gebhart/patrepeval huggingface dataset:
P314Osteopontin stimulates cell cycle in neonatal cardiomyocytes (2019)

Abstract Introduction Macrophages control myocardial regeneration in the neonatal heart and repair in the adult heart. Osteopontin (OPN) is a macrophage-derived protein which is upregulated following tissue injury. While OPN regulates cell adhesion, spreading and migration, its role in myocardial regeneration is unknown. Purpose We aimed to test the hypothesis that OPN stimulates cardiomyocyte proliferation. Methods and results Mouse neonatal cardiomyocytes were treated with a serum-free medium for 24 hours. Immunofluorescent staining showed that these cells expressed the OPN receptor CD44 (Fig. 1A). To assess cell expansion, we used MTT, 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide, colorimetric assay. OPN preserved cardiomyocyte count in a low glucose medium for 24 hours, compared with no OPN treatment (Fig. 1B). Staining for phosphohistone (pH)3, a marker of nucleus division, showed a higher expression of pH3 in cardiomyocytes after OPN treatment (Fig. 1C). Immunoblotting revealed that OPN induced the phosphorylation of cell-cycle activity proteins, known as yes-associated protein (YAP)1, and extracellular signal-regulated kinase (ERK)2, while it decreased the phosphorylation of the YAP1 inhibitor, the large tumor-suppressor kinase (LATS)1/2 (Figs. 1D and 1E). Gene expression analysis revealed that OPN upregulated the transcriptional enhancer factor TEF-1 (TEAD1), which interacts with YAP1 (Fig. 1F), connective tissue growth factor (CTGF) and cyclin-dependent kinase 1 (CDK1), which are YAP downstream targets (Figs. 1G and 1H). Furthermore, OPN significantly upregulated cyclin B1, a regulator of the mitotic (M) phase (Fig. 1I). Moreover, OPN may promote positive feedback by upregulating the expression of CD44, SPP-1 (Figs. 1J and 1K). Finally, administration of OPN to adult mouse improved cardiac remodeling and function after myocardial infarction. Conclusions OPN stimulates cell-cycle activity in neonatal cardiomyocytes through YAP1 activity, independently from the HIPPO-YAP signaling pathway. Because macrophages are a major source of OPN after injury, our findings could explain the essential role of macrophages in neonatal heart regeneration and adult heart repair. Acknowledgement/Funding Israel Science Foundation
EPOCH chemotherapy: toxicity and efficacy in relapsed and refractory non-Hodgkin's lymphoma. (1993)

EPOCH chemotherapy was well tolerated and highly effective in patients who were resistant to or relapsed from the same drugs administered on a bolus schedule, suggesting that continuous infusion of the natural drug component of this regimen is capable of partially reversing drug resistance and reducing toxicity. Dose-intensity (DI) was > or = that achieved in primary treatment regimens for aggressive lymphomas.
Anomalous dispersion effects in low-pressure atomic-iodine lasers at 1315 μm (1981)

The atomic-iodine hyperfine structure is shown to produce anomalous dispersion effects on its hyperfine laser transition at 1.315 μm whenever reasonable small-signal gains are available (~1% cm). This dispersion effect is linearly dependent on the iodine inversion density. Such an anomalous dispersion effect may produce strong phase-induced mode–media interactions for all the lower-gain iodine hyperfine transitions in any low pressure (&lt;50 Torr) atomic-iodine laser. Fortunately, the highest-gain hyperfine transition, F′ = 3 → F″ = 4, has the smallest amount of additional phase shift (or refractivity) introduced by this anomalous dispersion. All the other transitions experience much larger anomalous dispersion effects. This condition should act as an internal frequency discriminator, forcing the iodine to lase on the highest-gain hyperfine transition.
Figure S4 from p62/SQSTM1 Cooperates with Hyperactive mTORC1 to Regulate Glutathione Production, Maintain Mitochondrial Integrity, and Promote Tumorigenesis (2023)

&lt;p&gt;Regulation of Nrf2 and NFkB by p62 in Tsc2-null cells and tumors&lt;/p&gt;
Two distinct P2Y receptors are involved in purine‐ and pyrimidine‐evoked Ca<sup>2+</sup> elevation in mammalian brain astrocytic cultures (2001)

ATP and 2-methyl-thio-ATP (2-Me-SATP) increase cytosolic calcium concentrations ([Ca<sup>2+</sup>]<sub>i</sub>) in rat striatal astrocytes (Centemeri et al. [1997] Br J Pharmacol 121:1700-1706). The aim of the present study was to: (1) characterize pyrimidine-induced [Ca<sup>2+</sup>]<sub>i</sub> increases in the same experimental system, and (2) try to identify the multiple P2Y receptor subtypes mediating Ca<sup>2+</sup> mobilization. UDP and UTP triggered a concentration-dependent [Ca<sup>2+</sup>]<sub>i</sub> elevation (EC<sub>50</sub>s = 0.58 μM ± 0.4 and 31 μM ± 6, respectively).Pyrimidine-evoked [Ca<sup>2+</sup>]<sub>i</sub> elevation was solely due to mobilization from intracellular stores, because: (1) removing calcium from extracellular medium or (2) blocking its influx with Ni<sup>2+</sup> did not modify UTP responses; (3) the store-depleting agent thapsigargin completely abolished UTP-evoked [Ca<sup>2+</sup>]<sub>i</sub> increments. Guanosine-5'-O-(2-thiodiphosphate) partially inhibited the UTP response, whereas pertussis toxin (PTx) had no effect. The phospholipase C inhibitor U-73122 significantly reduced the UTP-evoked [Ca<sup>2+</sup>]<sub>i</sub> rise. Computer-assisted analysis indicated that the UTP and UDP responses are mediated by a single receptor, while ATP and 2-Me-SATP interact with two distinct receptors. The selective P2Y<sub>1</sub> receptor antagonist MRS2179 abolished the ATP higher potency component. Sequential challenges with the same nucleotides resulted in almost complete homologous desensitization. Pre-exposure to UTP lowered the subsequent responses to either ATP or 2-Me-SATP. Maximally active concentrations of UTP and ATP were not additive. In conclusion, [Ca<sup>2+</sup>]<sub>i</sub> elevation in astrocytes by purines and pyrimidines is mediated by two distinct P2Y receptors, likely the P2Y<sub>1</sub> and P2Y<sub>6</sub> subtypes.
State-space solutions to standard H/sub 2/ and H/sub infinity / control problems (1989)

Simple state-space formulas are derived for all controllers solving the following standard H/sub infinity / problem: For a given number gamma >0, find all controllers such that the H/sub infinity / norm of the closed-loop transfer function is (strictly) less than gamma . It is known that a controller exists if and only if the unique stabilizing solutions to two algebraic Riccati equations are positive definite and the spectral radius of their product is less than gamma /sup 2/. Under these conditions, a parameterization of all controllers solving the problem is given as a linear fractional transformation (LFT) on a contractive, stable, free parameter. The state dimension of the coefficient matrix for the LFT, constructed using the two Riccati solutions, equals that of the plant and has a separation structure reminiscent of classical LQG (i.e. H/sub 2/) theory. This paper is intended to be of tutorial value, so a standard H/sub 2/ solution is developed in parallel.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A low-parasitic collector construction for high-speed SiGe:C HBTs (2005)

We present a new collector construction for high-speed SiGe:C HBTs that substantially reduces the parasitic base-collector capacitance by selectively underetching of the collector region. The impact of the collector module on RF performance is demonstrated in separate bipolar processes for npn and pnp devices. A minimum gate delay of 3.2ps was achieved for CML ring oscillators with npn transistors featuring f/sub T//f/sub max/ values of 300GHz/250GHz at BV/sub CEO/ = 1.8V. For pnp devices with f/sub T//f/sub max/ values of 135GHz/140GHz at BV/sub CEO/ = 2.5V a gate delay of 5.9ps is demonstrated. Further vertical scaling of the doping profiles increases f/sub T/ to 380GHz at BV/sub CEO/=1.5V for npn's and 155GHz at BV/sub CEO/ = 2.3V for pnp's, but ring oscillator speed and f/sub max/ degraded.
Studies of visible light photon counters with fast preamplifiers (1991)

Scintillating fiber tracking detectors are being developed for the SDC experiment at Superconducting Super Collider (SSC) and the upgrade of the D0 detector at the Fermilab Tevatron. The many attractive features of a fiber tracker include good position resolution, low occupancy, low mass in the active volume, and excellent resistance to radiation damage. An additional important feature, especially at the SSC, is the intrinsically prompt response time of a scintillating fiber. The photodetector of choice is the visible light phonon counter (VLPC), a device which combines high rate capability with high quantum efficiency at visible wavelengths. To realize the high rate capability of the VLPC requires the implementation of a suitable, fast preamplifier. Until recently, studies of fibers and VLPCs with radioactive sources and cosmic rays have been performed under low rate conditions using transimpedance amplifiers (TIAs). The authors report on the response characteristics of a fiber-VLPC system coupled to a variety of fast preamplifiers, including QPA02, VTX, and TVC devices. Their performance is compared with that of a transimpedance amplifier.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Molecular signatures of neurodegeneration in the cortex of PS1/PS2 double knockout mice (2008)

The observed neuroinflammatory expression changes are likely to be causally linked to the neurodegenerative phenotype observed in mice with compound deletions of PSEN1 and PSEN2. Furthermore, our results suggest that the evaluation of inhibitors of PS/gamma-secretase activity for treatment of Alzheimer's Disease must include close monitoring for signs of calpain-cathepsin system activation.
GPU-Based High-End Desktop Computing, A Cost-Effective Solution to Improve Reservoir Simulation Performance (2022)

Abstract The ever-increasing resolution of reservoir simulation models, combined with the emergence of ensemble approaches, call for the adoption of simulators running on Graphics Processing Units (GPUs), as these offer unprecedented performance on limited hardware footprint. We here discuss how the adoption of such a tool within Mubadala Petroleum allows engineers to seamlessly run partners' models on local workstations, avoiding the complications of accessing cloud computing resources (no data transfer authorizations, challenging cost-control, risk of vendor lock-in, etc.). Adopting new business-critical tools such reservoir simulators require careful validation; not only is the performance important, but also the stability and reliability. For instance, are the results sensitive to minor changes in the model? Or some others can lead to a change in hardware? In effect, in any nonoperating holding-company, it is furthermore important to be able to masterly reproduce the documented profiles. After a review of the principles of GPU based reservoir simulation, the process undergone to perform the above-mentioned validation were presented in this paper using local workstations. Different simulation models with different levels of complexity have been tested using the GPU computing architecture of mid-end and high-end desktop computer (MEDC and HEDC). History matching and prediction runs were carefully validated against the original benchmark results. Additional tests and the performance scalability across various configurations were also explored. The comparison of different GPU-based computer gave the appropriate results compared to a highly invested option of having multiple multi-core processors, a cluster, or a networked computer. The use of GPU-based high-end desktop computer (HEDC) will allow to deliver recommendations in time to support final investments decision, primarily because parallel solution simulations speed up simulation time, which is especially important in carrying out prediction solutions scenarios. From this perspective, the added value of using GPU's HEDC presented in this study shows the significance and most convenient solution for decision making as a suitable option for Mubadala Petroleum.
Chronic<i>Chlamydia pneumoniae</i>infection may promote coronary artery disease in humans through enhancing secretion of interleukin-4 (2006)

Atherosclerosis is an inflammatory response, probably to a range of initiating causes. Chronic infection with Chlamydia pneumoniae (C.pn) has been suggested as one cause, but the nature of the association is controversial, in large part due to lack of an identified mechanism to link infection with the atherosclerotic process in man. This study examined 139 consecutive subjects with stable chest pain, with the aim of correlating the serological status of C.pn infection with the pattern of secretion of cytokines from CD4(+) T lymphocytes. C.pn seropositive subjects secreted significantly more interleukin (IL)-4 than did those who were C.pn seronegative (P = 0.02). No significant difference was noted for secreted interferon (IFN)-gamma. The amount of secreted IL-4, but not of secreted IFN-gamma, correlated positively with the extent of coronary artery disease (P = 0.006). A similar correlation with secreted IL-4 was not identified with Helicobacter pylori infection. These results support the hypothesis that C.pn infection contributes to the inflammatory process responsible for coronary artery atherosclerosis. The method used to detect cytokine secretion involves ligation of CD40L on blood CD4(+) T cells, which may have relevance to tissue events.
Abstract 007: Exogenous Delivery of Alpha-Calcitonin Gene Related Peptide Inhibits Apoptosis and Oxidative Stress and Protects Against Pressure-Induced Congestive Heart Failure (2018)

Congestive heart failure (CHF) is the leading cause of mortality in men and women world-wide, despite multiple but limited treatment modalities. Our laboratory and others have established that α-calcitonin gene-related peptide (αCGRP) plays a significant protective role in several cardiovascular diseases. αCGRP is a 37-amino acid neuropeptide and potent vasodilator. In αCGRP-knockout mice, pressure overload significantly exacerbates cardiac hypertrophy, dysfunction and fibrosis. The present study was performed to determine if exogenous delivery of native αCGRP was cardio-protective against pressure overload-induced CHF. Transverse aortic constriction (TAC) was performed to induce pressure overload CHF in nine week old C57/BL6 mice. One group were sham-treated, one TAC alone, and one TAC plus αCGRP (4 mg/kg bwt/day) via an implanted mini-osmotic pump. All mice had serial echocardiography performed and were sacrificed and hearts collected after 28 days. ELISA data showed that αCGRP levels in the TAC left ventricle (LV) were significantly lower compared to sham LV, while αCGRP in the TAC-CGRP LVs was similar to sham levels. TAC alone significantly decreased fractional shortening (FS) and ejection fraction (EF), and increased cardiac hypertrophy, apoptosis, and fibrosis in the LV compared to sham mice. αCGRP in the TAC mice significantly preserved LV FS and EF, (FS ±SEM: sham 46.2±1.8%, TAC 25.4±1.1%, and TAC-CGRP 36.6±1.2%; EF ±SEM: sham 78±1.9%, TAC 51.3±1.5%, and TAC-CGRP 67.4±1.5%) and attenuated apoptosis (measured by cleaved caspase-3 and TUNEL staining), fibrosis, and oxidative stress (measured by lipid peroxidation, glutathione, and 8-OHdG levels) compared to TAC alone. Moreover, TAC increased the expression of sirtuin proteins (Sirt1, 2, 3, 5, and 7) and phosphorylation of AMPK, both of which are involved in oxidative stress and energy metabolism. This increase in Sirt-1 and -2 protein level was significantly attenuated by αCGRP. In addition, αCGRP markedly reduced phospho-AMPK level in the TAC LV back to control levels. Our results show that αCGRP protects against pressure-induced CHF which may be mediated by the inhibition of myocyte apoptosis and reduction in oxidative stress. Thus, αCGRP is an exciting therapeutic agent in CHF.
Pulse Energy Increase by Emission Cross-Section Control in Passively Q-switched Nd:YVO4/Cr4+:YAG Laser (2013)

In this work, emission cross-section dependence on temperature was observed experimentally in passively Q-switched Nd:YVO4/Cr4+:YAG laser. Heating the gain element from 30 °C to 70 °C, the Q-switch pulse energy at 100 Hz QCW pump was increased by three times from 60 µJ to 190 µJ and pulse duration was reduced by 30% from 2.5 ns to 1.8 ns, with peak power from 24 kW to 105 kW. With addition of heat dissipating SiC crystal, 1 kHz Q-switch pulses were achieved with pulse energy 170 µJ and duration of 1.8 ns, which corresponds to peak power of 91 kW.
Simultaneous linearized inversion of velocity and density profiles for multidimensional acoustic media (1991)

In this paper, the multidimensional inverse scattering problem for an acoustic medium is formulated as a generalized tomographic problem. The medium is probed by wide-band plane-wave sources, and the scattered field is observed along straight-line receiver arrays. The objective is to reconstruct, simultaneously, the velocity and density profiles of the medium. Using the Born approximation and applying a proper filter to the observed scattered field, generalized projections of the velocity and density scattering potentials are obtained. The generalized projections are weighted integrals of the scattering potentials; in two dimensions, the weighting functions are concentrated along parabolas, in three dimensions, they are concentrated over circular paraboloids. The resulting problem of generalized tomography (or inverse generalized Radon transform, or integral geometry) is solved in exact analytical form. The solution is expressed as a backprojection operation followed by a two- or three-dimensional space-invariant filtering operation. In the Fourier domain, the resulting image is a linear combination of the velocity and density scattering potentials, where the coefficients depend on the angle of incidence of the probing wave. Therefore, in principle, two experiments with different angles of incidence are necessary to reconstruct the velocity and density scattering potentials separately. It is shown that this involves a numerically unstable procedure, especially for bandlimited data, necessitating the use of several angles of incidence to regularize the inversion.
Study of final-state radiation in decays of<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mrow><mml:mi>Z</mml:mi></mml:mrow></mml:math>bosons produced in<mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mi>p</mml:mi><mml:mi>p</mml:mi></mml:math>collisions at 7 TeV (2015)

The differential cross sections for the production of photons in $\mathrm{Z}\ensuremath{\rightarrow}{\ensuremath{\mu}}^{+}{\ensuremath{\mu}}^{\ensuremath{-}}\ensuremath{\gamma}$ decays are presented as a function of the transverse energy of the photon and its separation from the nearest muon. The data for these measurements are collected with the CMS detector and correspond to an integrated luminosity of $4.7\text{ }\text{ }{\mathrm{fb}}^{\ensuremath{-}1}$ of $pp$ collisions at $\sqrt{s}=7\text{ }\text{ }\mathrm{TeV}$ delivered by the CERN LHC. The cross sections are compared to simulations with powheg and pythia, where pythia is used to simulate parton showers and final-state photons. These simulations match the data to better than 5%.
IR-Thermographic Screening of Thermoneutral or Endothermic Transformations: The Ring-Closing Olefin Metathesis Reaction (2000)

Provided that the heat of vaporization of a volatile product leads to a change in temperature, as, for example, in ring-closing olefin metathesis (RCM) reactions [Eq. (1)], endothermic or even thermoneutral processes can be subjected to high-throughput screening by an IR-thermographic detection system, a method which was originally designed to screen exothermic reactions.
Analysis of Abruptly-bent Ridge Ti:LiNbO3 Waveguides by Beam Propagation Method Involving the Runge-Kutta Algorithm (1999)

Article Analysis of Abruptly-bent Ridge Ti:LiNbO3 Waveguides by Beam Propagation Method Involving the Runge-Kutta Algorithm was published on October 1, 1999 in the journal Journal of Optical Communications (volume 20, issue 5).
Automated Assignment of Backbone Resonances Using Residual Dipolar\n Couplings Acquired from a Protein with Known Structure (2019)

Resonance assignment is a critical first step in the investigation of protein\nstructures using NMR spectroscopy. The development of assignment methods that\nrequire less experimental data is possible with prior knowledge of the\nmacromolecular structure. Automated methods of performing the task of resonance\nassignment can significantly reduce the financial cost and time requirement for\nprotein structure determination. Such methods can also be beneficial in\nvalidating a protein's solution state structure. Here we present a new approach\nto the assignment problem. Our approach uses only RDC data to assign backbone\nresonances. It provides simultaneous order tensor estimation and assignment.\nOur approach compares independent order tensor estimates to determine when the\ncorrect order tensor has been found. We demonstrate the algorithm's viability\nusing simulated data from the protein domain 1A1Z.\n
<i>In vitro</i> human adipose-derived stromal/stem cells osteogenesis in akermanite:poly-ɛ-caprolactone scaffolds (2013)

This study compared the metabolic activity, cell proliferation and osteogenic differentiation of human adipose-derived stromal/stem cells cultured on four different scaffolds (poly-ε-caprolactone, akermanite:poly-ε-caprolactone composites, akermanite and β-tricalcium phosophate) with or without osteogenic media supplementation for up to 21 days. The hypothesis was that human adipose-derived stromal/stem cells osteogenesis in akermanite-containing scaffolds would be greater than the other scaffold types independent of the media supplementation. According to the results, human adipose-derived stromal/stem cells loaded on different scaffolds and cultured in both media conditions displayed significant changes in the metabolic activity and cell proliferation. After 21 days of culture in osteogenic medium, the human adipose-derived stromal/stem cells loaded onto akermanite-based scaffolds had greater calcium deposition and osteocalcin expression relative to human adipose-derived stromal/stem cells loaded onto β-tricalcium phosophate and poly-ε-caprolactone. In vivo investigations are needed to further assess the bone tissue engineering potential of human adipose-derived stromal/stem cells loaded to akermanite:poly-ε-caprolactone composites.
Chemical conversion of corticosteroids to 3.ALPHA.,5.ALPHA.-tetrahydro derivatives. Synthesis of allotetrahydro-11-deoxycortisol glucuronides. (1985)

A method for the conversion of 11-deoxycortisol into 3α-hydroxy-5α-compounds is described. The allotetrahydro-11-deoxycortisol monoacetates (8, 14), which are key intermediates in the preparation of the 3- or 21-glucuronide of allotetrahydro-11-deoxycortisol, were the target compounds. The preparation of 5α-dihydro-11-deoxycortisol 21-acetate (4) was carried out by hydrogenation of the 3-ethoxy-3, 5-diene (2), followed by acid hydrolysis. When the 21-tetrahydropyranyl ether (6) and 21-tert-butyldimethylsilyl ether (7) were treated with potassium tri-secbutylborohydride in tetrahydrofuran under mild conditions, selective reduction of the carbonyl group at C-3 took place, yielding the 3α-alcohols (9 and 10, respectively). Allotetrahydro-11-deoxycortisol 3-glucuronide (21) and allotetrahydro-11-deoxycortisol 21-glucuronide (23) were then prepared.