gebhart/patrepeval huggingface dataset:
Glycolysis, but not Mitochondria, responsible for intracellular ATP distribution in cortical area of podocytes (2015)

Differentiated podocytes, a type of renal glomerular cells, require substantial levels of energy to maintain glomerular physiology. Mitochondria and glycolysis are two major producers of ATP, but the precise roles of each in podocytes remain unknown. This study evaluated the roles of mitochondria and glycolysis in differentiated and differentiating podocytes. Mitochondria in differentiated podocytes are located in the central part of cell body while blocking mitochondria had minor effects on cell shape and migratory ability. In contrast, blocking glycolysis significantly reduced the formation of lamellipodia, a cortical area of these cells, decreased the cell migratory ability and induced the apoptosis. Consistently, the local ATP production in lamellipodia was predominantly regulated by glycolysis. In turn, synaptopodin expression was ameliorated by blocking either mitochondrial respiration or glycolysis. Similar to differentiated podocytes, the differentiating podocytes utilized the glycolysis for regulating apoptosis and lamellipodia formation while synaptopodin expression was likely involved in both mitochondrial OXPHOS and glycolysis. Finally, adult mouse podocytes have most of mitochondria predominantly in the center of the cytosol whereas phosphofructokinase, a rate limiting enzyme for glycolysis, was expressed in foot processes. These data suggest that mitochondria and glycolysis play parallel but distinct roles in differentiated and differentiating podocytes.
Dietary n−3 polyunsaturated fatty acids increase T‐lymphocyte phospholipid mass and acyl‐CoA binding protein expression (2005)

Dietary flaxseed oil, which is enriched in alpha-linolenic acid, and fish oil, which is enriched in EPA and DHA, possess anti-inflammatory properties when compared with safflower oil, which is enriched in linoleic acid. The influence of flaxseed oil and fish oil feeding on lipid metabolism in T-lymphocytes is currently unknown. This study directly compared the effects of feeding safflower oil, flaxseed oil, and fish oil for 8 wk on splenic T-lymphocyte proliferation, phospholipid mass, and acyl-CoA binding protein expression in the rat. The data show that both flaxseed oil and fish oil increased acyl-CoA binding protein expression and phosphatidic acid mass in unstimulated T-lymphocytes when compared with safflower oil feeding. Fish oil feeding increased cardiolipin mass, whereas flaxseed oil had no effect. After stimulation, flaxseed oil and fish oil blunted T-lymphocyte interleukin-2 production and subsequent proliferation, which was associated with the lack of increased acyl-CoA binding protein expression. The results reported show evidence for a novel mechanism by which dietary flaxseed oil and fish oil suppress T-lymphocyte proliferation via changes in acyl-CoA binding protein expression and phospholipid mass.
High-efficiency InGaN/GaN/AlGaN light-emitting diodes with short-period InGaN/GaN superlattice for 530–560 nm range (2010)

A new method of forming the active region in high-efficiency InGaN/GaN/AlGaN light-emitting diode (LED) structure for long-wave green range is described. The introduction of a short-period InGaN/GaN superlattice situated immediately under the emitting quantum well and overgrown with GaN layer at reduced temperature leads to a more than tenfold increase in the efficiency of emission. For the proposed LEDs, the maximum quantum efficiency was 12% at 552 nm and 8% at 560 nm.
Effects of some Process Parameters on the Structure and Properties of Vortex Spun Yarn (2006)

The effects of a number of process parameters, including the nozzle angle, nozzle pressure, spindle diameter, yarn delivery speed, and distance between the front roller and the spindle, on the structure and properties of vortex spun yarns were investigated. A modified version of the tracer fiber technique ( J. Text. Inst.,43, T60-T66, 1952) combined with the Image Analysis Application Version 3.0 (B.A.R.N. Engineering) was utilized to explore yarn structure. The migration behavior of fibers was characterized using the migration parameters introduced by Hearle et al. ( Text. Res. J.,35, 329-334,788-795, 1965). The results showed that the short front roller to the spindle distance caused better evenness, low imperfections, and less hairiness. High nozzle angle, high nozzle pressure, low yarn delivery speed and small spindle diameter reduced hairiness as well. High nozzle angle, high nozzle pressure and low speed also led to higher fiber migration. Surprisingly nozzle angle, nozzle pressure or delivery speed did not have any significant effects on yarn tensile properties. This is believed to be caused by the relatively small differences between the levels of these parameters used in the trials. The present study provides a window into the vortex spinning technology, but further research needs to be conducted to establish a “process-structure-property model” for vortex yarns.
Administration of aerosolized SARS-CoV-2 to K18-hACE2 mice uncouples respiratory infection from fatal neuroinvasion (2022)

The development of a tractable small animal model faithfully reproducing human coronavirus disease 2019 pathogenesis would arguably meet a pressing need in biomedical research. Thus far, most investigators have used transgenic mice expressing the human ACE2 in epithelial cells (K18-hACE2 transgenic mice) that are intranasally instilled with a liquid severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) suspension under deep anesthesia. Unfortunately, this experimental approach results in disproportionate high central nervous system infection leading to fatal encephalitis, which is rarely observed in humans and severely limits this model’s usefulness. Here, we describe the use of an inhalation tower system that allows exposure of unanesthetized mice to aerosolized virus under controlled conditions. Aerosol exposure of K18-hACE2 transgenic mice to SARS-CoV-2 resulted in robust viral replication in the respiratory tract, anosmia, and airway obstruction but did not lead to fatal viral neuroinvasion. When compared with intranasal inoculation, aerosol infection resulted in a more pronounced lung pathology including increased immune infiltration, fibrin deposition, and a transcriptional signature comparable to that observed in SARS-CoV-2–infected patients. This model may prove useful for studies of viral transmission, disease pathogenesis (including long-term consequences of SARS-CoV-2 infection), and therapeutic interventions.
Effects of competitive binding on the amperometric determination of copper with electrodes modified with chromotrope 2B (1991)

Electrodes modified with Chromotrope 2B incorporated by ion-exchange into a polycationic film of electropolymerized [Ru(v-bpy)(3)](2+) (v-bpy = 4-vinyl-4'-methyl-2,2'-bipyridyl) have been employed in the amperometric determination of copper in solution and exhibit very high sensitivity as well as linear calibration curves in the concentration range 7 x 10(-8)-1 x 10(-4)M. The effects of competing ligands, including chloride, bromide, oxalate, ammonia, acetate, citrate, borate, humic and fulvic acids, or the presence of competing metal ions such as cobalt or nickel on the uptake of copper by the modified electrodes have also been studied. The presence of competing ligands or metal ions decreases the analytical signal due to copper incorporation. The magnitude of this effect is dependent on the relative strength of coordination of the competing ligands for copper ions or of Chromotrope 2B for the competing metals, and also on the concentration of the interferents. The relevance of this work to speciation studies is discussed.
Ribotoxic Stress Sensitizes Glioblastoma Cells to Death Receptor–Induced Apoptosis: Requirements for c-Jun NH2-Terminal Kinase and Bim (2007)

A prominent feature of glioblastoma is its resistance to death receptor-mediated apoptosis. In this study, we explored the possibility of modulating death receptor-induced cell death with the c-Jun-NH2-terminal kinase (JNK) activator anisomycin. Anisomycin activates JNK by inactivating the ribosome and inducing "ribotoxic stress." We found that anisomycin and death receptor ligand anti-Fas antibody CH-11 or tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) synergistically induce apoptosis in multiple human glioblastoma cell lines. For example, in U87 cells, anisomycin reduced the IC50 of CH-11 by more than 20-fold (from 500 to 25 ng/mL). Cell viability in response to anisomycin, CH-11, and their combination was 79%, 91%, and 28% (P<0.001), respectively. Anisomycin and TRAIL were found to be similarly synergistic in glioblastoma cells maintained as tumor xenografts. The potentiation of death receptor-dependent cell death by anisomycin was specific because emetine, another ribosome inhibitor that does not induce ribotoxic stress or activate JNK, did not have a similar effect. Synergistic cell death was predominantly apoptotic involving both extrinsic and intrinsic pathways. Expression of Fas, FasL, FLIP, and Fas-associated death domain (FADD) was not changed following treatment with anisomycin+CH-11. JNK was activated 10- to 22-fold by anisomycin+CH-11 in U87 cells. Inhibiting JNK activation with pharmacologic inhibitors of JNKK and JNK or with dominant negative mitogen-activated protein kinase (MAPK) kinase kinase 2 (MEKK2) significantly prevented cell death induced by the combination of anisomycin+CH-11. We further found that anisomycin+CH-11 up-regulated the proapoptotic protein Bim by approximately 14-fold. Simultaneously inhibiting Bim expression and JNK activation additively desensitized U87 cells to anisomycin+CH-11. These findings show that anisomycin-induced ribotoxic stress sensitizes glioblastoma cells to death receptor-induced apoptosis via a specific mechanism requiring both JNK activation and Bim induction.
Optimization of Turbocharger Ported Shroud Compressor Stages (2009)

With increasing low-end torque and high-power requirements, passenger vehicle applications need large map-width compressor-stages at high-pressure ratio (3.0 and above). Compressor stages in which wheels operate in a normal housing exhibit limitations in stability at high-pressure ratio and in maximal flow capacity. The application of a ported shroud typically improves the surge characteristics of a centrifugal compressor. In this paper, an optimisation procedure for ported-shroud compressor stages was developed based on Design Of Experiment (DOE) procedure. Two DOE procedures are used. The first one is used to optimize the port location, wheel exducer width and diffuser width; the second is used to optimise the housing volute throat area, diffuser width and diffuser outlet radius. The compressor-stage performance was obtained by using a commercial CFD package. After the first DOE, an experimental DOE with a reduced design space was carried out to obtain the optimised port location and wheel exducer width. After the second DOE and optimization, only most promising configurations were manufactured for tests. The DOEs’ procedures and results as well as the CFD results are discussed and analyzed in the paper. Finally, the relative difference between the CFD and tests are discussed. In comparison to the baseline ported-shroud housing, the final configuration has improved map width by 9%, an increased pressure ratio by 0.2 and a higher peak efficiency by about 1 point.
Imaging Findings in Limb-Sparing Surgery and Endoprosthetic Placement for Shoulder Girdle Neoplasia (2006)

Restricted accessAbstractFirst published online January 5, 2023Imaging Findings in Limb-Sparing Surgery and Endoprosthetic Placement for Shoulder Girdle NeoplasiaR. Masamed, T.J. Learch, and L.R. MenendezView all authors and affiliationsVolume 54, Issue 1_supplhttps://doi.org/10.1177/108155890605401S93
Toward common patterns for distributed, concurrent, fault-tolerant code (2013)

There are no widely accepted design patterns for writing distributed, concurrent, fault-tolerant code. Each pro-grammer develops her own techniques for writing this type of complex software. The use of a common pat-tern for fault-tolerant programming has the potential to produce correct code more quickly and increase shared understanding between developers. We describe rules, tasks, and pools, patterns extracted from the development of RAMCloud, a fault-tolerant datacenter storage system. We illustrate their application and discuss their relationship to concurrent programming models. Our goal is to generate discussion that will ulti-mately lead to common techniques for fault-tolerant pro-gramming. 1
Disordering in 69GaAs/71GaAs isotope superlattice structures (1992)

Undoped 69GaAs/71GaAs isotope superlattice structures grown by molecular beam epitaxy on n-type GaAs substrates, doped by Si to ∼3×1018 cm−3, have been used to study Ga self-diffusion in GaAs by disordering reactions. In the temperature range of 850–960 °C, the secondary ion mass spectrometry (SIMS) measured Ga self-diffusivity values showed an activation enthalpy of 4 eV, and are larger than previously compiled Ga self-diffusivity and Al-Ga interdiffusivity values obtained under thermal equilibrium and intrinsic conditions, which are characterized by a 6 eV activation enthalpy. Characterizations by SIMS, capacitance-voltage (C-V), and transmission electron microscopy showed that the as-grown superlattice layers were intrinsic which turned into p type with hole concentrations of ∼2×1017 cm−3 after annealing, because the layers contain carbon. Dislocations of a density of ∼106–107 cm−2 were also present. However, the factor responsible for the presently observed larger Ga self-diffusivity values appears to be Si out-diffusion from the substrate, which was determined using C-V measurements. Out-diffusion of Si decreases the electron concentration in the substrate which causes the release of Ga vacancies into the superlattice layers where they become supersaturated. This Ga vacancy supersaturation leads to enhanced Ga self-diffusion in the superlattice layers.
Novel Stealthy Gd(III)-DOTA/polymer Conjugates for Magnetic Resonance Imaging (MRI) (2009)

Magnetic resonance imaging (MRI) is a routine diagnostic tool in modern clinical medicine. MRI has many advantages as a diagnostic imaging modality. It is noninvasive, delivers no radiation, and has excellent (submillimeter) spatial resolution. Some Gadolinium(III) complexes are commonly used to enhance the contrast between adjacent tissues when the resolution/sensitivity of MRI is too low. Because free Gd3+ is very toxic in doses required for MRI, Gd(III) is chelated by poly(amino-carboxylate) such as diethylenetriamine pentaacetic acid (DTPA) or 1,4,7,10-Tetraazacyclododecane-1,4,7,10-tetraacetic acid (DOTA). Although DTPA/Gd3+ and DOTA/Gd3+ are water soluble, they have a very short circulation lifetime in blood, a low molecular weight and a short rotational time that make the contrast poor. To enhance the contrast, the Gd3+/complex doses have to be increased. In order to increase the sensitivity of the technique, while not increasing the concentration of the contrast agent, we were investigating different strategies to improve (i) the circulation lifetime in blood, (ii) the relaxation rate of Gd(III) (and consequently, the contrasting efficiency) and (iii) the targeting of the contrast agent. This presentation aims at reporting how a multifunctional (co)polymer can be designed and exploited for improving the contrasting ability and bioavailability of gadolinium-based complexes.
Stratum Corneum Defensive Functions: An Integrated View (2005)

Most epidermal functions can be considered as protective, or more specifically, as defensive in nature. Yet, the term "barrier function" is often used synonymously with only one such defensive function, though arguably its most important, i.e., permeability barrier homeostasis. Regardless of their relative importance, these protective cutaneous functions largely reside in the stratum corneum (SC). In this review, I first explore the ways in which the multiple defensive functions of the SC are linked and interrelated, either by their shared localization or by common biochemical processes; how they are co-regulated in response to specific stressors; and how alterations in one defensive function impact other protective functions. Then, the structural and biochemical basis for these defensive functions is reviewed, including metabolic responses and signaling mechanisms of barrier homeostasis. Finally, the clinical consequences and therapeutic implications of this integrated perspective are provided.
GENE PROFILING OF LUNG CANCER AMONG NON- SMALL CELL LUNG CANCER PATIENTS IN ALEXANDRIA, EGYPT (2022)

Lung cancer is among the most common cancers worldwide. Data from the International Agency for Research on Cancer indicate that it is the second most common cancer worldwide with an incidence of 2,206,771 cases in 2020 after breast cancer. It is the most common cause of cancer related mortality with estimated 1.8 million lung cancer related deaths in 2020 according to the WHO. Over time, various oncogenic driver mutations have been discovered in non-small cell lung cancer. This has made it possible to categorize this disease into therapeutically useful molecular subgroups, leading to the creation of target therapies that have resulted in better clinical outcomes. These genetic mutations include EGFR, ALK, ROS 1, KRAS, BRAF, HER 2, NTRK, MET and RET alterations. Studies have shown that the prevalence of some genetic markers may vary with race and ethnicity with majority of previous studies having been done on the Caucasian population.AIM:The primary objective of this study was to find out the genetic profiles of NSCLC patients seen in Alexandria University Clinical Oncology Department, Egypt. The secondary objectives were to evaluate the prevalence of various genetic profiles, to determine the clinicopathological characteristics as well as to estimate survival in these patients.
Mechanical Properties of Epoxy Nanocomposites Reinforced with Very Low Content of Amino-Functionalized Single-Walled Carbon Nanotubes (2010)

Functionalized single-walled carbon nanotubes (SWNTs) with amino groups were prepared by oxidation, acylation, and amidation of SWNT surfaces. Epoxy/SWNT composite membranes were fabricated using a very low content of amino-grafted SWNTs (< or = 0.08 wt%) as fillers. SWNTs with amino groups acted as a curing agent, covalently bonding to the epoxy matrix. The influence of SWNT content on the mechanical properties of epoxy/amino-functionalized SWNT composite membrane was investigated. It is found that the tensile strength of composites is enhanced with the increase of SWNTs. Only 0.01 wt% of SWNT-R-NH, leads to improvement of the epoxy tensile strength by 9.5%, and 0.08 wt% of SWNT-R-NH2 increased tensile strength by 13.6%. For comparison purposes, epoxy/pristine-SWNT films were also prepared. The improvement of the tensile strength of the amino-functionalized SWNTs system is more remarkable than that of pristine SWNT system at very low weight-percentage loading. The amino groups on the surface of SWNTs can be covalently attached to the epoxy matrix, which effectively improves the dispersion and adhesion of SWNTs in epoxy. This leads to the enhancement in mechanical properties of the epoxy composite. Mechanical results between functionalized and pristine nanotubes are discussed in detail.
Computational and cellular studies reveal structural destabilization and degradation of MLH1 variants in Lynch syndrome (2019)

Abstract Defective mismatch repair leads to increased mutation rates, and germline loss-of-function variants in the repair component MLH1 cause the hereditary cancer predisposition disorder known as Lynch syndrome. Early diagnosis is important, but complicated by many variants being of unknown significance. Here we show that a majority of the disease-linked MLH1 variants we studied are present at reduced cellular levels. We show that destabilized MLH1 variants are targeted for chaperone-assisted proteasomal degradation, resulting also in degradation of co-factors PMS1 and PMS2. In silico saturation mutagenesis and computational predictions of thermodynamic stability of MLH1 missense variants revealed a correlation between structural destabilization, reduced steady-state levels and loss-of-function. Thus, we suggest that loss of stability and cellular degradation is an important mechanism underlying many MLH1 variants in Lynch syndrome. Combined with analyses of conservation, the thermodynamic stability predictions separate disease-linked from benign MLH1 variants, and therefore hold potential for Lynch syndrome diagnostics.
Method for a GPS Receiver (2002)

We develop a maximum-likelihood bit synchronization algorithm. This algorithm computes an estimate of the bit energy for all possible bit boundary candidates and chooses that candidate which maximizes the energy. Means to estimate whether the received signal contains enough bit value changes are also presented. The effect of frequency error is analyzed. It is shown that small frequency errors can be tolerated. Furthermore a way to deal with larger errors is developed. Computer simulations show that the new algorithm is efficient in handling a very weak received signal.
The Influence of Pain Sensitivity on theSymptom Severity in Patients with LumbarSpinal Stenosis (2013)

The current study suggests that the pain sensitivity could be a determining factor for symptom severity in the degenerative spinal disease.
Influence of Alumina Addition on the Optical Properties and the Thermal Stability of Titania Thin Films and Inverse Opals Produced by Atomic Layer Deposition (2021)

TiO<sub>2</sub> thin films deposited by atomic layer deposition (ALD) at low temperatures (<100 °C) are, in general, amorphous and exhibit a smaller refractive index in comparison to their crystalline counterparts. Nonetheless, low-temperature ALD is needed when the substrates or templates are based on polymeric materials, as the deposition has to be performed below their glass transition or melting temperatures. This is the case for photonic crystals generated via ALD infiltration of self-assembled polystyrene templates. When heated up, crystal phase transformations take place in the thin films or photonic structures, and the accompanying volume reduction as well as the burn-out of residual impurities can lead to mechanical instability. The introduction of cation doping (e.g., Al or Nb) in bulk TiO<sub>2</sub> parts is known to alter phase transitions and to stabilize crystalline phases. In this work, we have developed low-temperature ALD super-cycles to introduce Al<sub>2</sub>O<sub>3</sub> into TiO<sub>2</sub> thin films and photonic crystals. The aluminum oxide content was adjusted by varying the TiO<sub>2</sub>:Al<sub>2</sub>O<sub>3</sub> internal loop ratio within the ALD super-cycle. Both thin films and inverse opal photonic crystal structures were subjected to thermal treatments ranging from 200 to 1200 °C and were characterized by in- and ex-situ X-ray diffraction, spectroscopic ellipsometry, and spectroscopic reflectance measurements. The results show that the introduction of alumina affects the crystallization and phase transition temperatures of titania as well as the optical properties of the inverse opal photonic crystals (iPhC). The thermal stability of the titania iPhCs was increased by the alumina introduction, maintaining their photonic bandgap even after heat treatment at 900 °C and outperforming the pure titania, with the best results being achieved with the super-cycles corresponding to an estimated alumina content of 26 wt.%.