gebhart/patrepeval huggingface dataset:
Regulation of CD95 in EBV infected B-Cells. (2004)

Abstract Expression of CD95 is regulated by various agents such as TNFa, IFNg, or Daunorubicine, able to induce the transcriptional factors NF-kB, STAT1 and p53 respectively. The CD95 promoter is known to harbour binding sites for these factors. These factors are modulated both in expression and activity during EBV infection of B-cells. EBV is known to induce CD95 expression. The objective of this work was to understand the contribution of p53, STAT1 and NF-kB in the regulation of CD95 expression by EBV. To control the activity of NF-kB, STAT1, p53 and LMP1, we have developed and used various episomal inducible vectors. One of the characteristics of these vectors is that the gene of interest is expressed from a bidirectional doxycycline regulatable promoter that allowing simultaneous expression of truncated NGF receptor, used as a surrogate marker of inducibility. We have subcloned the following cDNAs into these vectors: dominant negative IkBa, active (STAT1a) and dominant inactive natural isoform of STAT1 (STAT1b), p53, a dominant negative mutant of LMP1 (LMP1CT) and LMP1 wild type. After stable transfection of an LCL, induction of the cDNA of interest was performed with doxycycline for 24H. Positive cells for NGFR were purified using magnetic beads and were additionally treated with TNFa, IFNg or Fludarabine for 24H. To control the latency III program, we have used the EREB2-5 cell line harboring an estrogen-regulatable EBNA2 gene. The function of CD95 was studied by quantifying apoptosis induction after CD95 cross linking with a specific antibody. We found that induction of latency III program in EREB 2-5 cells was associated with an increase of both p53 and CD95 expression. Inhibition of LMP1 by LMP1CT decreased the expression of CD95. CD95 expression was hardly regulated by p53. Inhibition of both NF-kB and STAT1 decreased CD95 expression. Only IFNg was able to increase expression of CD95. Finally, we show that induction of CD95 expression by EBV render the infected B-cell sensitive to the induction of CD95-mediated apoptosis. Our results suggest that the latencyc III program of EBV sensitize the infected B-cells to CD95-mediated apoptosis via STAT1 and NF-kB activated by LMP1. In the view of the virus/host equilibrium, this process may render EBV-infected B-cells in latency III susceptible to elimination by the immune system.
Para-Hisian Pacing for a Pediatric Patient with a Congenitally Corrected Transposition of the Great Arteries (SLL) (2009)

We report a pediatric patient with a congenitally corrected transposition of the great arteries (ccTGA)(SLL) in which permanent para-Hisian pacing (PPHP) could improve dyssynchrony-associated systemic ventricular (SV) dysfunction resulting from permanent morphologic left ventricular pacing for complete atrioventricular block. Since, in patients with ccTGA(SLL), an elongated His-bundle runs medially toward the upper septum to the site of the fibrous continuity between the right-sided mitral valve and pulmonary artery, the His-bundle may easily be captured by a pacing lead, unlike in normal hearts. Thus, PPHP may be an effective therapeutic strategy for the treatment of dyssynchrony-associated SV dysfunction associated with ccTGA (SLL).
Fabrication of Sensitive Potentiometric Cholesterol Biosensor Based on Co3O4 Interconnected Nanowires (2014)

Abstract Highly sensitive, selective, reliable and inexpensive cholesterol biosensors are highly demanded for the routine monitoring of cholesterol molecules in order to prevent heart failure incidents. In this study, Co 3 O 4 nanostructures are synthesized using polyvinyl pyrrolidone surfactant as growth template by a low temperature aqueous chemical growth method. The morphology of nanostructures was investigated by scanning electron microscopy and X‐ray diffraction techniques. The nanostructures exhibit interconnected nanowires like morphology with interconnected network of nanowires. The nanostructures of Co 3 O 4 are polycrystalline. The cholesterol oxidase was physically adsorbed on the interconnected nanowires of Co 3 O 4 for the chemical sensing of cholesterol molecules. The sensor device detected a wide range of cholesterol from 1×10 −7 M to 1×10 −3 M concentrations with sensitivity of −94.031 mV/decade. A detection limit of 0.035×10 −7 M cholesterol concentration was observed and a fast response time of 10 s was also noticed. The fabricated device is highly stable, selective, sensitive, reproducible and repeatable. All the collected information about presented cholesterol biosensor indicates its potential application for the monitoring of cholesterol concentrations from human blood serum and real‐life samples.
Ultrahigh-Temperature Oxidation of 4H-SiC(0001) and an Impact of Cooling Process on SiO<sub>2</sub>/SiC Interface Properties (2017)

This paper reviews our recent work on ultrahigh-temperature oxidation of 4H-SiC(0001) surfaces. Our rapid thermal oxidation experiments demonstrated the reaction-limited linear growth at temperatures ranging from 1200 to 1600°C. The Arrhenius plot of linear growth rate of thermal oxidation can be fitted by a linear line, and the activation energy of oxide growth in dry O 2 oxidation was estimated to be 2.9 eV. We also found that unintentional oxidation during the cooling down process severely degrades SiO 2 /SiC interface properties, resulting in positive flatband voltage shift (V FB ) and hysteresis in capacitance-voltage (C-V) characteristics regardless of oxidation temperature. By effectively suppressing oxide growth during the cooling process, we have clarified that SiO 2 /SiC interface properties depend on oxidation temperature and the lowest interface state density was obtained for the oxide formed at 1450°C.
Pharmacological Inhibition of Signaling through the Activin Receptor Type IIa Prevents Primary Tumor Growth and Skeletal Metastases in Mouse Models of Breast Cancer. (2009)

Abstract Breast cancer cells have a strong propensity to metastasize to bone, resulting in debilitating complications such as intractable bone pain, spinal compression, pathological fractures, or loss of mobility and function. Anti-resorptive agents, such as bisphosphonates, are commonly used to halt the loss of bone, but do not stimulate the formation of new bone. Previous data demonstrated that treatment with an activin antagonist, a soluble form of the extracellular domain of the activin receptor type IIA (ActRIIA) fused to a murine IgG-Fc fragment (RAP-011), can restore bone mass in ovariectomized mice with established bone loss and prevent bone loss in a murine model of multiple myeloma.The goal of the current studies was to establish the ability of RAP-011 to directly inhibit breast cancer cell proliferation, delay primary tumor growth and prevent skeletal metastases. Bioluminescent breast cancer cells (MCF-7-luc and MDA-MB-231-luc-D3H2LN) were administered orthotopically to establish a primary tumor model or by intracardiac injection to establish a metastatic breast cancer model. Both studies were performed using athymic nude mice that had been pretreated for 2 weeks with RAP-011 (10 mg/kg S.C. twice weekly) or vehicle (VEH).In vitro studies demonstrated that activin A stimulated proliferation of some tumor cell lines, while the addition of soluble ActRIIa blocked the stimulation. In the orthotopic models of breast cancer RAP-011 treated mice had significantly smaller primary tumors as early as 3 weeks post-inoculation. RAP-011 treated mice had tumors that remained significantly smaller for the duration of the 10 week study (-60%, p&amp;lt;0.02).In the model of metastatic breast cancer, RAP-011 treated mice displayed lower levels of hind limb, mandible and lung metastases compared to VEH-treated mice. RAP-011 treated mice had reduced tumor burden (-70%, p&amp;lt;0.001), fewer osteolytic lesions (-45%, p&amp;lt;0.05) and increased overall survival by 11 days compared to VEH-treated mice. DXA scanning of the mice revealed RAP-011 treated mice had a significant increase in bone mineral density compared to the VEH treated mice (+10%, p&amp;lt;0.05), reflecting the decreased levels of osteolytic metastases. Histological analysis of the femur and tibia confirmed increased levels of tumor growth and osteolytic lesions, as well as decreased levels of trabecular bone volume in VEH treated mice.These data support the role of Activin in the establishment and growth of tumors and that the use of a soluble ActRIIA receptor can prevent primary tumor growth and inhibit metastases in patients with breast cancer. Citation Information: Cancer Res 2009;69(24 Suppl):Abstract nr 5058.
Impaired Synaptic Function in the Microglial KARAP/DAP12-Deficient Mouse (2004)

Several proteins are expressed in both immune and nervous systems. However, their putative nonimmune functions in the brain remain poorly understood. KARAP/DAP12 is a transmembrane polypeptide associated with cell-surface receptors in hematopoeitic cells. Its mutation in humans induces Nasu-Hakola disease, characterized by presenile dementia and demyelinization. However, alteration of white matter occurs months after the onset of neuropsychiatric symptoms, suggesting that other neuronal alterations occur in the early phases of the disease. We hypothesized that KARAP/DAP12 may impact synaptic function. In mice deficient for KARAP/DAP12 function, long-term potentiation was enhanced and was partly NMDA receptor (NMDAR) independent. This effect was accompanied by changes in synaptic glutamate receptor content, as detected by the increased rectification of AMPA receptor EPSCs and increased sensitivity of NMDAR EPSCs to ifenprodil. Biochemical analysis of synaptic proteins confirmed these electrophysiological data. In mutants, the AMPA receptor GluR2 subunit expression was decreased only in the postsynaptic densities but not in the whole membrane fraction, demonstrating specific impairment of synaptic receptor accumulation. Alteration of the BNDF-tyrosine kinase receptor B (TrkB) signaling in the mutant was demonstrated by the dramatic decrease of synaptic TrkB with no change in other regulatory or scaffolding proteins. Finally, KARAP/DAP12 was detected only in microglia but not in neurons, astrocytes, or oligodendrocytes. KARAP/DAP12 may thus alter microglial physiology and subsequently synaptic function and plasticity through a novel microglia-neuron interaction.
Supplementary Data from Activation of <i>Notch</i> and <i>Myc</i> Signaling via B-cell–Restricted Depletion of <i>Dnmt3a</i> Generates a Consistent Murine Model of Chronic Lymphocytic Leukemia (2023)

&lt;p&gt;Supplementary Tables contain Supplementary Tables S1-17&lt;/p&gt;
ChemInform Abstract: Homochiral Fluoroorganic Compounds. Synthesis of the Two Enantiomers of (Z)‐3‐Fluoro‐4‐phenyl‐1‐(p‐tolylsulfonyl)but‐3‐en‐2‐ol Through Microbial Reduction. (1990)

Abstract The microbial reduction of the fluorobutenone (I) yields either the (S)‐ or (R)‐configurated fluorobutenols (II) in enantiomerically pure form.
Surface Treatments and Edible Coatings in Food Preservation (2020)

Fresh fruits and vegetables are susceptible to a variety of postharvest decay types that can be reduced by treatment with fungicides with and without a coating or “wax”. Edible coatings have been applied to a diverse array of whole fruits and vegetables since the 1930s and 1940s. Consumer interest in health, nutrition, and food safety combined with environmental concerns have renewed efforts in edible coating research. New research seeks to expand and improve coating technologies and materials to enhance food stability and quality. Paraffin oil, mineral oil, castor oil, rapeseed oil, acetylated monoglycerides, and vegetable oils have been used alone or in combination with other ingredients to coat food products. Paraffin, carnauba, beeswax, candelilla, and polyethylene waxes have been used to coat food products, alone or in combination with other ingredients. Terpene resin is obtained from polymerization of terpene hydrocarbons derived from wood and is approved as a direct food additive.
Data for semi-permanent cationic coating for protein separations (2020)

Protein separations and analyses are fundamental to fields of study that include biochemistry, biology, physiology, drug discovery, pharmaceuticals, as well as agricultural and food based industries. Here, we provide the data from a novel phospholipid-cetyltrimethylammonium bromide coating capable of separating cationic and anionic proteins with high efficiency. Capillary electrophoresis separations of protein standards were utilized to characterize the performance of the novel coating. Using capillary electrophoresis with UV absorbance detection a working pH range of 4-9 was identified, with reproducibility in time ≤1% relative standard deviation, and plate counts for proteins as high as 480,000 plates (lysozyme, pH 7). Further details and results from these data are available in the work reported by Crihfield et al. and can be accessed at https://doi.org/10.1016/j.chroma.2019.460397 [1].
Collective acceleration of ions by a relativistic electron cloud (1980)

We report the first results of experiments on collective acceleration of ions by a cloud of relativistic electrons produced on a thin foil as a result of injecting a high-current relativistic electron beam into a vacuum.
Campylobacter spp. in Icelandic poultry operations and human disease (2003)

We describe the observed relationship of campylobacter in poultry operations to human cases in a closed environment. During 1999 in Iceland, domestic cases of campylobacteriosis reached peak levels at 116/100,000 and in 2000 dropped to 33/100,000. Approximately 62% of broiler carcass rinses were contaminated with Campylobacter spp. in 1999. During 2000, only 15% of the broiler flocks tested Campylobacter spp. positive. In 2000, carcasses from flocks which tested positive on the farms at 4 weeks of age were subsequently frozen prior to distribution. We suggest that public education, enhanced on-farm biological security measures, carcass freezing and other unidentified factors, such as variations in weather, contributed to the large reduction in poultry-borne campylobacteriosis. There is no immediate basis for assigning credit to any specific intervention. We continue to seek additional information to understand the decline in campylobacteriosis and to create a risk assessment model for Campylobacter spp. transmission through this well defined system.
New glasses and their characterization for raman gain (2005)

There are two current methods for estimating the Raman gain properties of materials - measuring the spontaneous Raman spectrum and comparing it to that of fused silica, and fabricating a fiber and measuring the gain directly. We have developed a new apparatus for measuring directly the absolute value of the Raman gain spectrum in bulk materials whose thicknesses is only a few millimeters. This apparatus will be described and has proven valuable for rapid evaluation of materials. A table of Raman gain will be given for different glass families including tellurites, post-transitional heavy metals, and mixed cation glasses.
Low temperature Si-Si, SiO2-SiO2 covalent bonding structures with thin siloxane layer (2013)

We present new Si to Si, SiO2 to SiO2 bonding technologies for low temperature applications (&amp;lt;200°C). Direct bonding process between Si (or SiO2) substrates makes high bonding strength without contamination problems. However, high temperature over 1000°C is needed for the reliable Si to Si and SiO2 to SiO2 direct bonding processes. To reduce the bonding temperature, thin siloxane layer and low-powered oxygen plasma treatment was used in this study. We used dimethyl siloxane layer having siloxane chains (-Si-O-)n and methyl ends. Siloxane layer is able to be bonded strongly with Si-based substrates at low temperature (&amp;lt;200°C) when oxygen plasma is treated on it. Polymerized siloxane layer such as PDMS has much higher coefficient of thermal expansion (CTE) of 300ppm/K than Si of 2.6ppm/K. When the bonded structure is cooled or heated, the interfaces is possibly distorted and cracked by the high residual stress between siloxane layer and Si substrate. To solve these problems, we developed new fabrications of reducing the siloxane layer thickness to 3∼4nm, that is the monomer layer levels. Extremely thin thickness of siloxane layer prevented the problems of the CTE differences. The Si to Si bonding structure with siloxane layer showed strong adhesion properties in this study. The bonded body kept reliable bonding force when it was heated to high temperature (∼900°C). The feasible wafer-level bonding process was demonstrated. We investigated the siloxane layer thickness by TEM images. The bonding strength was confirmed by dicing test by 1mm and measured over 20MPa. We also expended this new development to SiO2 to SiO2 bonding structures. Low temperature bonding between non-Si substrates such as GaN was possible with thin siloxane layer when amorphous Si thin film was deposited on these substrates.
PERI-PROSTHETIC FRACTURES: REPAIR OR REPLACE (2018)

PrevalencePeriprosthetic fractures around a total knee are uncommon but not rare; various large database studies suggest 0.3–2.5%. Patients at highest risk are typically older patients and those wi...
Reducing Power Side-Channel Information Leakage of AES Engines Using Fully Integrated Inductive Voltage Regulator (2018)

This paper demonstrates an integrated inductive voltage regulator (IVR) for improving power side-channel-attack (PSCA) resistance of 128-bit Advanced Encryption Standard (AES-128) engines. An inductive IVR is shown to transform the current signatures generated by an encryption engine. Furthermore, an all-digital circuit block, referred to as the loop-randomizer, is introduced to randomize the IVR transformations. A 130-nm test-chip with an inductive IVR with 11.6-nH inductance, 3.2-nF capacitance, and 125-MHz switching frequency is used to drive two different architectures of AES-128 engine: high performance and low power. The measurements demonstrate that the IVR with loop randomizer eliminates information leakage while incurring only 3% overhead in performance and 5% overhead in power over a baseline IVR-AES system. Moreover, while a key-byte can be extracted for the standalone high-performance and low-power AES (LP-AES) with only 5000 and 1000 measurements, respectively, the proposed IVR inhibits key extraction even with 500 000 measurements.
Expression of leukocyte adhesion molecules by endothelial cells seeded on various polymer surfaces (2001)

Although endothelial cell seeding in small-diameter vascular prostheses significantly improves graft survival, the detachment of adherent endothelial cells after the restoration of circulation remains one of the major obstacles. Because in vivo experiments indicate that leukocyte infiltration is involved in endothelial cell loss, we hypothesize that seeded endothelial cells become activated and express leukocyte adhesion molecules and cytokines because of an interaction with the underlying polymer surface. The aim of this study was to investigate the expression of the leukocyte adhesion molecules ICAM-1, VCAM-1, PECAM-1, and E-selectin by cultured human umbilical vein endothelial cells (HUVECs) and human adipose microvascular endothelial cells (HAMVECs). The cells were seeded on tissue culture poly(styrene) and the vascular graft materials Dacron and Teflon. The results of this study indicate that the expression of leukocyte adhesion molecules by cultured endothelial cells is mainly affected by the endothelial cell origin, that is, umbilical vein or adipose tissue. Expressions of both ICAM-1 and E-selectin by HUVECs and HAMVECs are characterized by the presence of two cell populations with distinct levels of expression. With respect to endothelial cell seeding in vascular prostheses, the increased expression of E-selectin by microvascular endothelial cells deserves further attention.
Histologic grades of inflammation in respiratory tract tissues of ferrets infected with three pandemic H1N1 viruses. (2015)

&lt;p&gt;Histologic grades of inflammation in respiratory tract tissues of ferrets infected with three pandemic H1N1 viruses.&lt;/p&gt;
Comprehensive genome-wide association study of different forms of hernia identifies more than 80 associated loci (2021)

Abstract Hernias are characterized by protrusion of an organ or tissue through its surrounding cavity and often require surgical repair. We identified 65,492 cases for five hernia types in the UK Biobank and performed genome-wide association study scans for these five types and two combined groups. The results showed associated variants in all scans. Inguinal hernia had the most associations and we conducted a replication study with 23,803 additional cases from four study groups giving 84 independently associated variants. Identified variants from all scans were collapsed into 81 independent loci. Further testing showed that 26 loci were associated with more than one hernia type, suggesting substantial overlap between the underlying genetic mechanisms. Pathway analysis identified several genes with a strong link to collagen and/or elastin ( ADAMTS6, ADAMTS16, ADAMTSL3, LOX, ELN ) in the vicinity of associated loci for inguinal hernia, which substantiates an essential role of connective tissue morphology.
Capacity bounds for networks of broadcast channels (2010)

This paper derives new outer bounds on the capacities of networks comprised of broadcast and point-to-point channels. The results are tight in some cases, and methods for bounding their error in general are discussed. The results given demonstrate the simplicity of generalizing network coding results to networks of noisy channels using the family of network equivalence tools. The approach taken is not inherently a cut-set approach and frequently yields tighter bounds than those achieved by traditional cut-sets.
Fast Edge-Aware Denoising by Approximated Patch Geodesic Paths (2014)

Patch-based denoising, while effective, requires expensive pairwise patch comparisons. We present a novel fast patch-based denoising technique based on patch geodesic paths (PatchGPs). PatchGPs treat image patches as nodes and patch differences as edge weights for computing the shortest (geodesic) paths. The distance defined by the PatchGP can then be used as a similarity metric for image denoising. We first show that, for natural images, PatchGPs can be approximated by minimum hop paths (MHPs) that correspond to Euclidean line paths connecting two patch nodes. The denoising kernel is constructed using patches along discretized MHP search directions. We apply a weight propagation scheme to robustly and efficiently compute the path distance for each MHP. Our technique handles noise at multiple scales by analyzing the noise distribution (through wavelet decomposition) at each scale. Experiments show that our approach maintains the high quality of patch-based denoising but is a few orders of magnitude faster. We also demonstrate how PatchGP can be used for fast Bayer pattern (raw) denoising and image detail enhancement.
Design Optimization of Turbocharger Compressor for High Pressure Turbocharged Diesel Engine (2004)

In recent years, diesel engines having clean emissions and low fuel consumption have been newly developed worldwide for the purpose of envi- ronmental protection and energy conservation. Tur- bochargers are playing an important role in these modern diesel engines in terms of improving perfor- mance, and the specific output power of these engines has increased with smaller engine size. High boost is therefore an essential requirement on the part of en- gine manufacturers, and turbochargers must now re- alize higher pressure ratios than ever before. This paper describes the optimization of the com- pressor performance for high pressure turbocharged diesel engines. The objective is to develop optimized compressors that realize a wider operating range, high efficiency and relatively robust performance with re- spect to changes in engine operating conditions in the high pressure region. At the same time, opti- mized compressors must maintain high performance and sufficient surge margin at low engine loads.