gebhart/patrepeval huggingface dataset:
Pro-inflammatory hepatic macrophages generate ROS through NADPH oxidase 2 via endocytosis of monomeric TLR4–MD2 complex (2017)

Reactive oxygen species (ROS) contribute to the development of non-alcoholic fatty liver disease. ROS generation by infiltrating macrophages involves multiple mechanisms, including Toll-like receptor 4 (TLR4)-mediated NADPH oxidase (NOX) activation. Here, we show that palmitate-stimulated CD11b<sup>+</sup>F4/80<sup>low</sup> hepatic infiltrating macrophages, but not CD11b<sup>+</sup>F4/80<sup>high</sup> Kupffer cells, generate ROS via dynamin-mediated endocytosis of TLR4 and NOX2, independently from MyD88 and TRIF. We demonstrate that differently from LPS-mediated dimerization of the TLR4-MD2 complex, palmitate binds a monomeric TLR4-MD2 complex that triggers endocytosis, ROS generation and increases pro-interleukin-1β expression in macrophages. Palmitate-induced ROS generation in human CD68<sup>low</sup>CD14<sup>high</sup> macrophages is strongly suppressed by inhibition of dynamin. Furthermore, Nox2-deficient mice are protected against high-fat diet-induced hepatic steatosis and insulin resistance. Therefore, endocytosis of TLR4 and NOX2 into macrophages might be a novel therapeutic target for non-alcoholic fatty liver disease.
IBM voice conversion systems for 2007 TC-STAR evaluation (2008)

This paper proposes a novel voice conversion method by frequency warping. The frequency warping function is generated based on mapping formants of the source speaker and the target speaker. In addition to frequency warping, fundamental frequency adjustment, spectral envelope equalization, breathiness addition, and duration modification are also used to improve the similarity to the target speaker. The proposed voice conversion method needs only a very small amount of training data for generating the warping function, thereby greatly facilitating its application. Systems based on the proposed method were used for the 2007 TC-STAR intra-lingual voice conversion evaluation for English and Spanish and a cross-lingual voice conversion evaluation for Spanish. The evaluation results show that the proposed method can achieve a much better quality of converted speech than other methods as well as a good balance between quality and similarity. The IBM1 system was ranked No.1 for English evaluation and No.2 for Spanish evaluation. Evaluation results also show that the proposed method is a convenient and competitive method for crosslingual voice conversion tasks.
Increase in Electrical Resistivity of Copper and Aluminum Fine Lines (2002)

The resistivities of thin films and fine lines of copper (Cu) and aluminum (Al) were measured by a resistance ratio method (referred to as “RR method” hereafter), which measures the ratio of room-temperature resistance to liquid-nitrogen-temperature resistance. This method can predict resistivity exactly without the need for precise and detailed line or film dimension measurements. Thinner films and finer lines have higher resistivities in the case of both Cu and Al, with Cu showing larger resistivity increases (films and lines) than Al . From the present data, we estimated the electron mean free path of Cu to be 55 nm, which is close to most of the previously reported values, and that of Al to be 22 nm. Line resistivities depend not only on the line width but also on line thickness. We propose a simple equation for expressing line resistivity in terms of line thickness and width.
Infrared achromatic phase shifters using modulated total internal reflection (2006)

We propose a new family of achromatic phase shifters that uses the modulated total internal reflection (TIR) phenomenon. These components can be seen as enhanced Fresnel rhombs for infrared applications like nulling interferometry and polarimetry. The TIR phenomenon comes with a differential phase shift between the polarization components of the incident light. Modulating the index transition at the TIR interface allows compensating for the intrinsic material dispersion in order to make the subsequent phase shift achromatic over broad bands. The modulation can be induced by a thin film of a well-chosen medium or a subwavelength grating whose parameters are specially optimized. We present results from theoretical simulations together with preliminary fabrication outcomes.
Modeling the Magnetic Behavior of N-Winding Components: Approaches for Unshackling Switching Superheroes (2020)

As designers strive to best take advantage of good switching devices and best grapple with the magnetic bottleneck, the solution often involves more complex magnetic structures. Modeling such structures with mathematics, necessary-and-sufficient circuit models, and physical circuit models is an essential element in understanding their complicated behavior. Our brief review has covered some of the primary modeling approaches, their advantages and disadvantages, and the translation between them. In addition, we introduced a necessary-and-sufficient circuit model with characterization advantages over the extended cantilever model. In a three-winding structure, the complete set of parameters can be obtained with only one-port impedance and two-port voltage ratio measurements, which can reliably be obtained to very high frequencies (compared to three of six parameters in the extended cantilever model). In a four-winding structure, the proposed model can find seven of 10 parameters in this way (compared to four of 10 for the extended cantilever model). This model may therefore be useful for a wide range of many winding magnetic structures, with a high ceiling on appropriate frequencies.
Automated method for the identification and analysis of vascular tree structures in retinal vessel network (2011)

Structural analysis of retinal vessel network has so far served in the diagnosis of retinopathies and systemic diseases. The retinopathies are known to affect the morphologic properties of retinal vessels such as course, shape, caliber, and tortuosity. Whether the arteries and the veins respond to these changes together or in tandem has always been a topic of discussion. However the diseases such as diabetic retinopathy and retinopathy of prematurity have been diagnosed with the morphologic changes specific either to arteries or to veins. Thus a method describing the separation of retinal vessel trees imaged in a two dimensional color fundus image may assist in artery-vein classification and quantitative assessment of morphologic changes particular to arteries or veins. We propose a method based on mathematical morphology and graph search to identify and label the retinal vessel trees, which provides a structural mapping of vessel network in terms of each individual primary vessel, its branches and spatial positions of branching and cross-over points. The method was evaluated on a dataset of 15 fundus images resulting into an accuracy of 92.87 % correctly assigned vessel pixels when compared with the manual labeling of separated vessel trees. Accordingly, the structural mapping method performs well and we are currently investigating its potential in evaluating the characteristic properties specific to arteries or veins.
Activated R-Ras, Rac1, Pi 3-Kinase and Pkcε Can Each Restore Cell Spreading Inhibited by Isolated Integrin β1 Cytoplasmic Domains (2000)

Attachment of many cell types to extracellular matrix proteins triggers cell spreading, a process that strengthens cell adhesion and is a prerequisite for many adhesion-dependent processes including cell migration, survival, and proliferation. Cell spreading requires integrins with intact beta cytoplasmic domains, presumably to connect integrins with the actin cytoskeleton and to activate signaling pathways that promote cell spreading. Several signaling proteins are known to regulate cell spreading, including R-Ras, PI 3-kinase, PKCepsilon and Rac1; however, it is not known whether they do so through a mechanism involving integrin beta cytoplasmic domains. To study the mechanisms whereby cell spreading is regulated by integrin beta cytoplasmic domains, we inhibited cell spreading on collagen I or fibrinogen by expressing tac-beta1, a dominant-negative inhibitor of integrin function, and examined whether cell spreading could be restored by the coexpression of either V38R-Ras, p110alpha-CAAX, myr-PKCepsilon, or L61Rac1. Each of these activated signaling proteins was able to restore cell spreading as assayed by an increase in the area of cells expressing tac-beta1. R-Ras and Rac1 rescued cell spreading in a GTP-dependent manner, whereas PKCstraightepsilon required an intact kinase domain. Importantly, each of these signaling proteins required intact beta cytoplasmic domains on the integrins mediating adhesion in order to restore cell spreading. In addition, the rescue of cell spreading by V38R-Ras was inhibited by LY294002, suggesting that PI 3-kinase activity is required for V38R-Ras to restore cell spreading. In contrast, L61Rac1 and myr-PKCstraightepsilon each increased cell spreading independent of PI 3-kinase activity. Additionally, the dominant-negative mutant of Rac1, N17Rac1, abrogated cell spreading and inhibited the ability of p110alpha-CAAX and myr-PKCstraightepsilon to increase cell spreading. These studies suggest that R-Ras, PI 3-kinase, Rac1 and PKCepsilon require the function of integrin beta cytoplasmic domains to regulate cell spreading and that Rac1 is downstream of PI 3-kinase and PKCepsilon in a pathway involving integrin beta cytoplasmic domain function in cell spreading.
RalR (a DNase) and RalA (a small RNA) form a type I toxin–antitoxin system in Escherichia coli (2014)

For toxin/antitoxin (TA) systems, no toxin has been identified that functions by cleaving DNA. Here, we demonstrate that RalR and RalA of the cryptic prophage rac form a type I TA pair in which the antitoxin RNA is a trans-encoded small RNA with 16 nucleotides of complementarity to the toxin mRNA. We suggest the newly discovered antitoxin gene be named ralA for RalR antitoxin. Toxin RalR functions as a non-specific endonuclease that cleaves methylated and unmethylated DNA. The RNA chaperone Hfq is required for RalA antitoxin activity and appears to stabilize RalA. Also, RalR/RalA is beneficial to the Escherichia coli host for responding to the antibiotic fosfomycin. Hence, our results indicate that cryptic prophage genes can be functionally divergent from their active phage counterparts after integration into the host genome.
Supercritical fluid techniques (2006)

This chapter describes how the specific properties of supercritical fluids have been exploited in the last fifteen years for synthesizing inorganic nanomaterials. Thus, it is shown how the control of the physicochemical properties of nanomaterials (size, morphology, structure and composition) is achieved by choosing specific operating parameters. A critical analysis of the supercritical-based techniques applied to the processing of 0D and 1D inorganic nanomaterials in a controlled way is presented for metals, semiconductors, oxides, nitrides and carbons. The knowledge on 0D and 1D nanomaterials can then be applied to the design of more complex systems, such as nanocomposites obtained by the nanostructuration of the surface or volume of materials. Today, supercritical fluid technology allows the synthesis, with a reduction of the environmental impact, of well designed nanomaterials with controlled properties for applications in many interesting fields, such as catalysis, electronics, energy, optics, pharmacology, etc.
Technical Perspective: Broadening and deepening query optimization yet still making progress (2017)

No abstract available.
Podocyte GSK3 is an evolutionarily conserved critical regulator of kidney function (2019)

Albuminuria affects millions of people, and is an independent risk factor for kidney failure, cardiovascular morbidity and death. The key cell that prevents albuminuria is the terminally differentiated glomerular podocyte. Here we report the evolutionary importance of the enzyme Glycogen Synthase Kinase 3 (GSK3) for maintaining podocyte function in mice and the equivalent nephrocyte cell in Drosophila. Developmental deletion of both GSK3 isoforms (α and β) in murine podocytes causes late neonatal death associated with massive albuminuria and renal failure. Similarly, silencing GSK3 in nephrocytes is developmentally lethal for this cell. Mature genetic or pharmacological podocyte/nephrocyte GSK3 inhibition is also detrimental; producing albuminuric kidney disease in mice and nephrocyte depletion in Drosophila. Mechanistically, GSK3 loss causes differentiated podocytes to re-enter the cell cycle and undergo mitotic catastrophe, modulated via the Hippo pathway but independent of Wnt-β-catenin. This work clearly identifies GSK3 as a critical regulator of podocyte and hence kidney function.
Partially-Coupledd–q–0 Components of Magnetically-Isolated FSCW IPM Machines With Open-End-Winding Drives (2020)

Fractional-slot concentrated winding interior permanent magnet (FSCW-IPM) machines have been designed with very low winding mutual inductance for magnetic isolation features required for improving their fault-tolerant capabilities. These magnetically-isolated FSCW-IPM machines no longer adhere to the preconditions required for a conventional abc-to-dq0 transformation. As a result, it is found in this article that d-, q-axes could couple with 0-axis in magnetically-isolated FSCW-IPM machines. Considering the second-order reluctance component, this phenomenon leads to third-harmonic injection in phase voltages during normal operation, which can be cancelled out in terms of line-to-line voltage for Y-connected three-phase system. However, for open-end-winding machine drives without winding neutral point constraint, these voltage harmonics will show up in the winding voltage waveforms. Study shows that the amplitudes of these extra harmonics are determined by both saliency ratio and zero-axis current. The bandwidth of the proportional integral (PI) current regulator as well as switching frequency should be carefully determined to be able to take into account the major harmonics injected in phase voltages. Experimental verification on a 12-slot/10-pole prototype machine with spoke PMs has been carried out to show the impact of this phenomenon.
Data from Distinguishing Inflammation from Tumor and Peritumoral Edema by Myeloperoxidase Magnetic Resonance Imaging (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; Inflammation occurs routinely when managing gliomas and is not easily distinguishable from tumor regrowth by current MRI methods. The lack of noninvasive technologies that monitor inflammation prevents us to understand whether it is beneficial or detrimental for the patient, and current therapies do not take this host response in consideration. We aim to establish whether a gadolinium (Gd)-based agent targeting the inflammatory enzyme myeloperoxidase (MPO) can selectively detect intra- and peritumoral inflammation as well as glioma response to treatment by MRI.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Methods:&lt;/b&gt; We carried out serial Gd-bis-5-HT-DTPA (MPO-Gd) MRI before and after treating rodent gliomas with different doses of oncolytic virus (OV) and analyzed animal survival. The imaging results were compared with histopathologic and molecular analyses of the tumors for macrophage/microglia infiltration, virus persistence, and MPO levels.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; Elevated MPO activity was observed by MRI inside the tumor and in the peritumoral cerebrum at day 1 post–OV injection, which corresponded with activation/infiltration of myeloid cells inhibiting OV intratumoral persistence. MPO activity decreased, whereas tumor size increased, as the virus and the immune cells were cleared (days 1–7 post–OV injection). A 10-fold increase in viral dose temporally decreased tumor size, but augmented MPO activity, thus preventing extension of viral intratumoral persistence.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; MPO-Gd MRI can distinguish enhancement patterns that reflect treatment-induced spatiotemporal changes of intratumoral and intracerebral inflammation from those indicating tumor and peritumoral edema. This technology improves the posttreatment diagnosis of gliomas and will increase our understanding of the role of inflammation in cancer therapy. &lt;i&gt;Clin Cancer Res; 17(13); 4484–93. ©2011 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
CMOS-based monitoring of contact events up to 4 MHz in ohmic RF MEMS switches (2010)

This paper presents an ultra-low power, fully electronic methodology for real-time monitoring of the contact events of ohmic RF MEMS switches. The measurement is based on a resistive readout circuit composed of 67 transistors with a 105 µm × 105 µm footprint. This is coupled with a novel implementation of a single-crystal silicon switch capable of operating from DC-40 GHz. The CMOS readout electronics tap the RF circuitry through two 1.6 kΩ resistors that add negligible insertion loss to the switch. Experimental and theoretical results demonstrate that timing information for the switch contact behavior is accurately measured for all consecutive bounce events that occur during the time it takes for the switch to come to a fully closed state (25–30 µs). A simple one-dimensional contact model agrees to within 10–20% with the measured landing times. In addition, a finite contact duration of 2–3 µs for each landing is accurately captured experimentally. This demonstrates the potential of this technique to real-time on-chip dynamic monitoring of contacts for packaged RF MEMS switches through their entire lifetime and after their integration in the final system.
Lessons Learned from Whole Exome Sequencing in Multiplex Families Affected by a Complex Genetic Disorder, Intracranial Aneurysm (2015)

Genetic risk factors for intracranial aneurysm (IA) are not yet fully understood. Genomewide association studies have been successful at identifying common variants; however, the role of rare variation in IA susceptibility has not been fully explored. In this study, we report the use of whole exome sequencing (WES) in seven densely-affected families (45 individuals) recruited as part of the Familial Intracranial Aneurysm study. WES variants were prioritized by functional prediction, frequency, predicted pathogenicity, and segregation within families. Using these criteria, 68 variants in 68 genes were prioritized across the seven families. Of the genes that were expressed in IA tissue, one gene (TMEM132B) was differentially expressed in aneurysmal samples (n=44) as compared to control samples (n=16) (false discovery rate adjusted p-value=0.023). We demonstrate that sequencing of densely affected families permits exploration of the role of rare variants in a relatively common disease such as IA, although there are important study design considerations for applying sequencing to complex disorders. In this study, we explore methods of WES variant prioritization, including the incorporation of unaffected individuals, multipoint linkage analysis, biological pathway information, and transcriptome profiling. Further studies are needed to validate and characterize the set of variants and genes identified in this study.
Interfacial Effects on Lithium Superoxide Disproportionation in Li-O2 Batteries (2015)

During the cycling of Li-O2 batteries the discharge process gives rise to dynamically evolving agglomerates composed of lithium-oxygen nanostructures; however, little is known about their composition. In this paper, we present results for a Li-O2 battery based on an activated carbon cathode that indicate interfacial effects can suppress disproportionation of a LiO2 component in the discharge product. High-intensity X-ray diffraction and transmission electron microscopy measurements are first used to show that there is a LiO2 component along with Li2O2 in the discharge product. The stability of the discharge product was then probed by investigating the dependence of the charge potential and Raman intensity of the superoxide peak with time. The results indicate that the LiO2 component can be stable for possibly up to days when an electrolyte is left on the surface of the discharged cathode. Density functional calculations on amorphous LiO2 reveal that the disproportionation process will be slower at an electrolyte/LiO2 interface compared to a vacuum/LiO2 interface. The combined experimental and theoretical results provide new insight into how interfacial effects can stabilize LiO2 and suggest that these interfacial effects may play an important role in the charge and discharge chemistries of a Li-O2 battery.
Effects of Growth Hormone-Releasing Factor on Growth Hormone Secretion in Acromegaly∗ (1985)

Twenty-nine patients with acromegaly (8 untreated and 21 previously treated in various ways) and 16 normal men were given iv bolus doses of human pancreatic tumor GH-releasing factor (hpGRF-40). Twenty-five of the 29 patients responded to hpGRF-40 with elevations of plasma GH. The magnitude of the responses varied widely. Responses of untreated patients were generally similar to those of the normal subjects. Previously treated patients had a significantly lower response than normal individuals [change in GH, 7.5 +/- 1.8 vs. 42.0 +/- 11.0 ng/ml (mean +/- SEM); P less than 0.01], and 4 patients who had received radiation therapy failed to respond to hpGRF-40. There was no significant correlation between the magnitude of the response and patients' age, sex, baseline GH levels, GH responsiveness of TRH, or GH suppression after oral glucose administration. Patients studied both pre- and postoperatively were responsive to hpGRF-40 at all times tested, but the magnitude of the response decreased after successful surgical removal of the adenoma. Thus, most patients with treated or untreated acromegaly respond to hpGRF-40, but their responses do not clearly distinguish them from normal subjects. GH-releasing hormone testing is unlikely to replace other endocrine tests available for the diagnosis and evaluation of acromegaly.
Exchange Transfusion with Albumin-Heme as an Artificial O2-Infusion into Anesthetized Rats:  Physiological Responses, O2-Delivery, and Reduction of the Oxidized Hemin Sites by Red Blood Cells (1999)

Human serum albumin (HSA) incorporating synthetic hemes, the tetrakis(o-pivalamido)phenylporphinatoiron(II) derivative (FeP), is an artificial hemoprotein (HSA-FeP) which is able to reversibly bind and release dioxygen under physiological conditions (in aqueous media, pH 7.4, 37 degrees C) like hemoglobin and myoglobin. Physiological responses to exchange transfusion with HSA-FeP solution [[HSA], 5 g/dL; FeP/HSA, 4 (mol/mol)] into rats after hemodilution and hemorrhage (Hct, about 10%) has been evaluated. The declined mean arterial pressure (MAP) and blood flow after a 70% exchange with HSA and the further 40% bleeding of blood were significantly recovered up to about 90% of the baseline values by the injection of HSA-FeP. Furthermore, the renal cortical O(2)-tensions and skeletal tissue O(2)-tensions were also increased, indicating the in vivo O(2)-delivery of HSA-FeP. Autoxidation of ferrous Fe(II)P to ferric Fe(III)P was retarded in the blood stream; the half-lifetime of the dioxygenated FeP [tau(1/2)(O(2))] in vivo was 4.1 h [cf. 1.0 h (in vitro)]. It has been found that autooxidized Fe(III)P was certainly reduced in the whole blood suspension. Physiological concentrations of ascorbic acid continuously provided by red blood cells probably rereduces Fe(III)P, leading to the apparent long lifetime of the dioxygenated species of FeP.
Roll-forward checkpointing schemes (1994)

In modular redundant systems, tasks are replicated to achieve fault-tolerance. Checkpointing schemes that exploit replication can achieve better performance than the ones that ignore how the fault detection mechanism is implemented [24]. This Chapter presents two such schemes named Dynamic Roll-Forward Checkpointing Scheme and the Static Roll-Forward Checkpointing Scheme.