gebhart/patrepeval huggingface dataset:
Intracellular calcium regulates the tyrosine kinase receptor encoded by the MET oncogene (1991)

Previous work (Gandino, L., Di Renzo, M. F., Giordano, S., Bussolino, F., and Comoglio, P.M. (1990) Oncogene 5, 721-725) has shown that the tyrosine kinase activity of the receptor encoded by the MET protooncogene is negatively modulated by protein kinase C (PKC). We now show that an increase of intracellular Ca2+ has a similar inhibitory effect in vivo, via a PKC-independent mechanism. In GTL-16 cells the p145MET kinase is overexpressed and constitutively phosphorylated on tyrosine. A rapid and reversible decrease of p145MET tyrosine phosphorylation was induced by treatment with the calcium ionophores A23187 or ionomycin. Experiments performed with the ionophores in absence of extracellular calcium showed that a rise in cytoplasmic Ca2+ concentration to 450 nM (due to release from intracellular stores) resulted in a similar effect. These Ca2+ concentrations had no effect on p145MET autophosphorylation in an in vitro kinase assay. This suggests that the effect of Ca2+ on p145MET tyrosine phosphorylation is not direct but may be mediated by Ca(2+)-activated proteins(s). Involvement of Ca(2+)-dependent tyrosine phosphatases was ruled out by experiments carried out in presence of Na2VO4. In vivo labeling with [32P]orthophosphate showed that the rise of intracellular Ca2+ induces serine phosphorylation of p145MET on a specific phosphopeptide. This suggests that Ca2+ negatively modulates p145MET kinase through the phosphorylation of a critical serine residue by a Ca(2+)-activated serine kinase distinct from PKC.
Proceedings of the 16th Virtual International Meeting on Fully 3D Image Reconstruction in Radiology and Nuclear Medicine. (2021)

These proceedings contain the presented papers at the 16th International Meeting on Fully Three-Dimensional Image Reconstruction in Radiology and Nuclear Medicine 2021, which was to be held in Leuven, Belgium, but had to be transformed in a virtual meeting because of the covid-19 pandemic. Fully3D is one of the major forums for presentation of new results in the field of 3D image reconstruction, primarily with applications in x-ray computer tomography, PET and SPECT. Over the life-time of the meeting the focus has shifted to reflect recent developments in the field. Many of the major developments in fully 3D PET and SPECT imaging were first presented at Fully3D, as were the key results for analytic reconstruction methods in cone beam x-ray CT. Similarly, in the 2021 meeting a broad range of topics has been presented. As expected, deep learning methods are being used increasingly: they are used as post-processing tools or incorporated in the reconstruction, often aiming at improved noise and/or artifact suppression.
ChemInform Abstract: Different Structural Models of YB<sub>2</sub>C<sub>2</sub> and GdB<sub>2</sub>C<sub>2</sub> on the Basis of Single‐Crystal X‐Ray Data. (2014)

Abstract YB 2 C 2 and GdB 2 C 2 are prepared from the elements by arc melting and subsequent annealing at 900 °C (3 d) and characterized by single crystal XRD.
A New Interface for Lightning Induced Overvoltages Calculation Between EMTP and LIOV code (2001)

For evaluating the lightning performance of distribution lines it is crucial the availability of a tool for the calculation of lightning-induced voltages. Such a tool can be a) a simple analytical formula (as for instance the Rusck one [1], adopted in the IEEE Std 1410 [2]), b) a computer code (as for instance the LIOV code [3,4], adopted in [5]). An analytical formula presents the main advantage of short computational times; on the other hand its application is often limited to cases which tend to be unrealistic [5]. A computer code instead, can potentially allow for the treatment of more realistic cases; the main disadvantage in this case, is the inherent complexity of such one approach. This contribution deals indeed with a computer code, and in particular, on the interface that has been recently realized between the LIOV code and the EMTP96 with the aim of extending the simulation capabilities of the LIOV code to realistic configurations of distribution systems. In the LIOV code [3-7] the Agrawal et al. field-to-transmission line coupling model [8] has been implemented for dealing with the case of multi-conductor lines closed on resistive terminations. In principle, the LIOV code could be suitably modified case by case in order to take into account the presence of the specific type of termination, as well as of the line-discontinuities (e.g. surge arresters across the line insulators along the line) and of complex system topologies. This
: A Large- ea, Broad- ay Imaging Spectrometer for Astrophysics (1996)

GRABIT is the gamma-ray bar imaging telescope, a low-energy gamma-ray (60-600 keV) imaging spectrometer that can be extended to a large area at low cost. GRABIT has a gamma-ray position-resolution of 2 mm with an energy resolution typical of alkali-halide detectors (18% at 60 keV). The complete coded-aperture telescope will have arc-minute angular resolution over a large field of view. In addition, the good energy and angular resolutions are obtained over the full bandwidth of the instrument.
a-Si:H Deposition from SiH<sub>4</sub>and Si<sub>2</sub>H<sub>6</sub>rf-Discharges: Pressure and Temperature Dependence of Film Growth in Relation to α-γ Discharge Transition (1988)

We present an interpretation of the pressure and temperature dependence of the growth kinetics of hydrogenated amorphous silicon (a-Si:H) in SiH 4 and Si 2 H 6 rf-glow discharges. At constant rf power, the a-Si:H deposition rate increases drastically at a given pressure depending on the nature of the gas and on the wall temperature. The threshold nature of this transition is attributed to the onset of an electron avalanche due to ion-induced secondary electron emission and ionization in the plasma sheaths close to the electrodes. We analyze the effect of various plasma parameters governing this α-γ discharge transition in terms of equivalent circuit of the discharge and power dissipation mechanisms. The ratio of a-Si:H deposition rates from SiH 4 and Si 2 H 6 rf discharges at the same rf power and flow rate is strongly dependent on the pressure because the α-γ transition occurs at a lower pressure for Si 2 H 6 than for SiH 4 . The transition is shifted to higher pressures as the temperature increases primarily because of the reduction of gas density, which explains contradicting results in the literature on the influence of temperature on a-Si:H deposition rate. At a given rf power and substrate temperature, the optical, structural and electrical film properties are correlated with the variation of deposition rate as a function of SiH 4 or Si 2 H 6 pressure.
ChemInform Abstract: THE AMBIDENT REACTIVITY OF TRIPHENYLMETHYL RADICALS IN HYDROGEN‐ABSTRACTION REACTIONS AND THE MECHANISM OF THE BASE‐CATALYZED REARRANGEMENT OF (DIPHENYLMETHYLENE)CYCLOHEXADIENES (A TYPE OF SEMIBENZENE) INTO TRIPHENYLMETHANE (1985)

Abstract Das Produktgemisch der Thermolyse von (I) enthält unter anderem die Produkte (II)‐(IV).
Clay Nanotube Immobilization on Animal Hair for Sustained Anti-Lice Protection (2021)

Topical administration of drugs is required for the treatment of parasitic diseases and insect infestations; therefore, fabrication of nanoscale drug carriers for effective insecticide topical delivery is needed. Here we report the enhanced immobilization of halloysite tubule nanoclay onto semiaquatic capybaras which have hydrophobic hair surfaces as compared to their close relatives, land-dwelling guinea pigs, and other agricultural livestock. The hair surface of mammals varies in hydrophobicity having a cortex surrounded by cuticles. Spontaneous 1-2 µm thick halloysite hair coverages on the semi-aquatic rodent capybara, non-aquatic rodent guinea pig, and farm goats were compared. The best coating was found for capybara due to the elevated 5 wt% wax content. As a result, we suggest hair pretreatment with diluted wax for enhanced nanoclay adsorption. The formation of a stable goat hair coverage with a 2-3 µm halloysite layer loaded with permethrin insecticide allowed for long-lasting anti-parasitic protection, enduring multiple rain wettings and washings. We expect that our technology will find applications in animal parasitosis protection and may be extended to prolonged human anti-lice treatment.
Figures S1-S5 from The SETDB1–TRIM28 Complex Suppresses Antitumor Immunity (2023)

&lt;p&gt;Supplementary Figures S1-S5 + Legends&lt;/p&gt;
HealthSEA: Towards Improving the Search Engine of KAAHE Arabic Health Encyclopedia (2019)

KAAHE is an online Arabic Health Encyclopedia that received tremendous efforts in promoting health awareness and, consequently, was awarded with multiple national certifications. However, the website's search engine does not come up to its high standards. Therefore, in this paper, we experiment with combinations of stemming and query expansion on articles collected from KAAHE, in order to create an improved Arabic Health Encyclopedia Search Engine (HealthSEA).
INTESTINAL PERMEABILITY AND BACTERIAL TRANSLOCATION FOLLOWING SMALL BOWEL TRANSPLANTATION IN THE RAT (1991)

In addition to its role in absorbing nutrients, the intestinal mucosa provides an important barrier against toxins and bacteria in the bowel lumen. The present study evaluated gut barrier function following orthotopic (in continuity) intestinal grafting in rats. Graft histology, intestinal permeability, and bacterial translocation to the grafted mesenteric lymph nodes, the host's liver, and the host's spleen were assessed on the 3rd, 5th, and 7th postoperative days. The study group received no immunosuppression after allotransplantation. The two control groups included rats with isografts and rats with cyclosporine-treated allografts. On the 7th POD, the study animals had moderate transmural inflammation due to rejection, with normal histology in the isografts and CsA-treated allografts; increased intestinal permeability, measured by urinary excretion of oral 51Cr-EDTA (P less than 0.01); and increased number of bacteria in the MLN and spleen (P less than 0.05). The number of bacteria in the MLN and spleen of the study group positively correlated with the changes in intestinal permeability (P less than 0.05). Rejection of the orthotopic intestinal graft leads to increased intestinal permeability and bacterial translocation from the lumen of the graft to the host's reticuloendothelial system. Measures to improve gut barrier function and antibiotic therapy during rejection episodes may help reduce the incidence of septic complications after intestinal grafting.
Critical Role of Cytotoxic T Lymphocytes in Immune Clearance of Rickettsial Infection (2001)

Cytotoxic T-lymphocyte (CTL) activity developed against the major infected target cells of rickettsial infections, endothelial cells and macrophages. Spleen cells from mice immune to Rickettsia conorii exerted specific major histocompatibility complex (MHC) class I-matched CTL activity against R. conorii-infected SVEC-10 endothelial cells, with peak activity on day 10. Similarly, spleen cells from Rickettsia australis-immune mice exerted specific CTL activity against an R. australis-infected macrophage-like cell line. Gamma interferon (IFN-gamma) gene knockout mice were more than 100-fold more susceptible to R. australis infection than wild-type C57BL/6 mice. MHC class I gene knockout mice were the most susceptible, more than 50,000-fold more susceptible to a lethal outcome of R. australis infection than wild-type C57BL/6 mice. These results indicate that CTL activity was more critical to recovery from rickettsial infection than were the effects of IFN-gamma. The observation that perforin gene knockout mice were more than 100-fold more susceptible than wild-type C57BL/6 mice indicates that perforin-mediated activity accounts for a large component, but not all, of the CTL-mediated antirickettsial effect. CTL activity was expressed by immune CD8 T lymphocytes. Adoptive transfer of immune CD8 T lymphocytes from IFN-gamma gene knockout mice into R. australis-infected IFN-gamma gene knockout mice dramatically reduced the infectious rickettsial content in the organs, confirming that CD8 T lymphocytes provide immunity against rickettsiae besides that provided by the secretion of IFN-gamma. CTLs appear to be crucial to recovery from rickettsial infection.
&lt;title&gt;CMOS-compatible wells for integrated high-speed screening arrays&lt;/title&gt; (2002)

This paper explores the use of photo patternable polymers for integrated high-speed screening arrays, where enzyme reactions are monitored in nano liter volume reactors using fluorescence of NADH and photodiode detection. Implementing the array of nano liter volume wells using a low-temperature CMOS-compatible process allows wells to be patterned after the photodiode array and electronics fabrication is completed. We demonstrate filling of 400 X 400 micron square, 25 micron deep photoresist-on-silicon wells with liquid samples by electro spray and wetting. We also demonstrate usability of the wells on NADH samples by measuring the fluorescence of 0.1, 0.5 and 1 millimolar NADH solutions using external optics.
Triplex Hybridization-Based Nanosystem for the Rapid Screening of Pneumocystis Pneumonia in Clinical Samples (2020)

Pneumocystis pneumonia (PcP) is a disease produced by the opportunistic infection of the fungus <i>Pneumocystis jirovecii</i>. As delayed or unsuitable treatments increase the risk of mortality, the development of rapid and accurate diagnostic tools for PcP are of great importance. Unfortunately, current standard methods present severe limitations and are far from adequate. In this work, a time-competitive, sensitive and selective biosensor based on DNA-gated nanomaterials for the identification of <i>P. jirovecii</i> is presented. The biosensor consists of a nanoporous anodic alumina (NAA) scaffold which pores are filled with a dye reporter and capped with specific DNA oligonucleotides. In the presence of <i>P. jirovecii</i> genomic DNA, the gated biosensor is open, and the cargo is delivered to the solution where it is monitored through fluorescence spectroscopy. The use of capping oligonucleotides able to form duplex or triplex with <i>P. jirovecii</i> DNA is studied. The final diagnostic tool shows a limit of detection (LOD) of 1 nM of target complementary DNA and does not require previous amplification steps. The method was applied to identify DNA from <i>P. jirovecii</i> in unmodified bronchoalveolar lavage, nasopharyngeal aspirates, and sputum samples in 60 min. This is a promising alternative method for the routinely diagnosis of Pneumocystis pneumonia.
OFDM Turbo DeCodulation with exit optimized bit loading and signal constellations (2009)

We propose the combination of orthogonal frequency division multiplexing (OFDM) and turbo decodulation (TDeC) - a multiple turbo process consisting of iterative demodulation and iterative source-channel decoding - for transmission of correlated source codec parameters over wireless frequency-selective broadband fading channels. As OFDM systems split up frequency-selective fading channels into orthogonal flat-fading channels, individual modulation signal constellations sets with different bit mapping rules can be assigned to subcarriers taking into account the iterative reception and decoding process. The superior performance of the proposed OFDM-TDeC system is demonstrated by analyzing the achieved residual bit error rate (BER) and parameter signal-to-noise ratio (SNR).
Ether (2019)

Multi-tenant datacenters and cloud networks must provide both isolation and interactive service to tenant applications, many of which are sensitive to tail flow completion times. Network operators must also ensure high utilization of network capacity to reduce cost. Existing approaches that statically partition network capacity, in either time or space, provide good isolation but suffer from under-utilization. Existing schemes that dynamically allocate capacity to tenants incur either decreased fairness or high tail flow completion times. To overcome these limitations, we propose Ether. Ether is able to overcome these limitations because it can prioritize bursty flows during short congestion episodes while still ensuring fairness at long timescales. In this paper, we present a preliminary design of Ether and discuss its feasibility in today's programmable switches. Our evaluations show that, at high loads, Ether achieves 23% improvement in tail flow completion times (FCT) when compared with idealized fair queueing (FQ) while still providing similar fairness as FQ. In contrast, pFabric, which optimizes FCT, worsens fairness by a factor of 1.8 when compared with Ether.
Observation of Femtosecond Laser-induced Columnar Structures above the Surface Level of Al (2023)

Through femtosecond laser irradiation, we observed the formation of columnar structures above the surface level of Al and showed the control of their morphological profiles with the laser fluence and the number of irradiating pulses.
Development of a membrane-bound random DNA sequence combinatorial array recognition surface (CARS). (2010)

A partially overlapping population of random sequence 60mer DNA molecules consisting of many concatamers of varied lengths was spatially separated in one and two dimensions by electrophoresis in polyacrylamide and transferred to nitrocellulose membranes. The spatially separated library serves as a potential sensor interface on which many different molecular recognition events or target analyte-binding patterns may emerge, thereby theoretically representing a "universal sensor" surface. The separated DNA library has been referred to as a DNA combinatorial array recognition surface or "CARS." After UV baking and various fluorescence staining or fluorescent probe interactions, the one-dimensional (1-D) and 2-D membrane-bound CARS were digitally photographed and subjected to image analysis with National Institutes of Health Image-Java software. Image analysis demonstrated relatively consistent and more similar spatial fluorescence patterns within CARS analyte treatment groups but noteworthy pattern differences before and after analyte addition and between different analyte treatments. Taken together, these data suggest a potential role for CARS as a novel, inexpensive, self-assembling universal molecular recognition surface that could be coupled to sophisticated Bayesian or other pattern recognition algorithms to classify analytes or make specific identifications, much like the senses of smell or taste.
Channel-dropping filter based on a grating-frustrated two-core fiber (2000)

We present experimental results on the operation of a dissimilar two-core fiber segment as a channel dropping filter based on the principle of grating-frustrated coupling. The restoration of 100% coupling by ultraviolet (UV)-tuning of the fiber is demonstrated over a bandwidth in excess of 20 nm. It is also shown that a grating can be inscribed in one of the cores while maintaining perfect coupling conditions between the cores.
1333 Development of an Artificial Esophagus with Peristaltic Motion using Shape Memory Alloy Actuators (2008)

Artificial esophageal actuator with peristaltic motion was developed. This actuator utilizes SME property of SMA coil springs, and has a role of transporting boluses. First of all, the human esophageal properties were detailed description, and an SMA spring used here was estimated experimentally in order to design the actuator. Based on those data, the actuator making use of SMA springs was designed and fabricated. In addition, sequential logic control system for actuator motion was constructed to imitate esophageal function, namely peristalsis. Its conveying ability was estimated using jelly as a pseudomasticated food. It was found that the actuator was able to transport jelly against gravity. Bolus transporting velocity, however, was a little lower than that of the human esophagus.
Genomewide Linkage Scan for Diabetic Renal Failure and Albuminuria: The FIND Study (2011)

These results strengthen the evidence for previously identified genomic regions and implicate several novel loci potentially involved in the pathogenesis of DN.
Abstract 175: Dynamin-Related Protein 1 Regulates Proteostasis and Proprotein Convertase Subtilisin/Kexin Type 9 Secretion (2018)

Objective: Dysfunctional protein homeostasis (proteostasis) contributes to cardiovascular and metabolic disorders. We and others associated the mitochondrial fission protein, Dynamin-related protein 1 (DRP1) with cardiometabolic disease. Liver DRP1-deficiency reduces serum lipids and very-low density lipoprotein secretion in high-fat fed mice; whether DRP1 mediates these effects via proteostasis regulation is unknown. Approach and Results: Using mass spectrometry integrated with network analysis to map the human liver secretome, we found DRP1 associated with cardiovascular disease modules and lipid pathways. Electron microscopy revealed human liver DRP1 at mitochondria, cytosol, vesicles, endoplasmic reticulum (ER), and clustered at membrane tethered to ER exit sites. DRP1 small molecule inhibition (Mdivi-1) or CRISPR/Cas9-mediated DRP1 deletion in human liver cells, and Drp1 -liver deficiency in mice reduced autophagic flux without impairing the amino acid metabolome, or activating the autophagy inhibitor, mammalian target of rapamycin complex 1. DRP1 partially co-localized and co-immunoprecipitated with the ER trafficking and autophagy regulator, Syntaxin 17, in human liver tissue and cells. DRP1 inhibition reduced Proprotein convertase subtilisin/kexin type 9 (PCSK9) secretion in human liver cells and mice (-78.5%), and altered trafficking of the PCSK9-binding and ER maintenance chaperone, Glucose-regulated protein 94. Co-treating human liver cells with Mdivi-1 and proteasome inhibitor (MG132), non-transcriptionally increased intracellular PCSK9, while maintaining Mdivi-1-mediated reduced PCSK9 secretion. Conclusions: We propose a novel function of DRP1 in the regulation of proteostasis, wherein DRP1 may cluster, then tether and/or constrict nascent autophagy-associated membrane at the ER via its interaction with Syntaxin 17. DRP1 inhibition likely reduces lipoprotein and PCSK9 secretion in part by impairing autophagic flux leading to compensatory chaperone-mediated proteasomal degradation for ER maintenance. Proteostasis regulation and the cellular function of DRP1 is more complex than previously thought, potentially providing new avenues to therapeutically target cardiometabolic disease.
SOLAR ATMOSPHERIC MAGNETIC ENERGY COUPLING: BROAD PLASMA CONDITIONS AND SPECTRUM REGIMES (2016)

ABSTRACT Solar variability investigations that include magnetic energy coupling are paramount to solving many key solar/stellar physics problems, particularly for understanding the temporal variability of magnetic energy redistribution and heating processes. Using three years of observations from the Solar Dynamics Observatory ’ s Atmospheric Imaging Assembly and Heliosemic Magnetic Imager, we measured radiative and magnetic fluxes from gross features and at full-disk scales, respectively. Magnetic energy coupling analyses support radiative flux descriptions via the plasma heating connectivity of dominant (magnetic) and diffuse components, specifically of the predominantly closed-field corona. Our work shows that this relationship favors an energetic redistribution efficiency across large temperature gradients, and potentially sheds light on the long-standing issue of diffuse unresolved low corona emission. The close connection between magnetic energy redistribution and plasma conditions revealed by this work lends significant insight into the field of stellar physics, as we have provided possible means for probing distant sources in currently limited and/or undetectable radiation distributions.