins also leads to challenges in producing a homogeneous, stable, and pure sample for structural studies. Circumventing these hurdles has become possible through the introduction of novel protein production protocols; efficient protein isolation and sample preparation methods; and, improvement in hardware and software for structural characterization. Combined, these advances have made the past 10-15 years very exciting and eventful for the field of membrane protein structural biology, with an exponential growth in the number of solved membrane protein structures. In this review, we focus on both the advances and diversity of protein production and purification methods that have allowed this growth in structural knowledge of membrane proteins through X-ray crystallography, nuclear magnetic resonance (NMR) spectroscopy, and cryo-electron microscopy (cryo-EM).
Mechanical Characterization of Differentiated Human Embryonic Stem Cells (2009)

Human embryonic stem cells (hESCs) possess an immense potential in a variety of regenerative applications. A firm understanding of hESC mechanics, on the single cell level, may provide great insight into the role of biophysical forces in the maintenance of cellular phenotype and elucidate mechanical cues promoting differentiation along various mesenchymal lineages. Moreover, cellular biomechanics can provide an additional tool for characterizing stem cells as they follow certain differentiation lineages, and thus may aid in identifying differentiated hESCs, which are most suitable for tissue engineering. This study examined the viscoelastic properties of single undifferentiated hESCs, chondrogenically differentiated hESC subpopulations, mesenchymal stem cells (MSCs), and articular chondrocytes (ACs). hESC chondrogenesis was induced using either transforming growth factor-beta1 (TGF-beta1) or knock out serum replacer as differentiation agents, and the resulting cell populations were separated based on density. All cell groups were mechanically tested using unconfined creep cytocompression. Analyses of subpopulations from all differentiation regimens resulted in a spectrum of mechanical and morphological properties spanning the range of hESCs to MSCs to ACs. Density separation was further successful in isolating cellular subpopulations with distinct mechanical properties. The instantaneous and relaxed moduli of subpopulations from TGF-beta1 differentiation regimen were statistically greater than those of undifferentiated hESCs. In addition, two subpopulations from the TGF-beta1 group were identified, which were not statistically different from native articular chondrocytes in their instantaneous and relaxed moduli, as well as their apparent viscosity. Identification of a differentiated hESC subpopulation with similar mechanical properties as native chondrocytes may provide an excellent cell source for tissue engineering applications. These cells will need to withstand any mechanical stimulation regimen employed to augment the mechanical and biochemical characteristics of the neotissue. Density separation was effective at purifying distinct populations of cells. A differentiated hESC subpopulation was identified with both similar mechanical and morphological characteristics as ACs. Future research may utilize this cell source in cartilage regeneration efforts.
A molten carbonate shell modified perovskite redox catalyst for anaerobic oxidative dehydrogenation of ethane (2020)

Acceptor-doped, redox-active perovskite oxides such as La<sub>0.8</sub>Sr<sub>0.2</sub>FeO<sub>3</sub> (LSF) are active for ethane oxidation to CO <i><sub>x</sub></i> but show poor selectivity to ethylene. This article reports molten Li<sub>2</sub>CO<sub>3</sub> as an effective "promoter" to modify LSF for chemical looping-oxidative dehydrogenation (CL-ODH) of ethane. Under the working state, the redox catalyst is composed of a molten Li<sub>2</sub>CO<sub>3</sub> layer covering the solid LSF substrate. The molten layer facilitates the transport of active peroxide (O<sub>2</sub> <sup>2-</sup>) species formed on LSF while blocking the nonselective sites. Spectroscopy measurements and density functional theory calculations indicate that Fe<sup>4+</sup>→Fe<sup>3+</sup> transition is responsible for the peroxide formation, which results in both exothermic ODH and air reoxidation steps. With >90% ethylene selectivity, up to 59% ethylene yield, and favorable heat of reactions, the core-shell redox catalyst has an excellent potential to be effective for intensified ethane conversion. The mechanistic findings also provide a generalized approach for designing CL-ODH redox catalysts.
ZmCCA1a on Chromosome 10 of Maize Delays Flowering of Arabidopsis thaliana (2020)

Maize (<i>Zea mays</i>) is a major cereal crop that originated at low latitudes, and thus photoperiod sensitivity is an important barrier to the use of tropical/subtropical germplasm in temperate regions. However, studies of the mechanisms underlying circadian regulation in maize are at an early stage. In this study we cloned <i>ZmCCA1a</i> on chromosome 10 of maize by map-based cloning. The gene is homologous to the Myb transcription factor genes <i>AtCCA1</i>/<i>AtLHY</i> in <i>Arabidopsis thaliana</i>; the deduced Myb domain of ZmCCA1a showed high similarity with that of AtCCA1/AtLHY and ZmCCA1b. Transiently or constitutively expressed ZmCCA1a-YFPs were localized to nuclei of <i>Arabidopsis</i> mesophyll protoplasts, agroinfiltrated tobacco leaves, and leaf and root cells of transgenic seedlings of <i>Arabidopsis thaliana</i>. Unlike AtCCA1/AtLHY, ZmCCA1a did not form homodimers nor interact with ZmCCA1b. Transcripts of <i>ZmCCA1a</i> showed circadian rhythm with peak expression around sunrise in maize inbred lines CML288 (photoperiod sensitive) and Huangzao 4 (HZ4; photoperiod insensitive). Under short days, transcription of <i>ZmCCA1a</i> in CML288 and HZ4 was repressed compared with that under long days, whereas the effect of photoperiod on <i>ZmCCA1a</i> expression was moderate in HZ4. In <i>ZmCCA1a-</i>overexpressing <i>A. thaliana</i> (<i>ZmCCA1a-ox</i>) lines, the circadian rhythm was disrupted under constant light and flowering was delayed under long days, but the hypocotyl length was not affected. In addition, expression of endogenous <i>AtCCA1/AtLHY</i> and the downstream genes <i>AtGI</i>, <i>AtCO</i>, and <i>AtFt</i> was repressed in <i>ZmCCA1a-ox</i> seedlings. The present results suggest that the function of <i>ZmCCA1a</i> is similar, at least in part, to that of <i>AtCCA1/AtLHY</i> and <i>ZmCCA1b</i>, implying that <i>ZmCCA1a</i> is likely to be an important component of the circadian clock pathway in maize.
Library interface versioning in solaris and linux (2000)

Shared libraries in Solaris and Linux use a versioning technique which allows the link editor to record an application's dependency on a particular release level of the library. The versioning mechanism operates at the level of the library's GLOBAL symbol names--a finer granularity than simply associating a version number with the library itself.

In Solaris, this mechanism has also been used to provide a means for the system-supplied shared libraries to define their application interface: to declare specifically which of their symbols are intended for application use (and are stable from one release to the next), and which are internal to the system's implementation (and hence subject to incompatible change).

This paper describes the library symbol-versioning technology in Linux and Solaris, the ways in which it is used to support upward compatibility for existing compiled applications from one release of Solaris to the next, and the potential for similar mechanisms to be applied in Linux versioned shared libraries.