gebhart/patrepeval huggingface dataset:
Proteasome Inhibiters Up-Regulate TRAIL/Apo2L and Its Receptors Significantly Contributing to Proteasome Inhibitor-Induced Apoptosis in Primary Chronic Lymphocytic Leukemia (CLL) Cells. (2004)

Abstract The proteasome inhibitor, bortezomib has recently emerged as a new therapeutic treatment for refractory multiple myeloma and is presently being evaluated for other hematological malignancies either alone or in combination with other antitumor agents. Proteasome inhibitors cause the accumulation of many proteins but the precise mechanism responsible for their antitumor effect is unclear. In the present study, we have determined that cytotoxic effect the proteasome inhibitor MG-132 in primary chronic lymphocytic leukemia (CLL) cells is through the activation of the TRAIL (tumor necrosis factor-related apoptosis inducing ligand) apoptotic pathway. MG-132 induced apoptosis in approximately 70% of primary CLL cells as measured by annexin V staining. Addition of DR4:Fc that prevents TRAIL ligation with its receptors decreased the amount of MG-132 induced apoptosis by approximately 40% suggesting MG-132 caused activation of the TRAIL apoptotic pathway. MG-132 also up-regulated both the mRNA and protein levels of TRAIL and protein levels of TRAIL receptors DR4 and DR5. This upregulation correlated with activation of caspase 8 and cleavage of pro-apoptotic Bcl-2 family member Bid. Moreover, MG-132 treatment also induced a substantial reduction in the FLICE-like inhibitory protein (c-FLIP) protein levels. In contrast to CLL cells, proteasome inhibitors failed to activate the TRAIL apoptotic pathway in normal B-cells. This indicates that proteasome inhibitors are inducing apoptosis in primary CLL cells through activation of the TRAIL apoptotic signaling pathway through up-regulation of TRAIL and its cognate receptors and reduced FLIP expression. Thus, proteasome inhibitors may have a therapeutic role in CLL, either when used alone or in combination with TRAIL or antibodies against DR4/DR5.
[The effect of nicardipine on angiogenesis in vitro]. (1992)

We studied the effect of nicardipine, a calcium channel blocker, on the morphological change of endothelial cells in vitro. Cultured endothelial cells derived from bovine carotid artery make tubular structures between collagen gel layers. Tube formation of endothelial cells was suppressed by culture with 10(-9)-10(-5) M of nicardipine in a dose dependent manner. Migration of endothelial cells was also suppressed by the same dose of nicardipine. However, proliferation of endothelial cells was not enhanced. These findings suggest that nicardipine acts as an inhibitor of angiogenesis in vitro by inhibiting the migration of endothelial cells.
Numerical Modeling of Aerated Cavitation Using a Penalization Approach for Air Bubble Modeling Coupled to Homogeneous Equilibrium Model (2014)

Cavitation is a well-known physical phenomena occurring in various technical applications. It appears when the pressure of the liquid drops below the saturation pressure. Coupling aeration in a cavitating flow is a recent technique to control the overall effect of the cavitation. It is achieved by introducing air bubbles into the flow. In order to reveal and explore the behaviour of air gas in the vicinity of the cavitation region, the paper is oriented towards the physics of the colliding vapor phase bubbles and cavitating regions. The re-entrant jet may influence the dynamics of the bubbles as well as the frequency of cavitation separation. Therefore, a two-way coupling between the fluid flow and the introduced vapor is of capital importance. By penalizing the strain rate tensor in the Homogeneous Mixture Model, the two-way coupling has been achieved. The contact-handling algorithm is based on the projections of the velocity fields of the injected particles over the velocity field of the fluid flow. At each time step the gradient of the distance between the bubbles, is kept non-negative as a guarantee of the physical non overlapping. The bubbles’ collisions are considered as inelastic. The differential equations system is composed of the Navier-Stokes equations, implemented with the Homogeneous Mixture Model. A high-order Finite Volume (FV) solver based on Moving Least Squares (MLS) approximations is used. The code uses a SLAU-type Riemann solver for the accurate calculation of the low Mach numbers. The computational domain is a symmetrical 2D venturi duct with an 18°–8° convergent/divergent angles respectively.
The Role of 2'-Hydroxyl Groups in an RNA-Protein Interaction (1995)

The role of the 2'-hydroxyl group in RNA--protein interaction has been investigated using MS2 coat protein and its hairpin RNA operator as a model system. Derivatives of the MS2 translational operator were prepared where individual riboses were replaced by deoxyribose and their binding affinities to MS2 coat protein were determined. Only 1 (U-5) out of 15 positions tested reduced protein affinity by 1.6 kcal/mol. A variety of other 2'-modifications were tested at this position to understand the role of this particular 2'-hydroxyl group. Normal binding of the U-NH2 variant and weaker binding of the U-O-methyl variant are consistent with the ability of these functional groups to provide a hydrogen bond donor. This is also supported by recent crystallographic data which indicate a possible interaction between the 2'-hydroxyl of U-5 and the carboxylate group of glutamate 63 [Valegård et al. (1994) Nature 371, 623-626]. Complementary experiments introducing riboses into a DNA hairpin confirm the putative protein contact, and also identify a requirement for riboses in the two upper base pairs of the hairpin. Several arguments suggest these riboses are required to maintain an A-form helix in this region of the binding site. A minimum requirement of four 2'-hydroxyl groups for wild-type coat protein binding has been determined, one of which is at the -5 position and other three in the upper stem in any combination.(ABSTRACT TRUNCATED AT 250 WORDS)
Assessment of string performance using self‐referencing method in comparison to performance ratio (2022)

Abstract In this study, we introduce a weather data independent self‐referencing algorithm for performance analyses of PV power stations based on monitoring data. We introduce this method as an alternative to standard performance ratio analyses, in the case that no meteorological data are available. The self‐referencing algorithm utilizes the string with maximum output as a reference. The output of other strings is set in relation to the corresponding value of the reference string, resulting in a quantity we call self‐referencing ratio SR. We benchmark this ratio against the established performance ratio, which requires solar irradiance data for calculation. Based on a 9 MWp PV power station with 1,719 strings, we show that we are able to quantify, locate, and visualize the performance of each string in the PV power station. About 10% of the strings are underperforming; most of them are located in the bottom rows of the mounting racks. Shading from adjacent mounting racks is a possible explanation for this finding. Furthermore, IR‐images and voltage data indicate a frequent occurrence of strings with a reduced number of modules. An underperformance of less than 2% is challenging to detect, due to the uncertainty range of the chosen dataset.
A novel heterogeneous nuclear RNP protein with a unique distribution on nascent transcripts. (1989)

Immediately after the initiation of transcription in eukaryotes, nascent RNA polymerase II transcripts are bound by nuclear proteins resulting in the formation of heterogeneous nuclear ribonucleoprotein (hnRNP) complexes. hnRNP complexes from HeLa cell nuclei contain greater than 20 major proteins in the molecular mass range of 34,000-120,000 D. Among these are the previously described A, B, and C groups of proteins (34,000-43,000 D) and several larger, and as yet uncharacterized, proteins. Here we describe the isolation and characterization of a novel hnRNP protein termed the L protein (64-68 kD by mobility in SDS-polyacrylamide gels). Although L is a bona fide component of hnRNP complexes, it also appears to be a different type of hnRNP protein from those previously characterized. A considerable amount of L is found outside hnRNP complexes, and monoclonal antibodies to the L protein also strongly stain unidentified discrete nonnucleolar structures, in addition to nucleoplasm, in HeLa cell nuclei. Interestingly, the same antibodies stain the majority of nonnucleolar nascent transcripts from the loops of lampbrush chromosomes in the newt, but the most intense staining is localized to the landmark giant loops. The L protein is the first protein of giant loops identified so far, and antibodies to it thus provide a useful tool with which to study these unique RNAs. In addition, isolation and sequencing of cDNA clones for the L protein from human cells predicts a glycine- and proline-rich protein of 60,187 D, which contains two 80 amino acid segments only distantly related to the RNP consensus sequence-type RNA-binding domain. The L protein, therefore, is a new type of hnRNP protein.
At home in the lab: Assessing audiovisual quality of HTTP-based adaptive streaming with an immersive test paradigm (2015)

In this paper, we assess audiovisual quality of HTTP Adaptive Streaming using a novel subjective test design. The goal of this test was to systematically study the impact of both quality variations and stalling events on remembered quality. To gather more ecologically valid results, we wanted to reach a degree of test subject engagement and attention closer to real-life video viewing than what is achieved in traditional lab tests. To this aim, we used a novel test design method: the “immersive” paradigm, where subjects never see the same source stimulus twice. A total of 66 source clips of one minute length have been shown, selected from online video services. Together with qualitative results obtained from questionnaires, we can confirm previously reported effects, such as the impact of quality switching frequency. We also present new findings on the interaction of stalling events and quality drops. Finally, the contribution highlights that a long duration test of over one hour is feasible using the immersive paradigm while keeping subjects entertained.
Models for Pedestrian Trajectory Prediction and Navigation in Dynamic Environments (2017)

Robots are no longer constrained to cages in factories and are increasingly taking on roles alongside humans. Before robots can accomplish their tasks in these dynamic environments, they must be able to navigate while avoiding collisions with pedestrians or other robots. Humans are able to move through crowds by anticipating the movements of other pedestrians and how their actions will influence others; developing a method for predicting pedestrian trajectories is a critical component of a robust robot navigation system. A current state-of-the-art approach for predicting pedestrian trajectories is Social-LSTM, which is a recurrent neural network that incorporates information about neighboring pedestrians to learn how people move cooperatively around each other. This thesis extends and modifies that model to output parameters for a multimodal distribution, which better captures the uncertainty inherent in pedestrian movements. Additionally, four novel architectures for representing neighboring pedestrians are proposed; these models are more general than current trajectory prediction systems and have fewer hyper-parameters. In both simulations and real-world datasets, the multimodal extension significantly increases the accuracy of trajectory prediction. One of the new neighbor representation architectures achieves state-of-the-art results while reducing the number of both parameters and hyper-parameters compared to existing solutions. Two techniques for incorporating the trajectory predictions into a planning system are also developed and evaluated on a real-world dataset. Both techniques plan routes that include fewer near-collisions than algorithms that do not use trajectory predictions. Finally, a Python library for Agent-Based-Modeling and crowd simulation is presented to aid in future research.
Superimposed Pilot-based Channel Estimation for RIS-Assisted IoT systems Using Lightweight Network (2023)

<title>Abstract</title> Channel estimation (CE) in Internet of Things (IoT) systems faces challenges of low spectral efficiency, high energy consumption, and blocked propagation paths.To address these issues, this paper proposes a superimposed pilot-based CE scheme with reconfigurable intelligent surface (RIS) assistance. The pilot signal is superimposed on the uplink user data to improve spectral efficiency and reduce user equipment (UE) energy consumption. RIS is introduced to enhance communication robustness in the complex propagation environments. At the base station (BS), dedicated lightweight neural networks (NNs) are developed for CE and symbol detection (SD) to alleviate computational complexity and processing delay. The limited learning ability of these lightweight NNs is addressed by employing conventional CE and SD methods for initial feature extraction. This enables the NNs to learn along with the extracted features, reducing the required training set size. The proposed scheme improves spectral efficiency, reduces energy consumption, computational complexity, and processing delay, while enhancing the performance of both normalized mean square error (NMSE) of CE and the bit error rate (BER) of SD. Simulation results demonstrate the robustness of the proposed method against various parameter settings.
On triazoles. XXXIX. Synthesis and structure of some 1,2,4‐triazolo[1,5‐a]pyrimidin‐5‐one oximes (1997)

Abstract Some 1,2,4‐triazolo[1,5‐ a ]pyrimidin‐5‐one derivatives 1 and their alicyclic condensed ring analogues 2‐3 were converted through the corresponding “imino chlorides” 4‐6 to the oximes 7‐9 . The “ E ” isomeric structure of the products obtained was proven with the use of cmr using the spectral data of the corresponding “benzyloximino” derivatives 10‐12 prepared as model compounds.
Thermodynamic Characterization of Bile Salt Aggregation as a Function of Temperature and Ionic Strength Using Isothermal Titration Calorimetry (2000)

The critical micellar concentration (cmc) and the demicellization enthalpy ΔHdemic of the primary aggregates of sodium cholate (NaC) and sodium deoxycholate (NaDC) in water and 0.1 M NaCl at pH 7.5 were determined by isothermal titration calorimetry (ITC). The cmc of NaC and NaDC in water and 0.1 M NaCl at pH 7.5 shows a minimum between 295 and 300 K. With increasing ionic strength, the cmc of the bile salts decreases. ΔHdemic is strongly temperature-dependent but shows almost no dependence on the ionic strength. For comparison with other systems, the thermodynamic parameters ΔGdemic and ΔSdemic associated with the demicellization process were calculated using the pseudo-phase-separation model. From the temperature dependence of ΔHdemic, the change in heat capacity ΔCpdemic for the demicellization process was determined. The data obtained for ΔCpdemic are positive and at 298 K have values of 250 J·mol-1·K-1 for NaC and 350 J·mol-1·K-1 for NaDC. These values correspond to changes in the exposed hydrophobic surface area of 1.1−1.5 nm2 per molecule. For NaDC, ΔCpdemic decreases at 343 K to ∼250 J·mol-1·K-1, whereas ΔCpdemic for NaC remains essentially unchanged. The calorimetric titration curves were simulated using a mass action model including counterion condensation for the aggregation process. The simulation of the titration curves yielded values for the aggregation number n. In the concentration region of the cmc, n is approximately 4−6 for NaC in water or 0.1 M NaCl and independent of temperature. For NaDC in water values of n of 7 and 12 were obtained at low temperature (284 K) in water and 0.1 M NaCl, respectively. For NaDC in water and 0.1 M NaCl, the aggregation number n decreases to 5 and 7, respectively, at 328 K.
Deformable 3D Convolution for Video Super-Resolution (2020)

The spatio-temporal information among video sequences is significant for video super-resolution (SR). However, the spatio-temporal information cannot be fully used by existing video SR methods since spatial feature extraction and temporal motion compensation are usually performed sequentially. In this paper, we propose a deformable 3D convolution network (D3Dnet) to incorporate spatio-temporal information from both spatial and temporal dimensions for video SR. Specifically, we introduce deformable 3D convolution (D3D) to integrate deformable convolution with 3D convolution, obtaining both superior spatio-temporal modeling capability and motion-aware modeling flexibility. Extensive experiments have demonstrated the effectiveness of D3D in exploiting spatio-temporal information. Comparative results show that our network achieves state-of-the-art SR performance. Code is available at: https://github.com/XinyiYing/D3Dnet.
GSK3 inactivation is involved in mitochondrial complex IV defect in transforming growth factor (TGF) β1-induced senescence (2012)

Transforming growth factor β1 (TGF β1) induces Mv1Lu cell senescence by persistently producing mitochondrial reactive oxygen species (ROS) through decreased complex IV activity. Here, we investigated the molecular mechanism underlying the effect of TGF β1 on mitochondrial complex IV activity. TGF β1 progressively phosphorylated the negative regulatory sites of both glycogen synthase kinase 3 (GSK3) α and β, corresponding well to the intracellular ROS generation profile. Pre-treatment of N-acetyl cysteine, an antioxidant, did not alter this GSK3 phosphorylation (inactivation), whereas pharmacological inhibition of GSK3 by SB415286 significantly increased mitochondrial ROS, implying that GSK3 phosphorylation is an upstream event of the ROS generation. GSK3 inhibition by SB415286 decreased complex IV activity and cellular O(2) consumption rate and eventually induced senescence of Mv1Lu cell. Similar results were obtained with siRNA-mediated knockdown of GSK3. Moreover, we found that GSK3 not only exists in cytosol but also in mitochondria of Mv1Lu cell and the mitochondrial GSK3 binds complex IV subunit 6b which has no electron carrier and is topologically located in the mitochondrial intermembrane space. Involvement of subunit 6b in controlling complex IV activity and overall respiration rate was proved with siRNA-mediated knockdown of subunit 6b. Finally, TGF β1 treatment decreased the binding of the subunit 6b to GSK3 and subunit 6b phosphorylation. Taken together, our results suggest that GSK3 inactivation is importantly involved in TGF β1-induced complex IV defects through decreasing phosphorylation of the subunit 6b, thereby contributing to senescence-associated mitochondrial ROS generation.
Weak coupling magnetism in Ce4Pt12Sn25: a small exchange limit in the Doniach phase diagram (2010)

Magnetic susceptibility, magnetization, specific heat, and electrical resistivity studies on single crystals of Ce4Pt12Sn25 reveal an antiferromagnetic transition at T(N) = 0.19 K, which develops from a paramagnetic state with a very large specific heat coefficient (C/T) of 14 J mol(-1) K(-2)-Ce just above T(N). On the basis of its crystal structure and these measurements, we argue that a weak magnetic exchange interaction in Ce4Pt12Sn25 is responsible for its low ordering temperature and a negligible Kondo-derived contribution to physical properties above T(N). The anomalous enhancement of specific heat above T(N) is suggested to be related, in part, to weak geometric frustration of f-moments in this compound.
Intact microtubules are necessary for complete processing, storage and regulated secretion of von Willebrand factor by endothelial cells. (1987)

The importance of intact microtubules in the processing, storage and regulated secretion of von Willebrand factor (vWf) from Weibel-Palade bodies in endothelial cells was investigated. Human umbilical vein endothelial cells treated for 1 h with colchicine (10(-6) M) or nocodozole (10(-6) M) lost their organized microtubular network. Stimulation of these cells with secretagogues (A23187, thrombin) produced only 30% release of vWf in comparison to control cells containing intact microtubules. The nocodazole treatment was reversible. One-hour incubation in the absence of the drug was sufficient for microtubules to reform and restore the full capacity of the cells to release vWf. Long-term incubation (24 h) of endothelial cells with microtubule-destabilizing agents had a profound effect on vWf distribution. In control cells, vWf was localized to organelles in the perinuclear region (i.e., endoplasmic reticulum and Golgi apparatus) and to Weibel-Palade bodies. In drug-treated cells vWf staining was dispersed throughout the cytoplasm, and Weibel-Palade bodies were absent. The vWf synthesized in the absence of microtubules contained significantly less large multimers than that produced by control cells. Since Weibel-Palade bodies specifically contain the large multimers, we hypothesize that the structural defect in vWf secreted by cells in the absence of microtubules is due to the lack of Weibel-Palade bodies in these cultures.
Extracting spatial knowledge from the web (2003)

The content of the World-Wide Web is pervaded by information of a geographical or spatial nature, particularly location information such as addresses, postal codes, and telephone numbers. We present a system for extracting spatial knowledge from collections of Web pages gathered by Web-crawling programs. For each page determined to contain location information, we apply geocoding techniques to compute geographic coordinates, such as latitude-longitude pairs. Next, we augment the location information with keyword descriptors extracted from Web page contents. We then apply spatial data mining techniques on the augmented location information to derive spatial knowledge.
Chemistry and Photochemistry of Mineral Dust Aerosol (2008)

It has become increasingly clear that heterogeneous and multiphase chemistry of tropospheric aerosols can change the chemical balance of the atmosphere. In this review, we focus on recent laboratory studies of the heterogeneous and multiphase chemistry and photochemistry of mineral dust aerosol, a large mass fraction of the tropospheric aerosol. Mineral dust aerosol contains a mixture of oxides, clays, and carbonates. Molecular-based studies of reactions of these dust components provide insights into the chemistry of Earth's atmosphere. We discuss several different types of heterogeneous and multiphase reactions, including (a) ozone decomposition, (b) nitrogen dioxide and nitrate photochemistry, and (c) the dissolution and redox chemistry of Fe-containing dust. We also review some of the important chemical concepts that have recently emerged.
Corrosion and deposit formation on four steels exposed in the syngas section after a biomass gasifier (2016)

In this work, three different stainless steels (304L (CrNi‐18‐8), 253 MA®(CrNiSi‐21‐11), Kanthal® A‐1 (FeCrAl)) and a reference low‐alloyed ferritic steel (16Mo3 (Fe0.3Mo)) were exposed in a commercial biomass gasifier for three periods of 9 min, 580 and 1054 h in the temperature range 350–500 °C. Biomass is a fuel with generally higher amounts of chlorine and lower amounts of sulphur compared to coal and there is a current lack of data on materials performance in such environments. A high level of zinc sulphide was observed on the surfaces of all materials after exposure. It is argued that zinc plays a key role in capturing sulphur in this environment, thus preventing iron from sulphidation. Some incorporation of sulphur in the oxide scale was observed for Fe0.3Mo and CrNi‐18‐8. CrNiSi‐21‐11 showed some internal oxidation and pitting was observed for the FeCrAl material. All four materials showed acceptable performance with low total metal loss.