gebhart/patrepeval huggingface dataset:
Characterization of lymphoid cells isolated from human gliomas (1989)

To analyze the phenotypic profile of lymphoid cells freshly isolated from surgically resected human gliomas, a double-immunostaining technique was developed which permitted the investigators simultaneously to distinguish between hematogenous and tumor cell populations and to detect expression of lymphocyte-monocyte subset-specific antigens on hematogenous cells. With this technique, the profiles of tumor-infiltrating lymphocytes (TIL's) derived from high- and low-grade gliomas were compared with phenotypes of lymphocytes concurrently isolated from peripheral blood. The total leukocyte cell yield from high-grade glioma cases exceeded that of low-grade cases. In nine high-grade glioma cases the proportion of CD8-positive cells was increased within the TIL population (41.2% +/- 1.9%, mean +/- standard error of the mean) as compared to the corresponding peripheral blood lymphocyte (PBL) population (30.8% +/- 4.1%, p less than 0.05). The proportion of natural killer HNK-positive cells, some of which bear the CD8 antigen (although not necessarily the pan T cell antigens CD2 and CD3), was also increased in the TIL's (41.9% +/- 4.2%) compared to that found in PBL's (32.1 +/- 5.6%, p less than 0.05) of high-grade glioma cases. The observed phenotypic pattern of high-grade glioma TIL's is similar to that reported based on immunohistochemical analysis of tumor tissue sections, suggesting that the techniques described here resulted in isolation of lymphoid cells representative of TIL's.
Non-Invasive Characterization of Metabolic Drug Effects on Breast Cancer Cell Spheroids Using Two-Photon Excited Fluorescence Microscopy (2017)

We report a non-invasive method, which quantifies optical redox ratio and mitochondrial organization via two-photon excited fluorescence microscopy, and apply it to the characterization of metabolic drug effects on breast cancer cell spheroids.
ChemInform Abstract: PHENOLS FROM PYRYLIUM SALTS (1981)

Abstract Das Pyryliumsalz (I) reagiert mit Dimethylsulfoniummethylid (II) zu den Pheno1en(I1I) und (IV).
Experimental Study on Quench Protection of HTS Magnet Composed of Multiple Pancake-Coils by Use of Auxiliary Resistive Shunt Loop Method (2020)

In the authors' previous work, a new quench protection method to reduce hot-spot temperature and increase quench detection voltage was proposed to protect an HTS magnet composed of multiple pancake sub-coils from quench damages (Toriyama et al., 2019). In the method, a current of a quenching sub-pancake coil is transferred to the other sub-coils of the magnet forming auxiliary resistive shunt loop (ARSL) by resistively shorting the other sub-coils. In this work quench behaviors of the pancake sub-coils of a model magnet was investigated by a simulation experiment using small scale test pancake coils wound of YBCO wire. Current patterns of the sub-pancake coils of a model magnet at a quench event were calculated for the case that ARSL method was applied, and in the experiment, the same patterns of the calculated currents were applied to the quenching test coils by a controllable current supply. Experimental results show effectiveness of the new method.
Regulation of Endothelial Cell Adhesion Molecule Expression in an Experimental Model of Cerebral Malaria (2002)

These findings indicate that vascular endothelial cells in most regional circulations assume an inflammatory phenotype and that cytokines and immune cells mediate this response in a tissue-specific manner.
Potential of natural products in the treatment of myocardial infarction: focus on molecular mechanisms (2022)

Although conventional drugs are widely used in the prevention and treatment of cardiovascular disease (CVD), they are being used less frequently due to concerns about possible side effects over the long term. There has been a renewed research interest in medicinal plant products, and their role in protecting the cardiovascular system and treating CVD, which are now being considered as potential alternatives to modern drugs. The most important mechanism causing damage to the myocardium after heart attack and reperfusion, is increased levels of free radicals and oxidative stress. Therefore, treatment approaches often focus on reducing free radicals or enhancing antioxidant defense mechanism. It has been previously reported that bioactive natural products can protect the heart muscle in myocardial infarction (MI). Since these compounds are readily available in fruits and vegetables, they could prevent the risk of MI if they are consumed daily. Although the benefits of a healthy diet are well known, many scientific studies have focused on whether pure natural compounds can prevent and treat MI. In this review we summarize the effects of curcumin, resveratrol, quercitin, berberine, and tanshinone on MI and CVD, and focus on their proposed molecular mechanisms of action.
Morphological Aspects of the Resin-Dentin Interdiffusion Zone with Different Dentin Adhesive Systems (1992)

Cross-sections of resin-dentin interfaces were etched with an argon-ion beam to make their substructure detectable by scanning electron microscopy. The dentin adhesive systems were categorized morphologically into three groups, and an attempt was made to clarify their adhesive mechanism. The first group of products removed the smear layer. The argon-ion bombardment clearly disclosed a hybrid or resin-impregnated dentin layer. It is hypothesized that conditioning with acidic or chelating agents demineralized the dentin surface-layer to a certain depth, leaving behind a collagen-rich mesh-work. Hydrophilic monomers are then believed to alter this collagen-fiber arrangement in a way that facilitates penetration of the adhesive resin, resulting in a mechanical, intermingled link between collagen and the adhesive resin. The second group preserved the smear layer. In this case, the dentinal tubules were obliterated with globular particles at their orifices and remained patent underneath these smear plugs. This type of adhesive system aims at the incorporation of the smear layer into the hydrophilic monomers, which have an affinity for the organic and/or inorganic components of the underlying dentin. Finally, a third, small group only partly dissolved the smear layer, creating a thin resin-impregnated dentin layer and a resin-impregnated smear plug. This study clearly showed that the application of recent adhesive systems induced structural changes in the dentin surface morphology, creating a retentive interface, called the inter-diffusion zone, between the deep, untouched dentin layers and the composite filling material. This resin-dentin interdiffusion zone offers bonding sites for copolymerization with the resin composite and, concurrently, might have protective potential for the pulp tissues.
Association Between the Type 4 Dopamine Receptor Gene Polymorphism and Novelty Seeking (2003)

The present study confirmed previous findings on the association between the type 4 dopamine receptor gene and novelty seeking, in particular exploratory excitability and impulsiveness. The tendency to avoid or approach a novel situation is a core concept of several temperamental theories. The present findings support the hypothesis that this tendency is associated with DRD4 and might concern temperament psychology in general, not only the concept of novelty seeking.
Anticancer effects of anti-CD47 immunotherapy in vivo (2018)

The treatment of breast cancer largely depends on the utilization of immunogenic chemotherapeutics, which, as a common leitmotif, stimulate the exposure of calreticulin (CALR) on the surface of cancer cells, thereby facilitating their recognition by dendritic cells for the uptake of tumor-associated antigens and subsequent antigen cross-presentation to cytotoxic T cells. Breast cancer cells also express the calreticulin antagonist CD47, which inhibits tumor cell phagocytosis and consequently subverts anticancer immune responses. Here, we treated carcinogen-induced or transplantable mouse models of cancer by a CD47 blocking antibody that was at least as efficient as chemotherapy and that could be favorably combined with the anthracycline mitoxantrone in the context of carcinogen-induced orthotopic breast cancers. Monotherapy by CD47 blockade led to a reduction in tumor growth and an increase in overall survival. Of note, this treatment lead to a moderate depletion of M2 macrophages as well as close-to-complete elimination of regulatory T cells from the tumor bed, suggesting a strong favorable impact of CD47 blockade on the tumor microenvironment.
New insights in dermatophyte research (2018)

Dermatophyte research has renewed interest because of changing human floras with changing socioeconomic conditions, and because of severe chronic infections in patients with congenital immune disorders. Main taxonomic traits at the generic level have changed considerably, and now fine-tuning at the species level with state-of-the-art technology has become urgent. Research on virulence factors focuses on secreted proteases now has support in genome data. It is speculated that most protease families are used for degrading hard keratin during nitrogen recycling in the environment, while others, such as Sub6 may have emerged as a result of ancestral gene duplication, and are likely to have specific roles during infection. Virulence may differ between mating partners of the same species and concepts of zoo- and anthropophily may require revision in some recently redefined species. Many of these questions benefit from international cooperation and exchange of materials. The aim of the ISHAM Working Group Dermatophytes aims to stimulate and coordinate international networking on these fungi.
Two on-chip bandwidth calibration methods for phase-locked loops used in wireless transceiver applications (2013)

Phase-locked loops (PLL) are essential building blocks in wireless transceivers. Concerning data transmission and reception the performance of the PLL is crucial for the overall performance of the whole system. The transmitter architecture of the presented system does not use mixers but the PLL itself for FSK modulation. Therefore especially the bandwidth of the PLL influences performance parameters. As the PLL bandwidth is subject to significant variations due to process, temperature and supply voltage, bandwidth calibration is an important measure to ensure the PLL performance specifications. This paper presents two methods which use building blocks of an existing transceiver to calibrate the PLL bandwidth. Both methods use existing features of the transceiver architecture and therefore require only minimal adjustments and in principal no additional building blocks in order to accomplish bandwidth calibration. The first method uses an ADC to measure the PLL Loop Filter Voltage and the second employs the receiver to observe the frequency and phase of the PLL output signal. The proposed methods have been verified by measurements using a test chip implemented in a low-cost Infineon 130 nm CMOS process and an FPGA board. The variation of the PLL bandwidth after calibration is lower than ±10% compared to more than ±60% for an uncalibrated PLL. The time needed for calibration lies between 32 μs and 200 μs.
Chemical reduction of a diimide based porous polymer for selective uptake of carbon dioxide versus methane (2010)

A diimide based porous organic polymer (POP) post-synthetically reduced with lithium metal demonstrates a drastic increase in selectivity for carbon dioxide over methane.
Optimizing Aggregate Throughput of Upstream TCP Flows over IEEE 802.11 Wireless LANs (2007)

This paper via analysis and simulation revisits the interaction between MAC contention and TCP congestion control over IEEE 802.11 WLANs, misled in the previous efforts. The results reveal that the effective number of contending wireless stations is not proportional to the number of wireless stations with an upstream TCP flow in IEEE 802.11 wireless LANs. Thus, we propose a new scheme called TCP ACK priority (TAP) in which, by allowing an access point to transmit TCP ACKs at the highest priority, the optimal number of competing stations are allowed to contend for media access to utilize link bandwidth efficiently. We use an ns-2 simulator to evaluate the performance of TAP with the IEEE 802.11 DCF. The results show that there is an improvement in network performance without the loss of fairness between upstream TCP flows. The extensions for IEEE 802.11e/n are also considered.
Transcriptomic Alterations in Lung Adenocarcinoma Unveil New Mechanisms Targeted by the TBX2 Subfamily of Tumor Suppressor Genes (2018)

T-box (TBX) transcription factors are evolutionary conserved genes and master transcriptional regulators. In mammals, TBX2 subfamily (TBX2, TBX3, TBX4, and TBX5) genes are expressed in the developing lung bud and tracheae. Our group previously showed that the expression of TBX2 subfamily was significantly high in human normal lungs, but markedly suppressed in lung adenocarcinoma (LUAD). To further elucidate their role in LUAD pathogenesis, we first confirmed abundant expression of protein products of the four members by immunostaining in adult human normal lung tissues. We also found overall suppressed expression of these genes and their corresponding proteins in a panel of human LUAD cell lines. Transient over-expression of each of the genes in human (NCI-H1299), and mouse (MDA-F471) derived lung cancer cells was found to significantly inhibit growth and proliferation as well as induce apoptosis. Genome-wide transcriptomic analyses on NCI-H1299 cells, overexpressing TBX2 gene subfamily, unraveled novel regulatory pathways. These included, among others, inhibition of cell cycle progression but more importantly activation of the histone demethylase pathway. When using a pattern-matching algorithm, we showed that TBX's overexpression mimic molecular signatures from azacitidine treated NCI-H1299 cells which in turn are inversely correlated to expression profiles of both human and murine lung tumors relative to matched normal lung. In conclusion, we showed that the TBX2 subfamily genes play a critical tumor suppressor role in lung cancer pathogenesis through regulating its methylating pattern, making them putative candidates for epigenetic therapy in LUAD.
A human visual model-based approach of the visual attention and performance evaluation (2005)

In this paper, a coherent computational model of visual selective attention for color pictures is described and its performances are precisely evaluated. The model based on some important behaviours of the human visual system is composed of four parts: visibility, perception, perceptual grouping and saliency map construction. This paper focuses mainly on its performances assessment by achieving extended subjective and objective comparisons with real fixation points captured by an eye-tracking system used by the observers in a task-free viewing mode. From the knowledge of the ground truth, qualitatively and quantitatively comparisons have been made in terms of the measurement of the linear correlation coefficient (CC) and of the Kulback Liebler divergence (KL). On a set of 10 natural color images, the results show that the linear correlation coefficient and the Kullback Leibler divergence are of about 0.71 and 0.46, respectively. CC and Kl measures with this model are respectively improved by about 4% and 7% compared to the best model proposed by L.Itti. Moreover, by comparing the ability of our model to predict eye movements produced by an average observer, we can conclude that our model succeeds quite well in predicting the spatial locations of the most important areas of the image content.
SAND: a static analysis approach for detecting SQL antipatterns (2021)

Local databases underpin important features in many mobile applications, such as responsiveness in the face of poor connectivity. However, failure to use such databases correctly can lead to high resource consumption or even security vulnerabilities. We present SAND, an extensible static analysis approach that checks for misuse of local databases, also known as SQL antipatterns, in mobile apps. SAND features novel abstractions for common forms of application/database interactions, which enables concise and precise specification of the antipatterns that SAND checks for. To validate the efficacy of SAND, we have experimented with a diverse suite of 1,000 Android apps. We show that the abstractions that power SAND allow concise specification of all the known antipatterns from the literature (12-74 LOC), and that the antipatterns are modeled accurately (99.4-100% precision). As for performance, SAND requires on average 41 seconds to complete a scan on a mobile app.
Nanodiamond–Gadolinium(III) Aggregates for Tracking Cancer Growth In Vivo at High Field (2016)

The ability to track labeled cancer cells in vivo would allow researchers to study their distribution, growth, and metastatic potential within the intact organism. Magnetic resonance (MR) imaging is invaluable for tracking cancer cells in vivo as it benefits from high spatial resolution and the absence of ionizing radiation. However, many MR contrast agents (CAs) required to label cells either do not significantly accumulate in cells or are not biologically compatible for translational studies. We have developed carbon-based nanodiamond-gadolinium(III) aggregates (NDG) for MR imaging that demonstrated remarkable properties for cell tracking in vivo. First, NDG had high relaxivity independent of field strength, a finding unprecedented for gadolinium(III) [Gd(III)]-nanoparticle conjugates. Second, NDG demonstrated a 300-fold increase in the cellular delivery of Gd(III) compared to that of clinical Gd(III) chelates without sacrificing biocompatibility. Further, we were able to monitor the tumor growth of NDG-labeled flank tumors by T<sub>1</sub>- and T<sub>2</sub>-weighted MR imaging for 26 days in vivo, longer than was reported for other MR CAs or nuclear agents. Finally, by utilizing quantitative maps of relaxation times, we were able to describe tumor morphology and heterogeneity (corroborated by histological analysis), which would not be possible with competing molecular imaging modalities.
An efficient algorithm for parametric fault simulation of monolithic IC's (1991)

An efficient methodology for performing fault simulation experiments as part of an IC failure diagnosis system is described. The methodology uses regression models that relate IC performance directly to process disturbances inherent in all IC fabrication processes. An efficient algorithm for establishing the structure of such models based on data obtained from coupled process and circuit simulators is developed. It selects a minimum number of significant input parameters and automatically establishes an optimum order polynomial regression model. Moreover. the regression models obtained contain information about the structure of the dependence of IC performances on the process disturbances, which can be coded in a dependency tree for each IC performance and used directly for diagnostic purposes. The algorithm belongs to the class of artificial neural network approaches and has been implemented in a program called MULREG (multilayer regression). Two examples of analyzing MULREG are given.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Deep learning using a biophysical model for robust and accelerated reconstruction of quantitative, artifact‐free and denoised images (2020)

RoAR is trained to recognize the macroscopic magnetic field inhomogeneities directly from the input magnitude-only mGRE data and eliminate their effect on <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msubsup><mml:mi>R</mml:mi><mml:mn>2</mml:mn><mml:mo>∗</mml:mo></mml:msubsup></mml:math> measurements. RoAR training is based on the biophysical model and does not require ground-truth <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msubsup><mml:mi>R</mml:mi><mml:mn>2</mml:mn><mml:mo>*</mml:mo></mml:msubsup></mml:math> maps. Since RoAR utilizes signal information not just from individual voxels but also accounts for spatial patterns of the signals in the images, it reduces the sensitivity of <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msubsup><mml:mi>R</mml:mi><mml:mn>2</mml:mn><mml:mo>*</mml:mo></mml:msubsup></mml:math> maps to the noise in the data. These features plus high computational speed provide significant benefits for the potential usage of RoAR in clinical settings.
Skeletal and hematological anomalies in HYAL2‐deficient mice: a second type of mucopolysaccharidosis IX? (2008)

The metabolism of hyaluronan (HA) relies on HA synthases and hyaluronidases, among which hyaluronidase-1 (HYAL1) and -2 (HYAL2) have been proposed as key actors. Congenital HYAL1 deficiency leads to mucopolysaccharidosis IX (MPS IX), a rare lysosomal storage disorder characterized by joint abnormalities. Knowledge of HYAL2 is limited. This protein displays weak in vitro hyaluronidase activity and acts as a receptor for oncogenic ovine retroviruses. We have generated HYAL2-deficient mice through a conditional Cre-lox system. Hyal2(-/-) mice are viable and fertile. They exhibit localized congenital defects in frontonasal and vertebral bone formation and suffer from mild thrombocytopenia and chronic, possibly intravascular, hemolysis. In addition, Hyal2(-/-) mice display 10-fold increases in plasma levels of HA and 2-fold increases in plasma hyaluronidase activity. Globally, there is no HA accumulation in tissues, including bones, but liver sinusoidal cells seem overloaded with undigested HA. Taken together, these elements demonstrate for the first time that murine HYAL2 has a physiological activity in vivo that is relevant for craniovertebral bone formation, maintenance of plasma HA concentrations, and erythrocyte and platelet homeostasis. In addition, the viability of HYAL2-deficient mice raises the possibility that a similar defect, defining a new MPS disorder, exists in humans.
Enhancement of slope efficiency of a dually modulated photonic-crystal surface-emitting laser over a wide range of emission angles by introducing a backside reflector (2022)

Dually modulated photonic-crystal surface-emitting lasers (DM-PCSELs) are a new type of semiconductor laser that enable on-chip, mechanical-free, high-power, high-beam-quality 2D beam scanning over a wide field of view. These lasers are attracting attention for application in light detection and ranging, and the improvement of their slope efficiency is desired for this application. Thus far, the highest experimentally demonstrated slope efficiency is approximately 0.4 W/A at wavelengths of around 940 nm, which was limited by the fact that roughly half of the laser light was emitted toward and absorbed by the backside electrode. In this work, in order to improve the slope efficiency of DM-PCSELs, we utilize the light emitted toward the backside of the device by introducing a distributed Bragg reflector (DBR) as a backside reflector. In consideration of this laser’s ability to emit beams over a wide field of view, we design laser structures that facilitate a commensurate enhancement of efficiency at various emission angles. Next, we discuss the effect of the DBR on the confinement of transverse modes in thickness direction as well as the suppression of higher-order transverse modes. Then, we analyze the emission characteristics of a DM-PCSEL with a DBR and calculate that the theoretical slope efficiency is enhanced to 0.7–0.8 W/A, which is twice that of the device without a DBR, over a wide range of emission angles from 0° to 30°. We then fabricate the devices and experimentally demonstrate the emission of a single-lobed beam with a high slope efficiency of 0.7–0.8 W/A.