gebhart/patrepeval huggingface dataset:
Faculty Opinions recommendation of Hypoxic Induction of Vasorin Regulates Notch1 Turnover to Maintain Glioma Stem-like Cells. (2018)

Tumor hypoxia is associated with poor patient survival and is a characteristic of glioblastoma. Notch signaling is implicated in maintaining glioma stem-like cells (GSCs) within the hypoxic niche, although the molecular mechanisms linking hypoxia to Notch activation have not been clearly delineated. Here we show that Vasorin is a critical link between hypoxia and Notch signaling in GSCs. Vasorin is preferentially induced in GSCs by a HIF1/STAT3 co-activator complex and stabilizes Notch1 protein at the cell membrane. This interaction prevents Numb from binding Notch1, thereby rescuing it from Numb-mediated lysosomal degradation. Thus, Vasorin
A Study on the Performance of Multi-Channel Communication Protocol for Intelligent Connected Autonomous Driving System (2021)

Recently, the development of autonomous driving systems is gradually evolving into a new technology incorporating communication technology for vehicles. Previously, it was merely a warning service due to the limitations of communication technology, but recent developments in communication technology have led to research and development of large-capacity data transmission or vehicle guidance technology utilizing low latency. In this paper, we propose a multi-hop transmission protocol technology using multiple channels to improve the reliability and delay time of communication networks. Through the simulation, the proposed multi-channel algorithm and route routing metric were found to significantly improve performance as the number of data transfer hops increases.
Imaging with flat optics: metalenses or diffractive lenses? (2019)

Recently, there has been an explosion of interest in metalenses for imaging. The interest is primarily based on their subwavelength thicknesses. Diffractive gratings have been used as thin optical elements since the late 19th century. Here, we show that multilevel diffractive lenses (MDLs), when designed properly, can exceed the performance of metalenses. Furthermore, MDLs can be designed and fabricated with larger constituent features, making them accessible to low-cost, large-area volume manufacturing, which is generally challenging for metalenses. The support substrate will dominate overall thickness for all flat optics. Therefore, the advantage of a slight decrease in thickness (from ∼2λ to ∼λ/2) afforded by metalenses may not be useful. We further elaborate on the differences between these approaches and clarify that metalenses have unique advantages when manipulating the electromagnetic fields, rather than intensity.
Peripheral Inflammation Drives TLR2 and IL‐1R1 Mediated Neurodegeneration in Parkinson’s Disease (2020)

Current evidence suggests a causal role of inflammation in the pathogenesis of Parkinson’s Disease (PD). PD is a progressive neurodegenerative disorder that is associated with loss of dopaminergic neurons and the aberrant accumulation of alpha‐synuclein fibrils in Lewy bodies present in surviving dopaminergic neurons in the substantia nigra. Importantly, alpha‐synuclein fibrils can interact with toll‐like receptor 2 (TLR2) on both neurons and microglia to induce a neuroinflammatory response. Previous work has investigated the effects of pre‐existing inflammation on neurodegeneration. However, the effect of pre‐existing peripheral inflammation on alpha‐synuclein fibril induced neuroinflammation in PD has not been well understood. We hypothesize that peripheral inflammation promotes crosstalk between TLR2 and IL‐1R1 receptors when activated by alpha‐synuclein fibrils. Our preliminary results in SH‐SY5Y cells demonstrate that activation of either TLR2 or IL‐1R1 promotes synergistic interaction between the receptors leading to an increase in p‐ERK1/2 levels in a MYD88 dependent manner. In the in vivo model, prior exposure to a low dose of lipopolysaccharide (LPS) systemically increased the expression of proinflammatory cytokines such as IL‐1b and TNFα, and nuclear factor of kappa light polypeptide gene enhancer in B‐cells, alpha (IkBa) compared to animals that received saline. Treatment with alpha‐synuclein fibrils post LPS treatment significantly enhanced IL‐1b, TNFα, p‐ERK1/2 expression suggesting a synergistic effect from TLR2 and IL‐1R1 activation by alpha‐synuclein and IL‐1b respectively. In addition, these animals showed a significant increase in GM‐CSF expression compared to LPS only or saline treated animals suggesting alpha‐synuclein fibril treatment lead to an increase in infiltration of T‐cells, neutrophils and macrophages that may be causal for aberrant neuroinflammatory response in PD Support or Funding Information Drexel Coulter Foundation
Effects of Elevated Lead and Cadmium Burdens on Renal Function and Calcium Metabolism (1986)

To assess the pathophysiologic significance of increased body burdens of lead and cadmium, detailed renal function studies and evaluation of calcium, phosphorus, and vitamin D metabolism were carried out in 38 industrial workers exposed to lead and cadmium for 11 to 37 yr. Body burden of lead, as assessed by x-ray fluorescence measurement of tibia lead content, was elevated in 58% of the men and, when assessed by excretion of lead after Ca-EDTA infusion, was elevated in 36%. Liver or kidney cadmium burden, as assessed by neutron activation analysis, was elevated in 31%. Creatinine clearance was normal in all workers. One worker was hyperuricemic and two were proteinuric; three had increased beta 2 microglobulin excretion and one had diminished urinary acidifying ability. Maximal urinary concentrating ability was abnormal in a significant fraction, i.e., 52% of the men. Individuals with a high lead burden had a slight decrease in mean serum phosphorus but no accompanying phosphaturia. There was no abnormality of serum calcium. Twenty-two percent of subjects were hypercalciuric and two had low vitamin D levels, but these abnormalities bore no relation to heavy metal burden. In this carefully characterized group of men with chronic lead and calcium exposure, definite, if subclinical, effects on renal function and serum phosphorus but not calcium or vitamin D metabolism were demonstrable.
Diastereoselective Synthesis of Chiral 2,3-Disubstituted Indolines via Formal [3+2]-Cycloaddition of Arynes with γ-Amino-α,β-unsaturated Esters (2017)

A one step formal [3+2]-annulation protocol for the synthesis of 2,3-disubstituted indolines is described. The in situ generated aryne acts as a two-atom component, and γ-amino-α,β-unsaturated esters acting as a three-atom component to construct indoline units in a highly regio- and diastereoselective manner with yields ranging from 63 to 80%.
Development of a Current Injection—Type Impedance Measurement System for Monitoring Soil Water Content and Ion Concentration (2022)

This study was conducted with the aim of developing a circuit system that enables the measurement of the moisture content and ion concentration with a simple circuit configuration. Our previous studies have shown that soil can be represented by an equivalent circuit of a parallel circuit of resistors and capacitors. We designed a circuit that can convert the voltage transient characteristics of the soil when a current is applied to it into a square wave and output frequency information and developed an algorithm to analyze the two types of square waves and calculate R and C. Normal operation was confirmed in the range of 10 kΩ-1 MΩ for the designed circuit, and the calculation algorithm matched within a maximum error of 5%, thus confirming the validity of the program. These successfully confirmed the changes in the water content and ionic concentration. The soil moisture content measurement succeeded in measuring a maximum error of about 10%, except at one point, and the soil ion concentration measurement succeeded in measuring a maximum error of 6.6%. A new, simple, noise-resistant moisture content and ion concentration measurement circuit system with square wave output has been realized.
Hyperfibrinogenemia Is Associated With Specific Histocytological Composition and Complications of Atherosclerotic Carotid Plaques in Patients Affected by Transient Ischemic Attacks (2000)

The results of the present study add to the evidence that hyperfibrinogenemia, independently of other risk factors, is associated with a specific histological composition of carotid atherosclerotic plaques that predisposes them to rupture and thrombosis.
Informationsfusion-Herausforderungen an die Datenbank- und Visualisierungstechnologie : Kurzbeitrag (2000)

In vielen Anwendungsbereichen besteht die Aufgabe, Daten oder Informationen aus verschiedenen, zum Teil heterogenen Quellen zu kombinieren, zu verdichten und daraus Informationen einer neuen Qualität abzuleiten. Wesentliche Kernfunktionen dieses als Informationsfusion bezeichneten Prozesses sind dabei durch Methoden der Datenintegration und der Datenanalyse / Data Mining bereitzustellen. Die gewachsenen Strukturen der heute genutzten Informationsquellen und die damit im Zusammenhang stehenden Probleme wie Heterogenität, Inkonsistenz oder Ungenauigkeit der Daten sind mit den aktuell verfügbaren Techniken nur bedingt beherrschbar. Ausgehend vom aktuellen Stand der Forschung diskutiert der vorliegende Beitrag Anforderungen an Datenbanktechnologien aus Sicht der Informationsfusion, zeigt mögliche Forschungsrichtungen auf und skizziert aktuelle und zukünftige Anwendungsfelder.
Hydration of the pyrimidine radical cation and stepwise solvation of protonated pyrimidine with water, methanol, and acetonitrile (2013)

Equilibrium thermochemical measurements using an ion mobility drift cell technique have been utilized to investigate the binding energies and entropy changes associated with the stepwise hydration of the biologically significant ions pyrimidine radical cation and protonated pyrimidine. The binding energy of the hydrated pyrimidine radical cation is weaker than that of the proton-bound dimer pyrimidineH(+)(H2O) consistent with the formation of a weak carbon-based CH(δ+)··OH2 hydrogen bond (11.9 kcal/mol) and a stronger NH(+)··OH2 hydrogen bond (15.6 kcal/mol), respectively. Other proton-bound dimers such as pyrimidineH(+)(CH3OH) and pyrimidineH(+)(CH3CN) exhibit higher binding energies (18.2 kcal/mol and 22.8 kcal/mol, respectively) due to the higher proton affinities and dipole moments of acetonitrile and methanol as compared to water. The measured collisional cross sections of the proton-bound dimers provide experimental-based support for the DFT calculated structures at the M06-2x/6-311++G (d,p) level. The calculations show that the hydrated pyrimidine radical cation clusters form internally solvated structures in which the water molecules are bonded to the C4N2H4(●+) ion by weak CH(δ+)··OH2 hydrogen bonds. The hydrated protonated pyrimidine clusters form externally solvated structures where the water molecules are bonded to each other and the ion is external to the water cluster. Dissociative proton transfer reactions C4N2H4(●+)(H2O)(n-1) + H2O → C4N2H3(●) + (H2O)(n)H(+) and C4N2H5(+)(H2O)(n-1) + H2O → C4N2H4 + (H2O)(n)H(+) are observed for n ≥ 4 where the reactions become thermoneutral or exothermic. The absence of the dissociative proton transfer reaction within the C4N2H5(+)(CH3CN)n clusters results from the inability of acetonitrile molecules to form extended hydrogen bonding structures such as those formed by water and methanol due to the presence of the methyl groups which block the extension of hydrogen bonding networks.
70.1L: Late‐News Paper : 10.2‐inch WUXGA Flexible AMOLED Display Driven by Amorphous Oxide TFTs on Plastic Substrate (2013)

Abstract We have developed a 10.2‐inch WUXGA (1920×RGBW×1200) flexible AMOLED display driven by amorphous oxide TFT backplane on a transparent polyimide film. A bottom‐emission white OLED with RGBW color filters was adopted. Integrated gate driver circuits were successfully operated.
3D heterogeneous system integration (2011)

Three dimensional integration complements semiconductor scaling; it enables a higher integration density as well as heterogeneous technology integration. Using 3D chip stacking, it is possible to extend the number of functions per 3D chip well beyond the near-term capabilities of traditional scaling. The 3D strata may be realized using advanced CMOS technology nodes but may also exploit a wide variety of device technologies to optimize system performance.
Activating CTL precursors to reveal CTL function without skewing the repertoire byin vitro expansion (2001)

Detection of the functional CD8(+) CTL response usually requires in vitro restimulation. The differences between the CD8(+) CTL repertoire in freshly isolated precursor cells and CD8(+) CTL after short-term in vitro expansion have been generally assumed to be minimal, but have never been defined experimentally. Using staining with P18-I10/H-2D(d) tetramers and monoclonal antibodies (mAb) against Vbeta, we show the surprising result that there was significant skewing of the CD8(+) CTL repertoire after just 7 days of stimulation. In contrast, we found that overnight incubation of precursor cells with peptide allows the functional assessment of CD8(+) CTL (which cannot be detected ex vivo from freshly isolated cells) without changing the absolute number of antigen-specific CTL as measured by tetramer staining or the repertoire of TCR analyzed with mAb. This study affords a better understanding of the differences between the ex vivo and in vitro stimulated CTL repertoire, and provides an approach to reveal a more faithful representation of the functional in vivo CTL response without skewing of the repertoire of T cells detected.
Two O-Methyltransferases from Phylogenetically Unrelated Cow Parsley (Anthriscus sylvestris) and Hinoki-Asunaro (Thujopsis dolabrata var. hondae) as a Signature of Lineage-Specific Evolution in Lignan Biosynthesis (2022)

O-Methyltransferases (OMTs) play important roles in antitumor lignan biosynthesis. To date, six OMTs catalyzing the methylation of dibenzylbutyrolactone lignans as biosynthetic precursors of antitumor lignans have been identified. However, there is still no systematic understanding of the diversity and regularity of the biosynthetic mechanisms among various plant lineages. Herein, we report the characterization of two OMTs from Anthriscus sylvestris and Thujopsis dolabrata var. hondae [designated as AsSecoNorYatein (SNY) OMT and TdSNYOMT] together with the six known OMTs to evaluate their diversity and regularity. Although A. sylvestris 5-O-methylthujaplicatin (SecoNorYatein) and 4-O-demethylyatein (NorYatein) OMT (AsSNYOMT) and TdSNYOMT accept 5-O-methylthujaplicatin and 4-O-demethylyatein as substrates, phylogenetic analysis indicated that these two OMTs shared low amino acid sequence identity, 33.8%, indicating a signature of parallel evolution. The OMTs and the six previously identified OMTs were found to be diverse in terms of their substrate specificity, regioselectivity and amino acid sequence identity, indicating independent evolution in each plant species. Meanwhile, two-entropy analysis detected four amino acid residues as being specifically acquired by dibenzylbutyrolactone lignan OMTs. Site-directed mutation of AsSNYOMT indicated that two of them contributed specifically to 5-O-methylthujaplicatin methylation. The results provide a new example of parallel evolution and the diversity and regularity of OMTs in plant secondary (specialized) metabolism.
Fluorescence imaging using transport-theory-based imaging operators (2002)

We derive a linear operator, based on transport theory, for imaging fluorophore concentrations. The elements of the weight matrix of the resulting system are calculated from results of Monte Carlo simulations. Experimental data were collected by irradiating a cylindrical phantom containing two fluorophore-filled balloons with laser light. The reconstruction results show that good quality images can be obtained with both embedded objects accurately located.
The Mammalian Proteins MMS19, MIP18, and ANT2 Are Involved in Cytoplasmic Iron-Sulfur Cluster Protein Assembly (2012)

Iron-sulfur (Fe-S) clusters are essential cofactors of proteins with a wide range of biological functions. A dedicated cytosolic Fe-S cluster assembly (CIA) system is required to assemble Fe-S clusters into cytosolic and nuclear proteins. Here, we show that the mammalian nucleotide excision repair protein homolog MMS19 can simultaneously bind probable cytosolic iron-sulfur protein assembly protein CIAO1 and Fe-S proteins, confirming that MMS19 is a central protein of the CIA machinery that brings Fe-S cluster donor proteins and the receiving apoproteins into proximity. In addition, we show that mitotic spindle-associated MMXD complex subunit MIP18 also interacts with both CIAO1 and Fe-S proteins. Specifically, it binds the Fe-S cluster coordinating regions in Fe-S proteins. Furthermore, we show that ADP/ATP translocase 2 (ANT2) interacts with Fe-S apoproteins and MMS19 in the CIA complex but not with the individual proteins. Together, these results elucidate the composition and interactions within the late CIA complex.
Dose-responsive insulin regulation of glucose transport in human skeletal muscle (2006)

Glucose transport is regarded as the principal rate control step governing insulin-stimulated glucose utilization by skeletal muscle. To assess this step in human skeletal muscle, quantitative PET imaging of skeletal muscle was performed using 3-O-methyl-[11C]glucose (3-[11C]OMG) in healthy volunteers during a two-step insulin infusion [n = 8; 30 and 120 mU.min(-1).m(-2), low (LO) and high (HI)] and during basal conditions (n = 8). Positron emission tomography images were coregistered with MRI to assess 3-[11C]OMG activity in regions of interest placed on oxidative (soleus) compared with glycolytic (tibialis anterior) muscle. Insulin dose-responsive increases of 3-[11C]OMG activity in muscle were observed (P < 0.01). Tissue activity was greater in soleus than in tibialis anterior (P < 0.05). Spectral analysis identified that two mathematical components interacted to shape tissue activity curves. These two components were interpreted physiologically as likely representing the kinetics of 3-[11C]OMG delivery from plasma to tissue and the kinetics of bidirectional glucose transport. During low compared with basal, there was a sixfold increase in k3, the rate constant attributed to inward glucose transport, and another threefold increase during HI (0.012 +/- 0.003, 0.070 +/- 0.014, 0.272 +/- 0.059 min(-1), P < 0.001). Values for k3 were similar in soleus and tibialis anterior, suggesting similar kinetics for transport, but compartmental modeling indicated a higher value in soleus for k1, denoting higher rates of 3-[11C]OMG delivery to soleus than to tibialis anterior. In summary, in healthy volunteers there is robust dose-responsive insulin stimulation of glucose transport in skeletal muscle.
Perfluoroalkanes:  Conformational Analysis and Liquid-State Properties from ab Initio and Monte Carlo Calculations (2001)

Classical OPLS-AA force-field parameters are developed for perfluoroalkanes primarily by fitting to conformational profiles from gas-phase ab initio calculations (LMP2/cc-pVTZ(-f)//HF/6-31G*) and to experimental data for pure liquids. The ab initio C−C−C−C profile of n-C4F10 (perfluorobutane) is similar to those from prior high-level calculations and indicates the presence of gauche (g) and ortho (o) minima and of anti (a) minima slightly offset from 180°. Ab initio torsional profiles for n-C5F12 (perfluoropentane) and (CF3)2CFCF2CF3 (perfluoro-2-methylbutane) also show three sets of energy minima. Special OPLS-AA torsional parameters for these three molecules closely match ab initio and experimental geometries, conformational energies (ΔEmin), and conformational energy barriers. These specialized force fields were merged to provide a generalized force field for linear, branched, and cyclic perfluoroalkanes. The resultant parameters yield key ΔEmin values within 0.6 kcal/mol of the ab initio results for the three test compounds but more poorly represent the energy barriers. The parametrization also included reproduction of experimental liquid properties of these compounds, CF4 (perfluoromethane) and c-C5F10 (perfluorocyclopentane) via Monte Carlo (MC) simulations. MC simulations of six additional molecules were also performed in order to test the transferability of the force field.
Status of the sFLASH Experiment (2018)

The sFLASH experiment at the free-electron laser (FEL) FLASH1 is a setup for the investigation of external FEL seeding. Since 2015, the seeding scheme high-gain harmonic generation (HGHG) is being studied. At the end of the seeded FEL, an RF deflector enables time-resolved analysis of the seeded electron bunches while the photon pulses can be characterized using the technique of THz streaking. In this contribution, we present the current configuration of the experiment and give an overview of recent experimental results.
Multivalent Pneumococcal Protein Vaccines Comprising Pneumolysoid with Epitopes/Fragments of CbpA and/or PspA Elicit Strong and Broad Protection (2015)

Immunization with the pneumococcal proteins pneumolysin (Ply), choline binding protein A (CbpA), or pneumococcal surface protein A (PspA) elicits protective responses against invasive pneumococcal disease in animal models. In this study, we used different mouse models to test the efficacy of a variety of multivalent protein-based vaccines that comprised various combinations of full-length or peptide regions of the immunogens Ply, CbpA, or PspA: Ply toxoid with the L460D substitution (referred to herein as L460D); L460D fused with protective peptide epitopes from CbpA (YPT-L460D-NEEK [YLN]); L460D fused with the CD2 peptide containing the proline-rich region (PRR) of PspA (CD2-L460D); a combination of L460D and H70 (L460D+H70), a slightly larger PspA-derived peptide containing the PRR and the SM1 region; H70+YLN; and other combinations. Each mouse was immunized either intraperitoneally (i.p.) or subcutaneously (s.c.) with three doses (at 2-week intervals) of the various antigen combinations in alum adjuvant and then challenged in mouse models featuring different infection routes with multiple Streptococcus pneumoniae strains. In the i.p. infection sepsis model, H70+YLN consistently provided significant protection against three different challenge strains (serotypes 1, 2, and 6A); the CD2+YLN and H70+L460D combinations also elicited significant protection. Protection against intravenous (i.v.) sepsis (type 3 and 6A challenge strains) was largely dependent on PspA-derived antigen components, and the most protection was elicited by H70 with or without L460D or YLN. In a type 4 intratracheal (i.t.) challenge model that results in progression to meningitis, antigen combinations that contained YLN elicited the strongest protection. Thus, the trivalent antigen combination of H70+YLN elicited the strongest and broadest protection in diverse pneumococcal challenge models.
Vector Flow Velocity Estimation from Beamsummed Data Using Deep Neural Networks (2019)

Vector flow imaging (VFI) is a novel velocity measurement technique that provides flow velocity information in both azimuth and axial dimensions. Compared to conventional color Doppler imaging, VFI provides velocity estimation that is independent of flow directions. Previous VFI techniques utilize either multiple transmit or receive beams or angles, or speckle tracking. This creates a trade-off between computational intensity and estimate quality or equipment cost. In this work, we present a vector flow velocity estimation technique based on deep neural networks using only beamsummed radio-frequency (RF) data. The deep neural network extracts features from the RF data, and performs flow velocity estimation on the features, and maps the estimates back to the spatial domain. The structure and training of the neural network model is presented. The performance of the technique is demonstrated and evaluated using simulations and flow phantom experiments.