gebhart/patrepeval huggingface dataset:
Detection of secretory immunoglobulin A (SIgA) in saliva of ventilated and non-ventilated preterm neonates. (1999)

The very young preterm neonate has multiple immune deficiencies which may increase his or her vulnerability to infection. Secretory Immunoglobulin A (SIgA) plays an important role in the protection of epithelial surfaces exposed to the external environment; nevertheless controversy exists with regards to the ontogeny of SIgA in newborns and especially the preterm neonate. The objective was to investigate if SIgA could be detected in the saliva of very/extremely low birthweight neonates (V/ELBW). A total of 707 samples which were collected twice daily (morning and afternoon) for three consecutive days were obtained from sixty-eight preterm neonates (mean gestational age 28 weeks; conceptional age ranged from 25-35 weeks). A repeated measures design was used. Total concentration of SIgA was determined from unstimulated saliva by an Enzyme Linked Immunosorbant Assay technique. Results indicated that SIgA was detectable in the early postnatal period in the saliva of both ventilated preterms who were receiving intravenous total parenteral nutrition (TPN) and non-ventilated preterms. A 3-way repeated measures Analysis of Variance (ANOVA) showed no significant effect from 'before' and 'after' samples during a period of spontaneous activity, time and day of sampling. A significant effect of mode of nutrition was found; neonates who were receiving expressed breast milk had significantly higher concentrations of SIgA than those infants receiving TPN (df=3, F=14.27, p<0.0001). These results have implications for the care of the preterm neonate in intensive care.
Mitochondrial Cholesterol Metabolites in a Bile Acid Synthetic Pathway Drive Nonalcoholic Fatty Liver Disease: A Revised “Two-Hit” Hypothesis (2023)

The rising prevalence of nonalcoholic fatty liver disease (NAFLD)-related cirrhosis highlights the need for a better understanding of the molecular mechanisms responsible for driving the transition of hepatic steatosis (fatty liver; NAFL) to steatohepatitis (NASH) and fibrosis/cirrhosis. Obesity-related insulin resistance (IR) is a well-known hallmark of early NAFLD progression, yet the mechanism linking aberrant insulin signaling to hepatocyte inflammation has remained unclear. Recently, as a function of more distinctly defining the regulation of mechanistic pathways, hepatocyte toxicity as mediated by hepatic free cholesterol and its metabolites has emerged as fundamental to the subsequent necroinflammation/fibrosis characteristics of NASH. More specifically, aberrant hepatocyte insulin signaling, as found with IR, leads to dysregulation in bile acid biosynthetic pathways with the subsequent intracellular accumulation of mitochondrial CYP27A1-derived cholesterol metabolites, (<i>25R</i>)26-hydroxycholesterol and 3β-Hydroxy-5-cholesten-(<i>25R</i>)26-oic acid, which appear to be responsible for driving hepatocyte toxicity. These findings bring forth a "two-hit" interpretation as to how NAFL progresses to NAFLD: abnormal hepatocyte insulin signaling, as occurs with IR, develops as a "first hit" that sequentially drives the accumulation of toxic CYP27A1-driven cholesterol metabolites as the "second hit". In the following review, we examine the mechanistic pathway by which mitochondria-derived cholesterol metabolites drive the development of NASH. Insights into mechanistic approaches for effective NASH intervention are provided.
Differential Localization of Complement Component 3 within the Capsular Matrix of<i>Cryptococcus neoformans</i> (2006)

The polysaccharide capsule of Cryptococcus neoformans is a powerful activator of the complement system. The goal of the present study was to assess serum and cellular variables that influence the sites for C3 binding within the capsular matrix. Confocal microscopy using fluorophore-labeled polyclonal anti-C3 and anticapsular monoclonal antibodies and rosetting of fluorescent microspheres coated with anti-C3 were used to identify sites of C3 binding relative to the capsular edge. The results showed that the source of serum was a major variable influencing localization of C3. C3 bound at or very near the capsular edge in the case of human serum. C3 deposition was further from the capsule edge with guinea pig and rat sera; in the case of mouse serum, there was no binding of C3 in the outer region of the capsule. Addition of human C3 to mouse serum led to deposition of the C3 at the capsular edge, indicating that distinct properties of mouse and human C3 account for the differential localization of C3. Finally, the density of the capsular matrix was an important variable in determining sites for C3 deposition. Yeast cells with a high concentration of polysaccharide near the capsule edge supported deposition of mouse C3 at or near the capsular edge, whereas cells with a low matrix density showed deposition well beneath the edge. Taken together, these results indicate that the spatial deposition of C3 within the capsular matrix is a complex process that is influenced by the serum source and the density of the capsular matrix.
What Immunological Defects Predispose to Non-tuberculosis Mycobacterial Infections? (2018)

Nontuberculous mycobacteria (NTM) are categorized as one of the large and diverse groups of environmental organisms which are abundant in water and soil. NTM cause a variety of diseases in humans that mainly affect the lung. A predisposition to pulmonary NTM is evident in patients with parenchymal structural diseases including bronchiectasis, emphysema, tuberculosis (TB), cystic fibrosis (CF), rheumatologic lung diseases and other chronic diseases with pulmonary manifestations. Lung infections are not the only consequences of being infected by NTM as they can also infect skin and soft tissue and may also cause lymphadenitis (predominantly in young children) and disseminated disease in human immunodeficiency virus (HIV)-infected patients or those with severely compromised immune system. NTM are also found in many subjects without any known risk factors. Although the recent advances in imaging and microbiologic techniques including gene sequencing have provided a better view of the problems caused by NTM and has enhanced our understanding of the disease, many uncertainties regarding the immunologic response to NTM still exist. There is also limited data on the immunogenetics of NTM infection. Here, the authors reviewed the main immunogenetic defects as well as other immunological conditions which are associated with an increased the risk of NTM infections.
Communication: Saturated CO2 absorption near 1.6 <i>μ</i>m for kilohertz-accuracy transition frequencies (2015)

Doppler-free saturated-absorption Lamb dips were measured on weak rovibrational lines of (12)C(16)O2 between 6189 and 6215 cm(-1) at sub-Pa pressures using optical feedback frequency stabilized cavity ring-down spectroscopy. By referencing the laser source to an optical frequency comb, transition frequencies for ten lines of the 30013←00001 band P-branch and two lines of the 31113←01101 hot band R-branch were determined with an accuracy of a few parts in 10(11). Involving rotational quantum numbers up to 42, the data were used for improving the upper level spectroscopic constants. These results provide a highly accurate reference frequency grid over the spectral interval from 1599 to 1616 nm.
Photogenerated States in a Highly Correlated Electron System (2003)

We study the properties of photogenerated states of strongly correlated electron systems (SCES) with using the 'excited-state' t-J Hamiltonian. The lowest energy state in the two-photon excited manifold is calculated for the 20 site two-dimensional square lattice at half filling. The analysis of the off-diagonal order suggests that the d-wave superconducting state is photogenerated. We propose an optical method using the virtual transition to avoid the temperature growth arising from the optical excitation. We also investigate the transient behavior of the photoexcited state in SCES, which distinctively reflects the spin-charge separation in SCES.
Phenotypic characteristics of peripheral immune cells of Myalgic encephalomyelitis/chronic fatigue syndrome via transmission electron microscopy: A pilot study (2022)

Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is a complex chronic multi-systemic disease characterized by extreme fatigue that is not improved by rest, and worsens after exertion, whether physical or mental. Previous studies have shown ME/CFS-associated alterations in the immune system and mitochondria. We used transmission electron microscopy (TEM) to investigate the morphology and ultrastructure of unstimulated and stimulated ME/CFS immune cells and their intracellular organelles, including mitochondria. PBMCs from four participants were studied: a pair of identical twins discordant for moderate ME/CFS, as well as two age- and gender- matched unrelated subjects-one with an extremely severe form of ME/CFS and the other healthy. TEM analysis of CD3/CD28-stimulated T cells suggested a significant increase in the levels of apoptotic and necrotic cell death in T cells from ME/CFS patients (over 2-fold). Stimulated Tcells of ME/CFS patients also had higher numbers of swollen mitochondria. We also found a large increase in intracellular giant lipid droplet-like organelles in the stimulated PBMCs from the extremely severe ME/CFS patient potentially indicative of a lipid storage disorder. Lastly, we observed a slight increase in platelet aggregation in stimulated cells, suggestive of a possible role of platelet activity in ME/CFS pathophysiology and disease severity. These results indicate extensive morphological alterations in the cellular and mitochondrial phenotypes of ME/CFS patients' immune cells and suggest new insights into ME/CFS biology.
Lexical Semantic Recognition (2021)

In lexical semantics, full-sentence segmentation and segment labeling of various phenomena are generally treated separately, despite their interdependence. We hypothesize that a unified lexical semantic recognition task is an effective way to encapsulate previously disparate styles of annotation, including multiword expression identification/ classification and supersense tagging. Using the STREUSLE corpus, we train a neural CRF sequence tagger and evaluate its performance along various axes of annotation. As the label set generalizes that of previous tasks (PARSEME, DiMSUM), we additionally evaluate how well the model generalizes to those test sets, finding that it approaches or surpasses existing models despite training only on STREUSLE. Our work also establishes baseline models and evaluation metrics for integrated and accurate modeling of lexical semantics, facilitating future work in this area.
Use of glucagon in the treatment of quinidine toxicity in the heart (1977)

The effects of glucagon on quinidine-induced cardiac toxicity were studied in open-chest anaesthetised dogs. Glucagon along increased the heart rate and contractility; and decreased the blood pressure, duration of P-R and Q-T interval, and QRS complex. Quinidine produced dose-dependent decreases in the heart rate, blood pressure, and contractility, and lengthening of the duration of P-R and Q-T interval, and QRS complex. Glucagon abolished the changes produced by quinidine within two minutes, and appears to be a drug of choice in the treatment of quinidine toxicity in the heart.
Kidney Tumor Biomarkers Revealed by Simultaneous Multiple Matrix Metabolomics Analysis (2012)

Metabolomics is increasingly being used in cancer biology for biomarker discovery and identification of potential novel therapeutic targets. However, a systematic metabolomics study of multiple biofluids to determine their interrelationships and to describe their use as tumor proxies is lacking. Using a mouse xenograft model of kidney cancer, characterized by subcapsular implantation of Caki-1 clear cell human kidney cancer cells, we examined tissue, serum, and urine all obtained simultaneously at baseline (urine) and at, or close to, animal sacrifice (urine, tissue, and plasma). Uniform metabolomics analysis of all three "matrices" was accomplished using gas chromatography- and liquid chromatography-mass spectrometry. Of all the metabolites identified (267 in tissue, 246 in serum, and 267 in urine), 89 were detected in all 3 matrices, and the majority was altered in the same direction. Heat maps of individual metabolites showed that alterations in serum were more closely related to tissue than was urine. Two metabolites, cinnamoylglycine and nicotinamide, were concordantly and significantly (when corrected for multiple testing) altered in tissue and serum, and cysteine-glutathione disulfide showed the highest change (232.4-fold in tissue) of any metabolite. On the basis of these and other considerations, three pathways were chosen for biologic validation of the metabolomic data, resulting in potential therapeutic target identification. These data show that serum metabolomics analysis is a more accurate proxy for tissue changes than urine and that tryptophan degradation (yielding anti-inflammatory metabolites) is highly represented in renal cell carcinoma, and support the concept that PPAR-α antagonism may be a potential therapeutic approach for this disease.
Hamiltonian Structure of the Higher-Order Corrections to the Korteweg-de Vries Equation (1985)

Higher-order corrections to the Korteweg-de Vries equation are examined by Hamiltonian methods. Starting from the underlying Hamiltonian systems (e.g., the two-fluid equations in the case of ion-acoustic waves), one finds that the corrected equations have the same Poisson bracket as the Korteweg-de Vries equation at every order. One also finds that the underlying equations become nonlocal at sufficiently high order.
Selection Strategies for Binaural and Monaural Cochlear Implantation (2007)

Our general recommendation is to provide the patient with the best opportunity for binaural hearing. Since the guidelines put forth in this article are theoretically based, future efforts should be aimed at examining the validity of these guidelines.
A method for evaluation of regional elasticity of arterial wall with non-uniform wall thickness by measurement of its change in thickness during an entire heartbeat (2002)

The average elastic modulus of the artery has been evaluated previously by measurement of the pulse wave velocity and the change in arterial diameter during one heartbeat. On the other hand, we aim to measure the regional elastic modulus of the arterial wall by measurement of its small change in thickness during an entire heartbeat. In this paper, a method is proposed for measurement of the regional elastic modulus even if the artery has non-uniform wall thickness such as an atherosclerotic plaque. In a basic experiment, the proposed method is validated using a silicone rubber tube as a model of the artery. In in vivo experiments, the spatial distribution of the elastic modulus is measured around the human carotid atherosclerotic plaque. From this result, the difference in the regional elasticity around the atherosclerotic plaque can be observed and the soft region is found in the plaque. Such information seems to be useful for diagnosis whether the plaque easily ruptures or not.
Rare case of low-grade extranodal NK/T-cell lymphoma, nasal type, arising in the setting of chronic rhinosinusitis and harboring a novel N-terminal KIT mutation (2018)

Our case of ENKTCL-NT is unusual due to (1) an indolent clinical course (2) low-grade histopathologic features including a low proliferative index (3) lack of CD56 expression and (4) a novel KIT mutation. This case raises awareness of the existence of a subset of cases of ENKTCL-NT that can potentially be misdiagnosed as a reactive process, particularly in patients with recurrent chronic rhinosinusitis.
Engineering a light–matter strong coupling regime in perovskite-based plasmonic metasurface: quasi-bound state in the continuum and exceptional points (2020)

We present theoretically the formation of exciton–photon polaritons and exciton-surface plasmon polaritons in a perovskite-based subwavelength lattice on the metallic plane. It is shown that the later polaritons will be achieved as the perovskite layer is ultra-thin ( <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline" id="m1"> <mml:mrow> <mml:mo form="prefix">&lt;</mml:mo> <mml:mn>50</mml:mn> <mml:mtext> </mml:mtext> <mml:mi>nm</mml:mi> </mml:mrow> </mml:math> ), while the co-existence of both polaritons will dominate, as the thickness of the perovskite metasurface approaches wavelength-scale. In the two cases, the lower polaritonic branches consist of dark and bright modes corresponding to infinite and finite radiative quality factors, respectively. Another salient property in this work is that it allows one to obtain exceptional points (EPs) in momentum space with a four-fold enhancement of local density of states through engineering the perovskite metasurface. Our findings show that the perovskite metasurface is an attractive and rich platform to make polaritonic devices, even with the presence of a lossy metallic layer.
Biosynthesis of abnormal collagens with amino acid analogues. II. Inability of cartilage cells to extrude collagen polypeptides containing L-azetidine-2-carboxylic acid or cis-4-fluoro-L-proline. (1969)

Abstract Autoradiographic studies demonstrated that the abnormal collagen polypeptides synthesized in the presence of l -azetidine-2-carboxylic acid or cis-4-fluoro- l -proline are retained intracellularly, and they are not extruded into the extracellular matrix. The proline analogues did not in themselves prevent the extrusion of previously accumulated normal protocollagen after the protocollagen was hydroxylated to collagen, and the results indicated that the failure to extrude the abnormal collagens is directly related to the incorporation of the proline analogues into the polypeptide chains. In exploring the reasons why the collagens containing either analogue are not extruded, it was found that the abnormal collagens not only have a decreased content of hydroxyproline, but also have a decreased content of hydroxylysine and glycosylated hydroxylysine.
A high power density DC-DC converter for distributed PV architectures (2012)

In order to maximize the solar energy harvesting capabilities, power converters for photovoltaic (PV) systems have to be designed for high efficiency, accurate maximum power point tracking (MPPT) and voltage/current performance. When many converters are used in distributed PV systems, power density also becomes an important factor since it allows for simpler system integration. In this paper, a high power density string level MPPT DC-DC converter suitable for distributed medium to large scale PV installations is presented. A simple partial power processing topology implemented exclusively with silicon carbide devices provides high efficiency and high power density. A 3.5kW, 100 kHz converter is designed and tested to verify the proposed methods.
A Method for Prediction of Structure-borne Noise Radiated from Concrete Railway Viaducts (2011)

Prediction of structure-borne noise has been a significant issue for railway viaducts, since it causes an excessive degree of noise attributable to structural member vibration. A new method of flexural vibration analysis expanded to cover whole structure for the prediction of structure-borne noise has therefore been developed. After calculation and measurement of noise in the vicinity of a floor slab of a concrete viaduct constructed on a Shinkansen line, it was revealed that the proposed method can be used as a practical means for predicting structure-borne noise.
AlphaScreen™ Kinase HTS Platforms (2004)

Kinases represents one of the most important family of targets in high throughput drug screening. Tyrosine kinases and serine/threonine kinases are known to play key roles in signal transduction as well as in cell growth and differentiation. Intense screening campaigns are underway in all major pharmaceuticals and large biotech companies to find kinase inhibitors for the treatment of inflammatory diseases, immunological disorders and cancer. The present contribution describes models that were developed to produce kinase assays amenable to HTS using AlphaScreen. Because of the flexibility allowed by AlphaScreen, kinase assays can be developed using direct or indirect approaches. Tyrosine kinase assays are usually performed with a direct format involving generic anti-phosphotyrosine antibodies while serine/threonine kinase assays are performed with an indirect format where specific antibodies are captured using protein A conjugated Acceptor beads. Streptavidin-coated Donor beads are used to capture either generic (ex. poly GT) or specific biotinylated substrates. Herein, are presented different methods to perform screening for inhibitors acting on the soluble beta-insulin receptor tyrosine kinase (IRKD), and on p38, a member of the MAP kinase family.
Direct Comparison of Inverted and Non-Inverted Growths of GaInP Solar Cells: Preprint (2008)

The inverted growth of III-V solar cells presents some specific challenges that are not present in regular, non-inverted growths. Because the highly doped top contact layer is grown first, followed by the lengthy high-temperature growth of the remainder of the structure, there is ample time for the dopants in the contact layer to diffuse away. This leads to an increase in the contact resistance to the top layer, and a corresponding drop in voltage. The diffusion of dopants in other layers is similarly altered with respect to the non-inverted configuration because of the change in growth sequence. We compare the dopant profiles of inverted and non-inverted structures by using secondary ion mass spectroscopy and correlate the results with the observed performance of the devices. We also describe a technique for growing a GaInAsN contact layer in the inverted configuration and show that it achieves a specific contact resistance comparable to what is normally observed in non-inverted cells.
Simulations of magnetic field gradients due to micro-magnets on a triple quantum dot circuit (2013)

To quantify the effects of local magnetic fields on triple quantum dots, the Heisenberg Hamiltonian has been diagonalized for three electrons coupled via the exchange interaction. In particular, we have investigated different geometries of micro-magnets located on top of the triple dot in order to optimize the field gradient characteristics. In this paper, we focus on two geometries which are candidates for an addressable EDSR triple quantum dot device.
Hybrid likelihood ratio bit-rate detectors for variable-gain multiple-access systems in unknown noise variance (2012)

The authors assume a linear equidistance antenna array as the receiver for a fixed frame-length multiple-access system, which employs variable-gain receiver power and repetition encoding. They propose a robust maximum a posteriori probability (MAP) blind bit-rate detector (BBRD). This detector considers the rate detection (RD) as a multi-hypothesis test and maximises the likelihood functions (LFs) to find the true bit-rate, whereas the complex amplitude of the received signal, the noise variance and the direction of arrival are unknown parameters. First, assuming that the location parameter is known and the information sequence are independent and uniformly distributed random variables, the authors propose a hybrid likelihood ratio test (HLRT). The proposed HLRT requires to solve a set of non-linear equations that have no closed-form solution. Thus, an iterative numerical algorithm is proposed. In addition, a quasi-HLR detector which has a significantly lower computational complexity is also proposed. In the case of unknown location parameter, the authors develop two quasi-HLR methods. They use fast Fourier transform and search to estimate the unknown location. In Q-HLRT-Method-I, the non-linear equation similar to the one in known location parameter is iteratively solved. In Q-HLRT-Method-II, a low complexity solution is proposed. Simulation examples evaluate and compare the performances of the proposed BBRDs.