gebhart/patrepeval huggingface dataset:
Transcriptome features of stone cell development in weevil‐resistant and susceptible Sitka spruce (2023)

Stone cells are a specialized, highly lignified cell type found in both angiosperms and gymnosperms. In conifers, abundance of stone cells in the cortex provides a robust constitutive physical defense against stem feeding insects. Stone cells are a major insect-resistance trait in Sitka spruce (Picea sitchensis), occurring in dense clusters in apical shoots of trees resistant (R) to spruce weevil (Pissodes strobi) but being rare in susceptible (S) trees. To learn more about molecular mechanisms of stone cell formation in conifers, we used laser microdissection and RNA sequencing to develop cell-type-specific transcriptomes of developing stone cells from R and S trees. Using light, immunohistochemical, and fluorescence microscopy, we also visualized the deposition of cellulose, xylan, and lignin associated with stone cell development. A total of 1293 genes were differentially expressed at higher levels in developing stone cells relative to cortical parenchyma. Genes with potential roles in stone cell secondary cell wall formation (SCW) were identified and their expression evaluated over a time course of stone cell formation in R and S trees. The expression of several transcriptional regulators was associated with stone cell formation, including a NAC family transcription factor and several genes annotated as MYB transcription factors with known roles in SCW formation.
QRS micro-fragmentation as a mortality predictor (2022)

In three populations with different clinical characteristics, QRS-μf was a powerful mortality risk factor independent of several previously established risk indices. Electrophysiologic abnormalities that contribute to increased QRS-μf values are likely responsible for the predictive power of visible QRS-Mf.
The electrical resistance of Cr films (1988)

Measurements of the thickness dependence of the electrical resistance of two very thin Cr films deposited at substrate temperatures of 385 and 360 °C and pressures of 4×10−7 and 10−6 Torr are reported. Preliminary measurements of the thickness dependence of the Néel temperature (TN) of the film deposited at 360 °C at thicknesses ≥10 nm are also presented. In these two films the resistance in the thickness region 2≤d≤7.5 nm can be very well described by R∝[(d/dc)−1 ]−t with dc equal to 1.64±0.20 and 1.03±0.20 nm, respectively, and t=1.34±0.11. The Néel temperatures show a turning point around 14 nm in agreement with the known thickness dependence of the stress. dTN/dSt has been found to be ∼100 K/kbar where St is the internal tensile stress in the film.
Shape control of adaptive structures (2003)

The variable geometry and shape control of adaptive structures is studied. A theoretical basis for shape control of deployable truss structures is discussed. The purpose is to generate a method of finding the optimal path for high-authority controllers to steer a structure with arbitrary geometry from a given initial shape to a final shape. In addition, the study of the workspace of the structure in relation to attainability of the desired shapes is presented. The work space boundaries will establish a basis for state constraints in path optimization analysis.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Insights into the reactive ion etching mechanism of nanocrystalline diamond films as a function of film microstructure and the presence of fluorine gas (2010)

Inhomogeneous etching of nanocrystalline diamond (NCD) films, which produces nanopillars during reactive ion etching process, is problematic to the microfabrication of NCD films for the sensor and actuator applications. Thus, its origin was investigated for various initial microstructures of the NCD films, SF6/O2 gas ratios during etching, and plasma powers. The etched NCD film surface roughness became more pronounced (leading to larger pillar diameters and heights) for larger initial microstructural features (larger grain and cluster sizes), particularly at low plasma powers. The surface roughening was significantly reduced with the addition of SF6, almost disappearing at SF6/O2 of 5% to 10%. These results indicate that the etch rate was locally enhanced at the interfaces between grains or clusters, and the etch rate disparity between intragranular and intergranular (or cluster) carbons increased with decreasing ion energy, implying a chemical reaction rate-limited etching mechanism. The role of SF6 could be explained to reduce the energy barrier for the chemical reaction of intragranular carbons. Here we suggest that the etching rate is limited by an energy barrier that could be reduced by defect generation during ion bombardment or by catalytic radicals.
Mass casualty incident surveillance and monitoring using identity aware video analytics (2010)

In this paper, we propose an identity aware video analytic system that can assist securing the perimeter of a mass casualty incident scene and generate identity annotated video records for forensics and training purposes. Establishing a secure incident scene perimeter and enforcing access control to different zones is a demanding task for current video surveillance systems which lack the ability to provide the identity of the target and its security clearance. Our system which combines active RFID sensors with video analytic tools recovers the identity of the target enabling the activation of suitable alert policies. The system also enables annotation of incident scene video with identity metadata, facilitating the incident response process reconstruction for forensics analysis and emergency response training.
Unchanged Insulin Absorption After 4 Days' Use of Subcutaneous Indwelling Catheters for Insulin Injections (1997)

We conclude that using indwelling subcutaneous catheters for insulin injections for up to 4 days does not affect the absorption of short-acting insulin.
Nitric Oxide: A Mediator in Anaphylactic Shock in Guinea-Pigs (1996)

In this study we show that the pathophysiology of anaphylaxis includes generation of nitric oxide (NO), a very powerful, short-acting vasodilator. Guinea-pigs sensitized to ovalbumin were treated with 200 microgram/kg diphenylene iodonium (DPI), and NO synthase inhibitor, prior to antigen challenge. Mortality following the challenge fell from 71 to 39% (p < 0.001, n = 59). In the Langendorff preparation perfused isolated hearts from sensitized guinea-pigs were challenged to initiate cardiac anaphylaxis. The coronary flow rate (CFR), a direct reflection of coronary arterial resistance, was reduced by antigen challenge to 56 +/- 4% (n = 16) of the basal rate. DPI (2 micrograms/ml) intensified the antigen-induced fall in CFR to 13 +/- 3% of control (p < 0.005, n = 5), and the false substrate for NO, L-N-methylarginine, to 37 +/- 3% (p < 0.05, n = 4). Sodium nitroprusside (SNP), a NO generator, raised the basal CFR by 46% (from 11.2 +/- 1.7 ml/min to 16.3 +/- 1.9 ml/min) and blunted the antigen-induced fall in CFR. Paradoxically, DPI, which can inhibit flavoprotein enzymes other than NO synthase, potentiated the vasodilator effect of SNP, raising the basal CFR by 116%. Together these results strongly indicate that the vasodilator NO is generated in anaphylaxis. However, whereas in the heart it may function as a counterweight to the vasospasm of the coronary arteries, in the intact animal it appears to be a major contributor to the potentially lethal hypotension of anaphylactic shock.
Complete Deracemization of Proteinogenic Glutamic Acid Using Viedma Ripening on a Metastable Conglomerate (2012)

Viedma ripening is a process in which a compound that forms a stable racemic conglomerate can be converted to an enantiomerically pure solid state. Combining this deracemization process with Ostwald’s rule of stages, allows Viedma ripening to be extended to a racemic compound for which the conglomerate exists only in a metastable form. This is demonstrated for glutamic acid, a proteinogenic amino acid. Since Ostwald ripening is one of the processes occurring during Viedma ripening, we thus make use of Ostwald twice.
Biofilm Formation and β-Lactamase Production in Burn Isolates of Pseudomonas aeruginosa (2015)

Biofilm formation (both strong and weak) strongly correlated with pslA gene carriage. Biofilm formation also correlated with MBL and AmpC β-lactamase production. More importantly, multiple-β-lactamase phenotype was associated with formation of strong biofilms.
A 16 &#x00D7; 16 multi-electrode array with integrated CMOS amplifiers for neural signal recording (2011)

This paper reports on an active 16 × 16, low-noise, low-power, multi-electrode array (MEA) neural sensor chip designed in IBM BiCMOS 8HP 0.13 μm process with a total gain of 60 dB per input, a 20 kHz sample rate, an input-referred noise of 5.3 μVrms over 10 Hz to 10 kHz and a total power dissipation of 15.8 mW, or 61.7 μW per channel. A C4 microelectrode is attached to the input of each amplifier forming a multi-electrode array with 200 μm pitch for extracellular neural recording.
Widefield Imaging and Point Spectroscopy for Noninvasive Diagnosis of Oral Precancer (2010)

The diagnostic potential and clinical utility of widefield imaging and point spectroscopy are examined based on measurements of patients with precancerous or cancerous oral lesions. Portable clinical instruments for widefield imaging and spectroscopy are described.
Laboratory and roofing exposures of cellular plastic insulation to verify a model of aging (1994)

The Montreal Protocol made industry alter the technology for manufacturing cellular plastics by eliminating the use of chlorofluorocarbons as blowing agents. This has resulted in new foam products with alternative blowing agents. Now, the industry faces a challenge to ensure good, long-term performance of these products. To this end, the Society of the Plastics Industry of Canada and the National Research Council Canada have taken up the challenge to develop appropriate evaluation methods. A test methodology for evaluating long-term thermal performance has already been developed and applied to sprayed polyurethane foams. This methodology includes measurements of material characteristics such as nitrogen diffusion coefficient, extinction coefficient for IR radiation, concentration of blowing agent, foam morphology and aging curves measured on thin slices cut from different locations in the foam (surfaces and cores). Information from these tests serve as the input to an extrapolative model of heat and mass transfer (model of aging) that can predict the long-term performance of foam insulation. Currently, this methodology for evaluating long-term performance is being applied to board-stock products such as extruded polystyrenes, polyurethanes, polyisocyanurates, and phenolics. Several Canadian and US manufacturers have produced materials which are being exposed in laboratory as well as on a test roof. Thermal properties of these specimens are being continuously monitored and the data gathered from these two exposures are used to verify the applicability of the model. This paper reports interim findings from the SPI/NRC investigation. Even though the investigation is not yet completed, it appears that the extrapolative aging model may become an important tool for evaluating long-term thermal resistance (LTTR) of cellular plastics.
A modified enzyme-linked immunosorbent assay for detection of cutaneous antibody against Ichthyophthirius multifiliis (2003)

Fish surviving Ichthyophthirius multifiliis (Ich) infection develop an immune response against this parasite. Enzyme-linked immunosorbent assays (ELISA) currently used to determine the cutaneous anti-Ich antibody response lack sensitivity. This study modified and optimized an ELISA assay for detection of low levels of cutaneous antibody against Ich in channel catfish and in water. The modified ELISA used tetramethylbenzidine (TMB) as substrate for horseradish peroxidase (HRP). The modified ELISA required less theront coating protein, shorter coating time for the plate, and a lower concentration of conjugate. The optical density using modified ELISA was approximately 4 fold higher than the ELISA using o-phenylenediamine (OPD) when measuring anti-Ich antibody in the culture fluid from immune skin. The modified ELISA was able to detect the antibody in water samples collected from tanks with Ich immune fish. The ELISA by using OPD failed to detect the antibody even though the water samples were concentrated 40 fold. The results of this study showed that the modified ELISA using TMB as a HRP substrate was a sensitive, quantitative and time saving assay to measure low concentrations of anti-Ich cutaneous antibody excreted from skin of channel catfish immune to Ich.
Linear Stages for Next Generation Precision Motion Systems (2019)

This paper presents the design, fabrication, and testing of two linear stages for next generation precision mechatronic motion systems such as in semiconductor photolithography machines. We have designed a new linear iron-core permanent-magnet motor that can simultaneously achieve high force and low noise, providing a promising candidate for actuating systems for high-throughput and high-precision servo applications. The vibro-acoustic noise mechanism of linear iron-core synchronous motors and a new magnetic design approach to mitigate such noise issue are presented in this paper, along with the experimental validation of significant higher-force and lower-noise performance as compared to a conventional linear iron-core motor. In this paper, we also present another type of novel linear stage for in-vacuum transportation tasks in precision manufacturing systems. This new linear stage system is driven by a hysteresis motor and magnetically-levitated with two-degrees-of-freedom (DOF) active bearing controls and three-DOF passive magnetic bearings. This paper discusses the design, operating principles, and experimental results of this magnetically levitated linear motor system.
Synthesis of a Biotin-Labeled Quorum-Sensing Molecule: Towards a General Method for Target Identification (2008)

The synthesis of bacterial quorum-sensing regulator N-(3-oxohexanoyl)-l-homoserine lactone (OHHL) and biotin-tagged OHHL is reported. The latter will be applied to developing a general method to address the 'target identification problem' in chemical genetics.
Nearshore Canyon Experiment: Analysis (2005)

Abstract : The long-term goals are to understand the transformation of surface gravity waves propagating across the nearshore to the beach, the corresponding wave-driven circulation, and the associated evolution of surfzone morphology. The objective of the Nearshore Canyon Experiment (NCEX) is to understand the effect of complex continental-shelf bathymetry on surface gravity waves and on the breaking-wave-driven circulation onshore of the irregular bathymetry. Primary objectives this year were quality control processing of all the data in anticipation of public release on 1 January 2006, and analysis of infragravity wave reflections and bathymetric changes. Additional objectives of our research are to test hypotheses for nearshore waves, currents, and morphological change with previously obtained observations.
Analysis of Oxide Dispersion during Solidification in Ti,Zr-deoxidized Steels. (1992)

The control of oxide dispersion is one of the most important factors in the newly explored field of study "oxides metallurgy in steels," utilizing fine oxide particles as heterogeneous nucleation sites for various precipitates.
Remaillage semi-régulier pour les maillages surfaciques triangulaires : un état de l'art (2010)

National audience
SULF1/SULF2 reactivation during liver damage and tumour growth (2016)

Both SULF1 and SULF2 enzymes are undetectable in normal adult liver tissue despite their high level expression during foetal development. Most hepatocellular carcinomas unlike the normal adult liver, however, express variable levels of these enzymes with a small proportion not expressing either SULF1 or SULF2. SULF1 expression, however, is not restricted to only foetal and tumour tissues but is also abundant in liver tissues undergoing injury-induced tissue regeneration as we observed during fatty liver degeneration, chronic hepatitis and cirrhosis. Unlike SULF1, the level of SULF2 activation during injury-induced regeneration, however, is much lower when compared to foetal or tumour growth. Although a small fraction of liver tumours and some liver tumour cell lines can grow in the absence of Sulf1 and/or Sulf2, the in vitro overexpression of these genes further confirms their growth-promoting effect while transient reduction in their levels by neutralisation antibodies reduces growth. Hedgehog signalling appeared to regulate the growth of both Hep3B and PRF5 cell lines since cyclopamine demonstrated a marked inhibitory effect while sonic hedgehog (SHH) overexpression promoted growth. All Sulf isoforms promoted SHH-induced growth although the level of increase in PRF5 cell line was higher with both Sulf2 variants than Sulf1. In addition to promoting growth, the Sulf variants, particularly the shorter Sulf2 variant, markedly promoted PRF5 cell migration in a scratch assay. The SULF1/SULF2 activation thus does not only promote regulated foetal growth and injury-induced liver regeneration but also dysregulated tumour growth.
An Attack with Sarin Nerve Gas on the Tokyo Subway System and Its Effects on Victims (1999)

On the morning of March 20, 1995, the Tokyo subway system was attacked with nerve gas. Liquid, in plastic bags, left on the subway cars was analyzed and sarin, hexane, and N,N-diethylaniline were detected as the main components. The health effects of victims were studied through questionnaire and hospital records. Plasma Cholinesterase levels were used as exposure indicators. Muscarine-like symptoms appeared generally and could be used as early warning signs. Nicotine-like symptoms and effects on central nervous system appeared in more severely exposed cases suggesting that they can be used as severity indicators. Muscarine-like effects to the eye and respiratory system must be induced by the direct contact of sarin gas to mucous membranes. On the other hand, nicotine-like effects are caused by a systemic exposure to sarin.
v‐Triazolines. Part XIX. Thiocino[4,5‐d]‐1,2,3‐triazole and thiocino[4,5‐d]isoxazole derivatives (1984)

Abstract 5‐Amino‐2,3,6,7‐tetrahydrothiocines were reacted with arylazides yielding 1‐aryl‐9a‐amino‐1,3a,4,5,7,8,9,9a‐octahydrothiocino[4,5‐ d ]‐1,2,3‐triazoles which could be deaminated to 1‐aryl‐1,4,5,7,8,9‐hexahydrothiocino‐[4,5‐ d ]‐1,2,3‐triazoles. Similarly, the above enamines yielded, with nitrile oxides, 3‐aryl‐9a‐amino‐3a,4,5,8,9,9a‐hexahydrothiocino[4,5‐ d ]isoxazoles which were transformed with acids into 3‐aril‐4,5,8,9‐tetrahydrothiocino‐[4,5‐ d ]isoxazoles.
REFINEMENTS IN MANAGING MATERNAL WEIGHT ADJUSTMENT FOR INTERPRETING PRENATAL SCREENING RESULTS (1996)

This study examines the relationship between maternal weight and serum levels of alpha-fetoprotein, unconjugated oestriol, and human chorionic gonadotropin in a population of 47,585 women being provided with prenatal screening for Down's syndrome and open neural tube defects. The study population contains sufficient numbers of women at the extremes of weight to allow the determination that a reciprocal-linear equation more accurately describes the weight relationship for two of the three analytes than the currently used log-linear equations. The reciprocal-linear equations, while more appropriate, provide only a minimal advantage over the log-linear equations. A more important finding is that published weight equations may not be optimal for some screening programmes, due to differences in the mean weight of the populations being tested. Screening programmes are encouraged to calculate their own weight correction formulae, based on data from their own population, and to monitor the mean maternal weight to detect when modifications in the weight correction formulae might be indicated.
Holographic surface crystallography Substrate as reference (2003)

This chapter contains sections titled: Introduction Surface crystallography as a structure completion problem Maximum entropy algorithm for surface crystallography Discussion and conclusions
In vitro and in vivo antibacterial activities of cranberry press cake extracts alone or in combination with β-lactams against Staphylococcus aureus (2013)

The cranberry fraction FC111 affects PG synthesis of S. aureus and acts in synergy with β-lactam antibiotics. Such a fraction easily obtained from poorly exploited press-cake residues, may find interesting applications in the agri-food sector and help reduce antibiotic usage in animal food production.
Oviposition-Deterring Pheromone inAnastrepha suspensa1 (1977)

Journal Article Oviposition-Deterring Pheromone in Anastrepha suspensa Get access Ronald J. Prokopy, Ronald J. Prokopy 3 Dept. of Entomology, Univ. of Massachusetts, Amherst 01003 Search for other works by this author on: Oxford Academic PubMed Google Scholar P. D. Greany, P. D. Greany 4 Insect Attractants, Behavior and Basic Biology Research Laboratory, USDA, ARS, Gainesville, FL 32604 Search for other works by this author on: Oxford Academic PubMed Google Scholar D. L. Chambers D. L. Chambers 4 Insect Attractants, Behavior and Basic Biology Research Laboratory, USDA, ARS, Gainesville, FL 32604 Search for other works by this author on: Oxford Academic PubMed Google Scholar Environmental Entomology, Volume 6, Issue 3, 1 June 1977, Pages 463–465, https://doi.org/10.1093/ee/6.3.463 Published: 01 June 1977 Article history Received: 21 January 1977 Published: 01 June 1977
CpaA Is a Glycan-Specific Adamalysin-like Protease Secreted by Acinetobacter baumannii That Inactivates Coagulation Factor XII (2018)

Antibiotic-resistant <i>Acinetobacter baumannii</i> is increasingly recognized as a cause of difficult-to-treat nosocomial infections, including pneumonia, wound infections, and bacteremia. Previous studies have demonstrated that the metalloprotease CpaA contributes to virulence and prolongs clotting time when added to human plasma as measured by the activated partial thromboplastin time (aPTT) assay. Here, we show that CpaA interferes with the intrinsic coagulation pathway, also called the contact activation system, in human as well as murine plasma, but has no discernible effect on the extrinsic pathway. By utilizing a modified aPTT assay, we demonstrate that coagulation factor XII (fXII) is a target of CpaA. In addition, we map the cleavage by CpaA to two positions, 279-280 and 308-309, within the highly glycosylated proline-rich region of human fXII, and show that cleavage at the 308-309 site is responsible for inactivation of fXII. At both sites, cleavage occurs between proline and an O-linked glycosylated threonine, and deglycosylation of fXII prevents cleavage by CpaA. Consistent with this, mutant fXII (fXII-Thr309Lys) from patients with hereditary angioedema type III (HAEIII) is protected from CpaA inactivation. This raises the possibility that individuals with HAEIII who harbor this mutation may be partially protected from <i>A. baumannii</i> infection if CpaA contributes to human disease. By inactivating fXII, CpaA may attenuate important antimicrobial defense mechanisms such as intravascular thrombus formation, thus allowing <i>A. baumannii</i> to disseminate.<b>IMPORTANCE</b> Ventilator-associated pneumonia and catheter-related bacteremia are the most common and severe infections caused by <i>Acinetobacter baumannii</i> Besides the capsule, lipopolysaccharides, and the outer membrane porin OmpA, little is known about the contribution of secreted proteins to <i>A. baumannii</i> survival <i>in vivo</i> Here we focus on CpaA, a potentially recently acquired virulence factor that inhibits blood coagulation <i>in vitro</i> We identify coagulation factor XII as a target of CpaA, map the cleavage sites, and show that glycosylation is a prerequisite for CpaA-mediated inactivation of factor XII. We propose adding CpaA to a small, but growing list of bacterial proteases that are specific for highly glycosylated components of the host defense system.