gebhart/patrepeval huggingface dataset:
Identification of the Electrophilic Substrate‐Binding Site of Glutathione S‐Transferase P by Photoaffinity Labeling (1995)

We determined the electrophilic substrate-binding site of rat glutathione S-transferase P (GST-P) by photoaffinity labeling using the photosensitive compound S-[2-(2-fluoro-4-nitrophenoxy)ethyl]glutathione. This photosensitive glutathione analogue inhibited the catalytic activity in a competitive manner against both glutathione and 1-chloro-2,4-dinitrobenzene, a putative electrophilic substrate. The enzyme kinetics indicated that the photoactivatable glutathione analogue was specifically bound at the active site, which consisted of glutathione-binding (G-site) and the electrophilic substrate-binding (H-site) regions. The procedure involved the following steps: S-[2-(2-fluoro-4-nitrophenoxy)ethyl]glutathione was photochemically reacted with a purified recombinant GST-P expressed in Escherichia coli using ultraviolet irradiation for 30 min on ice. After the reaction, only the GST-P complexed with the glutathione analogue was prepared with glutathione-immobilized agarose. The GST-P covalently bound with the analogue was digested with lysyl endopeptidase (Achromobacter protease I), and the peptides were separated by high-performance liquid chromatography. Only a single major peak with appreciable absorbance at 340 nm was observed by peptide mapping. The peptide was collected and analyzed using an automated peptide sequencer (ABI 477A). Amino acid sequence analysis showed that this peptide consisted of seven amino acid residues corresponding to the sequence at positions 122-128 of GST-P (Ala-Leu-Pro-Gly-Xaa-Leu-Lys). No appreciable phenylthiohydantoin-amino acid was detected at the fifth cycle, which indicated that His126 was chemically labeled with the photosensitive glutathione analogue. It was concluded that His126 was one of the amino acid residues forming the electrophilic substrate-binding site of GST-P.
Biologically active molecules that reduce polyglutamine aggregation and toxicity (2006)

Polyglutamine expansion in certain proteins causes neurodegeneration in inherited disorders such as Huntington disease and X-linked spinobulbar muscular atrophy. Polyglutamine tracts promote protein aggregation in vitro and in vivo with a strict length-dependence that strongly implicates alternative protein folding and/or aggregation as a proximal cause of cellular toxicity and neurodegeneration. We used an intracellular polyglutamine protein aggregation assay based on fluorescence resonance energy transfer (FRET) to identify inhibitors of androgen receptor (AR) aggregation in three libraries of biologically active small molecules: the Annotated Compound Library, the NINDS Custom Collection and a kinase inhibitor collection. In the primary screen 10 compounds reduced AR aggregation. While 10/10 also reduced huntingtin (Htt) exon 1 aggregation, only 2/10 reduced aggregation of pure polyglutamine peptides. In a PC-12 model 9/10 compounds reduced aggregation. Five out of nine compounds tested in an Htt exon 1 assay of neurodegeneration in Drosophila partially rescued the phenotype. Three of the five compounds effective in flies are FDA-approved drugs. These compounds provide new leads for therapeutic development for the polyglutamine diseases based on their efficacy in mammalian cells and a Drosophila model. The high predictive value of the primary screen suggests that the FRET-based screening assay may be useful for further primary and secondary screens for genes or small molecules that inhibit polyglutamine protein aggregation.
Inzidenz und Auswirkung der kavitären Otosklerose bei CI versorgten Patienten (2022)

Einleitung Otosklerose kann zu einem sensorineuralen Hörverlust führen und eine Cochlea-Implantation (CI) rechtfertigen. Eine spezielle Form der Otosklerose ist die kavitäre Otosklerose, bei der Kavitäten im inneren Gehörgang gebildet werden. Ziel dieser Studie ist es, Hörergebnisse nach einer CI-Implantation bei Patienten mit/ohne kavitärer Otosklerose zu vergleichen.
Ultraviolet photoelectron spectra of cyclohepta-1,3,5-triene and mesitylene tricarbonyl complexes of the Group 6A metals (1977)

M. Gower, L. A. P. Kane-Maguire, J. P. Maier and D. A. Sweigart, J. Chem. Soc., Dalton Trans., 1977, 316 DOI: 10.1039/DT9770000316
A networking architecture for mobility services using mobile agent approach (2002)

We propose a scalable service networking architecture as a TINA-like environment for providing various mobility services. The proposed architecture provides an environment that enables the advent of service providers and rapidly introduces multimedia applications, considering network scalability. For supporting customized mobility services, this architecture adopts a new service component, which we call Omnipresent Personal Environment Manager (OpeMgr). In order to support mobile users who move between heterogeneous networks, for instance, between the TINA-like environment and the Internet environment, we propose a structure of a gateway. In addition, the proposed architecture uses the fixed and mobile agent approaches for supporting the user's mobility and we evaluated their performance comparing those approaches.
Validation of Different Approaches to Coupled Electrodynamic-Structural Mechanical Simulation of Electromagnetic Forming (2004)

Electromagnetic forming (EF) is a high speed forming process in which strain rates of over 103 s^(-1) are achieved. The workpiece is deformed by the Lorentz force resulting from the interaction of a fast varying electro magnetic field with the eddy currents induced by the field in the workpiece. Within a research group (FOR 443) funded by the German Research Foundation (DFG) an object oriented simulation tool for this multi physical process has been developed (SOFAR), that can handle the fully coupled simulation in a single software environment. In this contribution, details of the algorithmic implementation of the electromagnetic side of the coupled model are discussed and validated. Basis of this validation are benchmark simulations developed for this purpose. In particular, the implementation of transient field computation for coupled problems within SOFAR is compared with an experienced FD-code (FELMEC) developed at the Institute of Electrical Machines, Drives and Power Electronics.
Cochlear implant artifact removal methods to measure electrically evoked auditory steady-state responses (2015)

status: Published
Comparative analysis of NMR and NIRS measurements of intracellular P O 2 in human skeletal muscle (1999)

1H NMR has detected both the deoxygenated proximal histidyl NdeltaH signals of myoglobin (deoxyMb) and deoxygenated Hb (deoxyHb) from human gastrocnemius muscle. Exercising the muscle or pressure cuffing the leg to reduce blood flow elicits the appearance of the deoxyMb signal, which increases in intensity as cellular PO2 decreases. The deoxyMb signal is detected with a 45-s time resolution and reaches a steady-state level within 5 min of pressure cuffing. Its desaturation kinetics match those observed in the near-infrared spectroscopy (NIRS) experiments, implying that the NIRS signals are actually monitoring Mb desaturation. That interpretation is consistent with the signal intensity and desaturation of the deoxyHb proximal histidyl NdeltaH signal from the beta-subunit at 73 parts per million. The experimental results establish the feasibility and methodology to observe the deoxyMb and Hb signals in skeletal muscle, help clarify the origin of the NIRS signal, and set a stage for continuing study of O2 regulation in skeletal muscle.
Computationally Efficient Multiscale Neural Networks Applied to Fluid Flow in Complex 3D Porous Media (2021)

Abstract The permeability of complex porous materials is of interest to many engineering disciplines. This quantity can be obtained via direct flow simulation, which provides the most accurate results, but is very computationally expensive. In particular, the simulation convergence time scales poorly as the simulation domains become less porous or more heterogeneous. Semi-analytical models that rely on averaged structural properties (i.e., porosity and tortuosity) have been proposed, but these features only partly summarize the domain, resulting in limited applicability. On the other hand, data-driven machine learning approaches have shown great promise for building more general models by virtue of accounting for the spatial arrangement of the domains’ solid boundaries. However, prior approaches building on the convolutional neural network (ConvNet) literature concerning 2D image recognition problems do not scale well to the large 3D domains required to obtain a representative elementary volume (REV). As such, most prior work focused on homogeneous samples, where a small REV entails that the global nature of fluid flow could be mostly neglected, and accordingly, the memory bottleneck of addressing 3D domains with ConvNets was side-stepped. Therefore, important geometries such as fractures and vuggy domains could not be modeled properly. In this work, we address this limitation with a general multiscale deep learning model that is able to learn from porous media simulation data. By using a coupled set of neural networks that view the domain on different scales, we enable the evaluation of large ( $$&gt;512^3$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mo>&gt;</mml:mo> <mml:msup> <mml:mn>512</mml:mn> <mml:mn>3</mml:mn> </mml:msup> </mml:mrow> </mml:math> ) images in approximately one second on a single graphics processing unit. This model architecture opens up the possibility of modeling domain sizes that would not be feasible using traditional direct simulation tools on a desktop computer. We validate our method with a laminar fluid flow case using vuggy samples and fractures. As a result of viewing the entire domain at once, our model is able to perform accurate prediction on domains exhibiting a large degree of heterogeneity. We expect the methodology to be applicable to many other transport problems where complex geometries play a central role.
Posterior Cortical Atrophy as an Extreme Phenotype ofGRNMutations (2014)

This study extends the clinical spectrum of GRN mutations that may be responsible for a PCA phenotype. The GRN phenotypes overlap other degenerative dementias and highlight the limits of actual nosologic boundaries in dementias. The GRN gene should be analyzed in patients with PCA, particularly when the damage progresses to anterior cerebral regions and a family history of dementia is present.
Solar-blind ultraviolet photodetectors based on superlattices of AlN/AlGa(In)N (2003)

We describe solar-blind photodetectors based on superlattices of AlN/AlGa(In)N. The superlattices have a period of 1.4 nm, determined by x-ray diffraction, and an effective band gap of 260 nm measured by optical reflectivity. Using simple mesa diodes, without surface passivation, we obtain low dark leakage currents of 0.2–0.3 pA, corresponding to the leakage current density of ∼0.3 nA/cm2, and high zero-bias resistance of ∼1×1011 Ω. Excellent visible cutoff is obtained for these devices, with six orders of magnitude decrease in responsivity from 260 to 380 nm. These results demonstrate the potential of junctions formed by short-period superlattices in large-band-gap devices.
Multifunctional Photo- and Magnetoresponsive Graphene Oxide–Fe3O4 Nanocomposite–Alginate Hydrogel Platform for Ice Recrystallization Inhibition (2019)

Tuning ice recrystallization (IR) has attracted tremendous interest in fundamental research and a variety of practical applications, including food and pharmaceutical engineering, fabrication of anti-icing coating and porous materials, and cryopreservation of biological cells and tissues. Although great efforts have been devoted to modulation of IR for better microstructure control of various materials, it still remains a challenge, especially in cryopreservation, where insufficient suppression of IR during warming is fatal to the cells. Herein, we report an all-in-one platform, combining the external physical fields and the functional materials for both active and passive suppression of IR, where the photo- and magnetothermal dual-modal heating of GO-Fe<sub>3</sub>O<sub>4</sub> nanocomposites (NCs) can be used to suppress IR with both enhanced global warming and microscale thermal disturbance. Moreover, the materials alginate hydrogels and GO-Fe<sub>3</sub>O<sub>4</sub> NCs can act as IR inhibitors for further suppression of the IR effect. As a typical application, we show that this GO-Fe<sub>3</sub>O<sub>4</sub> nanocomposite-alginate hydrogel platform can successfully enable low-cryoprotectant, high-quality vitrification of stem cell-laden hydrogels. We believe that the versatile ice recrystallization inhibition platform will have a profound influence on cryopreservation and tremendously facilitate stem cell-based medicine to meet its ever-increasing demand in clinical settings.
IMPROVEMENT OF KU-FEL PERFORMANCE BY REPLACING UNDULATOR AND OPTICAL CAVITY (2012)

An upgrade project of the MIR-FEL facility developed in the Institute of Advanced Energy, Kyoto University has been in progress since 2010. The project consists of two topics; one is replacement of undulator and the other is replacement of the optical cavity mirrors. Those replacements were accomplished in January 2012. After the upgrade, we have so far succeeded in FEL lasing from 5 to 14.5 m. Details of upgrade project and design work on a new optical cavity is reported in this paper. In addition, the results of the commissioning of a newly installed undulator and optical cavity is reported.
Moving Boundary Model for the Discharge of a LiCoO[sub 2] Electrode (2007)

A moving boundary model in a spherical particle is presented to account for the diffusion controlled phase transition in solid particles, and this model is incorporated into a porous electrode model for the electrode. The simulation results agree well with the experimental data of a electrode. A study of the flux distribution in the porous electrode shows that the phase transition phenomenon in the particles has a significant effect on the flux distribution by changing the solid phase diffusion resistance in the particles.
Graphene based tunable metamaterial absorber and polarization modulation in terahertz frequency (2014)

Graphene can be utilized in designing tunable terahertz devices due to its tunability of sheet conductivity. In this paper, we combine the metamaterial having unit cell of cross-shaped metallic resonator with the double layer graphene wires to realize polarization independent absorber with spectral tuning at terahertz frequency. The absorption performance with a peak frequency tuning range of 15% and almost perfect peak absorption has been demonstrated by controlling the Fermi energy of the graphene that can be conveniently achieved by adjusting the bias voltage on the graphene double layers. The mechanism of the proposed absorber has been explored by a transmission line model and the tuning is explained by the changing of the effective inductance of the graphene wires under gate voltage biasing. Further more, we also propose a polarization modulation scheme of terahertz wave by applying similar polarization dependent absorbers. Through the proposed polarization modulator, it is able to electrically control the reflected wave with a linear polarization of continuously tunable azimuth angle of the major axis from 0° to 90° at the working frequency. These design approaches enable us to electrically control the absorption spectrum and the polarization state of terahertz waves more flexibly.
CCDC 815092: Experimental Crystal Structure Determination (2011)

An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
Epidemiology of leptospirosis. (2005)

Argentin 1 1.2 X Australin 1 1.2 0.2 Barbados 17 12 23.6 Brazil 10 18 0.8 France 24 2 X Guadeloupe/Martiniq 12 3.9 13.7 Netherland 5 23 4.9 New 8 77.4 2.6 Russian 2 1.05 X US 1 4.3 1.5 But what means « leptospirosis » ? Leptospirosis is induced by pathogenic Spirochaetales, belonging to the genus Leptospira. Now this genus is divided in several genomospecies : at least 7 for the pathogenic strains. But up to now, for experimental diagnosis and epidemiological studies, the serological classification was still used. This type of classification is based on agglutinating antibodies produced by animals infected by this bacteria. So the genus Leptospira was divided in 2 species, the saprophytic one L. biflexa s.l. and the pathogenic L. interrogans s.l. The basic taxon is the serovar. Because of close antigenic communities, several serovars are gathered in a serogroup (Usually, names of serovars and serogroups are written in roman but for the serogroup, the first letter is a capital). Each of the strains of L. interrogans s.l could induce leptospirosis. Leptospires in contaminated material may infect a man or another Mammal. Penetrating in the blood vessels, they multiply and reach several
Positive Impact of Meshing Autogenous Dermal Matrix (ADM) on Pain, Length of Stay and Length of Time Required for Post-Operative Drains in Tissue Expander Based Breast Reconstruction (2015)

INTRODUCTION: Seroma rates when ADM is used in tissue expander based breast reconstruction have been of concern.1-3 The impact of fenestrating and perforating various ADMs has been studied. 4,5 We tested a simple and reproducible method to mesh ADM. We hypothesized this would have a positive impact on postoperative drainage. MATERIALS AND METHODS: Thin Alloderm® was meshed with either a Brennan® or Zimmer® device for expander based reconstruction in a single surgeon practice over 2 years. This cohort was compared to a previous cohort, with unmeshed ADM. Drain times, length of stay (LOS), parenteral narcotic usage (mg morphine), and complication rates were compared: 36 meshed versus 116 unmeshed breasts, 19 and 84 patients respectively. T-test and Levine’s test for equality of variances were employed. Outcomes in the two groups were analyzed, controlling for variables: diabetes, hypertension, smoking status, BMI, expander size, fill volume, and prior radiation therapy. Follow up was 2 and 8 years respectively. RESULTS: In bivariate analysis, mean time for drain removal was 18(+/-5) days in meshed, versus 29(+/-19) days unmeshed, (p <0.001). Parenteral narcotic use decreased in the meshed group, (6.8 versus 29 mg morphine, p< 0.002), with no difference in intraoperative fill volumes. LOS decreased from 1.8 to 1.1 days, (p<0.002). Complication rates were not significantly different. Minor complications trended lower (13.9 % meshed versus 27.4%, p=0.09). Major complication rates (8.3% meshed versus 4.8%) were not significantly different, (p=0.42). Prior radiation was higher in the meshed group (21% versus 2%). The major complication rate trended lower (0% versus 4.8%), when discounting prior radiation. CONCLUSIONS: We present a novel, and easily reproducible technique to manipulate ADM, resulting in a significant decrease in time for drains, use of parenteral narcotics, and length of stay. Further statistical analysis is pending with a larger cohort to determine if differences in complication rates will reach statistical significance.
Data from: Drift-Corrected Seafloor Vertical Deformation at Axial Seamount 2013-2014 (2015)

This collection contains data from a Self-Calibrating Pressure Recorder (SCPR) deployed at Axial Seamount from 2013 September to 2015 August. The data include seafloor height change (cm) that have been converted from seafloor pressure (kPa). Corrections of ocean tides and pressure gauge drift have been applied to the data.
ChemInform Abstract: Dissymmetries in Fluorescence Excitation and Emission from Single Chiral Molecules (2010)

Abstract Review: 227 refs.
A Solution to the Cross-Selling Problem of PAKDD-2007 (2008)

Our team has won the Grand Champion (Tie) of PAKDD-2007 data mining competition. The data mining task is to score credit card customers of a consumer finance company according to the likelihood that customers take up the home loans offered by the company. This report presents our solution for this business problem. TreeNet and logistic regression are the data mining algorithms used in this project. The final score is based on the cross-algorithm ensemble of two within-algorithm ensembles of TreeNet and logistic regression. Finally, some discussions from our solution are presented.
Research and application of infrared leak detection technology for SF6 equipment (2018)

The infrared leak detection technology of SF6 equipment can detect and locate the gas leakage without power failure, and realize the real-time transmission of fault image, improve the efficiency of maintenance, ensure the safe and stable operation of SF6 electrical equipment. In this paper, the problem of SF6 gas leakage in Benxi Hedi 220kV substation and Liaoyang Shoushan 66kV substation is discussed. The infrared leak detection technology of SF6 equipment is studied and analyzed. This paper discusses the harm, advantage, principle and field application of infrared leak detection technology. According to different leakage reasons, the relative solutions are summarized.
2 Developmental Patterning of the Limb Skeleton (2009)

The vertebrate skeleton is composed of approximately 200 bones, ranging in shape and size from the delicate bones of the mammalian inner ear to the robust femur. Each individual bone forms in a precise location and orientation with respect to its neighbors and in relation to force generating and transmitting tissues—the muscles, tendons, and ligaments. The appropriate structure of the bones is essential for function of the skeleton to support and move the body, and depends on an array of molecular cues that pattern their formation early in development. Our knowledge of developmental mechanism patterning all tissues and organs of the body, including the skeleton, is largely derived from experiments using two model systems—chick and mouse embryos. While aspects of patterning the craniofacial and axial skeletal elements have been elucidated, development of the bones of the limbs is particularly well understood. The limbs are easily accessible for embryological manipulation and are expendable for the survival of prenatal animals, allowing for analysis of late developmental phenotypes after genetic or surgical perturbation. The developing limb bud has therefore become an important model for the investigation of cellular and molecular mechanisms that pattern the tissues that give rise to bones. The tetrapod limb is of additional interest from an evolutionary perspective because it is a conserved but malleable structure whose adaptive variations in form increase an animal’s fitness in different ecological niches—by promoting mobility, aiding in the acquisition of food, fighting against or escaping from predators, and assisting in reproduction...