gebhart/patrepeval huggingface dataset:
Real-Time Measurements of Protein Dynamics Using Fluorescence Activation-Coupled Protein Labeling Method (2011)

We present a fluorescence activation-coupled protein labeling (FAPL) method, which employs small-molecular probes that exhibit almost no basal fluorescence but acquire strong fluorescence upon covalent binding to tag-proteins. This method enables real-time imaging of protein labeling without any washout process and is uniquely suitable for real-time imaging of protein dynamics on the cell surface. We applied this method to address the spatiotemporal dynamics of the EGF receptor during cell migration.
Series Solution for Finite Displacement of Planar Four-Bar Linkages (2010)

A time-varying instantaneous screw characterizes the motion of a rigid body. The kinematic differential equation expresses the path taken by any point on that rigid body in terms of this screw. Therefore, when a revolute joint is attached to a moving link in a planar kinematic chain, the path taken by the center of that revolute joint is the solution to such an equation. The instantaneous screw of a link in that chain is in turn determined by the action of the joints connecting that link to ground, where the contribution of each joint to that instantaneous screw is determined by its actuation rate and center point. Substituting power series expansions for joint rates into the kinematic differential equations for joint centers, and expressing loop closure as a linear constraint on the instantaneous screws of the links, a recurrence relation is established that solves for the coefficients in those power series. The resulting solution is applied to determine the equilibrium pendulum tilt of the United Aircraft TurboTrain. Comparing that power series approximation with an exact kinematic analysis shows convergence properties of the series.
Wideband SPDT and SP4T RF Switches using Phase-Change Material in a SiGe BiCMOS Process (2021)

This paper presents, for the first time, high performance wideband RF switches, single pole double throw (SPDT) and single pole four throw (SP4T), using phase change material (PCM) monolithically integrated into a SiGe BiCMOS process. The insertion loss (IL) for the SPDT is less than 0.42 dB and 0.6 dB for frequencies up to 20 GHz and 60 GHz, respectively. The SP4T IL is 0.44 dB, and 0.9 dB for the aforementioned frequencies. Both of the switches achieved very good return loss and isolation. The switches are designed using a series only architecture to reduce the number of PCM devices needed to toggle while achieving more than 35 dB and 25 dB of isolation up to 20 GHz and 60 GHz respectively. A million toggling cycles for a single pole single throw (SPST) switch shows a competitive endurance in terms of insertion loss and isolation.
Protective effects of N-acetylcysteine on noise-induced hearing loss in guinea pigs. (2009)

Increasing evidence suggests the involvement of oxidative stress in noise-induced hearing loss. The present study analysed, in an animal experimental model, the time course of the pathogenic mechanisms of noise-induced cochlear damage and the efficacy of the antioxidant drug N-acetylcysteine in reducing noise ototoxicity. Animals were divided into two groups, exposed to noise one treated with N-acetylcysteine for 3 days and one (the control group) with saline. Acoustic trauma was induced by a continuous pure tone of 6 kHz, at 120 dB SPL for 30 minutes. Electrocochleographic recordings were made from an implanted round window electrode and the compound action potentials were measured daily at 2-16 kHz for 7 days. Morphological changes were analysed by scanning electron microscopy. The acoustic threshold measured 1 hour after acoustic trauma was elevated in the control group to 70-90 dB in the higher frequencies of the compound action potential audiogram, with a maximum threshold elevation ranging between 12 and 16 kHz. During the first 24 h, following acoustic trauma, there was a partial recovery of compound action potential thresholds of about 20 dB to reach a final threshold elevation of about 50-70 dB; there was no further improvement over the remaining experimental week. Animals treated with N-acetylcysteine showed a similar temporary threshold shift but a clear improvement in the recovery of compound action potential thresholds, with significantly reduced permanent threshold shift and hair cell loss. These data suggest that N-acetylcysteine is able to attenuate the toxic effect of acoustic trauma and could represent an interesting molecule for preventing inner ear injuries.
Relationship between frequency response and settling time of operational amplifiers (1974)

The effects of pole-zero pairs (doublets) on the frequency response and settling time of operational amplifiers are explored using analytical techniques and computer simulation. It is shown that doublets which produce only minor changes in circuit frequency response can produce major changes in settling time. The importance of doublet spacing and frequency are examined. It is shown that settling time always improves as doublet spacing is reduced whereas the effect of doublet frequency is different for 0.1 and 0.01 percent error bands. Finally it is shown that simple analytical formulas can be used to estimate the influence of frequency doublets on amplifier settling time.
Prozime-10 (P-10)の抗炎症作用について 第1報 実験的犬歯肉炎に対するP-10の抗炎症効果 (1984)

Beagle dogs were anesthetized with pentobarbital-Na, and waxed silk was tightened around the under cut area of the dental necks of both postmolar teeth in the upper jaw. One week later, remarkable signs of gingivitis became apparent, and gingivitis was confirmed histologically. Prozime-10 (P-10, a proteolytic enzyme) and indomethacin were givin either orally in enteric-coated capsules or parenterally (intravenously or subcutaneously) for 7consecutive days. The thickness of gingiva and the volume of exudate in the gingival poket were measured before the operation, 7days after silk ligation and after the completion of the drug administration. The effect of test drugs was evaluated in relation to these changes. Oral administration of 12.5mg/kg P-10 was quite effective in alleviating the inflammatory signs. Indomethacin (5mg/kg, p.o.) was slightly less effective, but significantly effective. In all cases of indomethacin administration, mucous diarrhoea was observed, and in some cases a visible amout of blood was mixed in the stool. No such sign was noted with P-10. The formation of granular tissue in the lamina propria of mucosa facing the waxed silk was noted characteristically in histological examinations of swollen gingiva. However, neither granular tissues nor any signs of inflammation were observed after P-10 administration.
Effects of silicon nitride passivation on isolation-blocking voltage in algan/gan high electron mobility transistors (2011)

The effects of plasma enhanced vapor deposited silicon nitride (SiNx) passivation layer thickness and the spacing between the contact windows openings in the SiNx layer on the isolation-blocking voltage of nitrogen ion implanted AlGaN/GaN high electron mobility transistors were studied. The isolation-blocking voltage was proportional to the thickness of the SiNx passivation layer. Early breakdown was observed for the samples without thick enough SiNx due to surface breakdown. The device was permanently damaged after the occurrence of this early breakdown. The dependence of the isolation-blocking voltage on the SiNx thickness was also modeled and the general trends of the simulated results were in good agreement with the experiment data. The effect of rf power used for depositing the SiNx layer on the isolation-blocking voltage was also studied. Ion bombardments during the SiNx deposition could cause the reduction of breakdown voltage. By employing optimized SiNx passivation conditions, a saturation drain current and a drain breakdown voltage of 300 mA/mm and 1000 V, respectively, for HEMTs with gate dimension of 1×200 μm2 and gate to drain distance of 37.5 μm were achieved.
The Influences of Ag Addition on Superconducting Properties and Tensile Strength for Bi-Sr-Ca-Cu-O Fibers Prepared by Pyrolysis of Organic Acid Salts (1990)

The influences of Ag addition on superconducting properties and tensile strength for Bi-Sr-Ca-Cu-O fibers prepared from the mixture of organic acid salts and oxide powders were investigated. The value of T c (end) of fibers considerably increased to 72 K from 58 K for fibers without Ag 2 O addition and the tensile strength slightly increased. These results are attributed to Ag addition enabling the annealing to 840°C.
Measurement of Baseline and Orientation between Distributed Aerospace Platforms (2013)

Distributed platforms play an important role in aerospace remote sensing, radar navigation, and wireless communication applications. However, besides the requirement of high accurate time and frequency synchronization for coherent signal processing, the baseline between the transmitting platform and receiving platform and the orientation of platform towards each other during data recording must be measured in real time. In this paper, we propose an improved pulsed duplex microwave ranging approach, which allows determining the spatial baseline and orientation between distributed aerospace platforms by the proposed high-precision time-interval estimation method. This approach is novel in the sense that it cancels the effect of oscillator frequency synchronization errors due to separate oscillators that are used in the platforms. Several performance specifications are also discussed. The effectiveness of the approach is verified by simulation results.
Stabilization of the shikimate pathway enzyme dehydroquinase by covalently bound ligand (1991)

Reversible binding of a ligand to an enzyme active site can elicit a variety of changes in the protein, such as conformational changes (close to the site of binding or communicated over long distances), changes in the ionization state of surrounding amino acid side chains, changes in the interaction of the target protein with other subunits (or other proteins), or even changes in the thermodynamic stability of the protein. Relatively little attention has been given to studying these effects in proteins to which the ligand has been irreversibly bound, yet this can be a convenient way of studying the effects of ligand binding in the absence of association/dissociation equilibria. We report the dramatic changes which occur to the shikimate pathway enzyme dehydroquinase when ligand is attached to its active site after borohydride reduction of the mechanistically important Schiff's base intermediates. The effects of this modification have been characterized by limited proteolysis, circular dichroism, guanidine hydrochloride denaturation, and differential scanning calorimetry. The conclusions from these studies are that although anchoring the ligand at the active site does not cause a gross change in conformation, it does increase markedly the conformational stability of the protein. This is conclusively established by three separate experiments: 1) the modified protein is completely resistant to proteases, whereas the unmodified protein is very susceptible to proteolysis; 2) the concentration of guanidine hydrochloride required to unfold the ligand-linked dehydroquinase is 3-4-fold greater than that of the unmodified protein; 3) the melting temperature (Tm) of the modified protein is 40 degrees C higher than that of the unmodified protein. These results are a very clear example of the thermodynamic link between ligand binding, conformational stability, and proteolytic susceptibility in vitro and will be a useful system for dissecting the contributions of individual protein-ligand interactions to these parameters.
Highly sensitive enhanced chemiluminescence immunodetection method for herpes simplex virus type 2 Western immunoblot (1992)

Three Western blot (immunoblot) methods for detecting antibodies to herpes simplex virus type 2 were compared: (i) nitrocellulose blots with 4-chloro-1-naphthol immunostaining (4CN-WB); (ii) polyvinylidene difluoride (PVDF) blots with 3,3',5,5'-tetramethylbenzidene immunostaining (TMB-WB); and (iii) PVDF blots with enhanced chemiluminescence (ECL-WB). TMB-WB was 10-fold more sensitive than 4CN-WB, while ECL-WB was as much as 500-fold more sensitive.
Large enhancement of single molecule fluorescence by coupling to hollow silver nanoshells (2012)

We investigated the effect of plasmon-enhanced fluorescence using hollow silver nanoshells and observed enhancement of a single probe's fluorescence up to a factor of 3 orders of magnitude. The enhancement of the quantum efficiency is attributed to enhanced absorption and increased radiative decay rate.
A technique for gastroplasty as a substitute for the esophagus: fundus rotation gastroplasty. (1996)

The new technique described appears to be a safe method to substitute for the intrathoracic esophagus, although oncologic radicality and long-term follow-up results after esophagectomy for carcinoma need to be evaluated.
Potentiometric Langmuir Isotherm Analysis of Histamine-Selective Molecularly Imprinted Polymer-Based Field-Effect Transistor (2018)

In this study, we report label-free and selective histamine detection using a molecularly imprinted polymer (MIP)-coated gate field-effect transistor (FET). First, we designed the histamine-selective MIP; methacrylic acid derivatives were chosen as a functional monomer to induce the change in molecular charges based on the histamine/monomer complex in the prepolymer solution, because histamine contains several hydrogen bond acceptors such as amino groups; moreover, the crosslinker/monomer ratio in the polymer was controlled to strengthen the structure of the polymer matrix and to enhance the selectivity of the MIP to histamine. As a result, the histamine-templated MIP (HMIP)-coated FET showed a good electrical response to histamine at a concentration of 100 μM and above, enabling the detection of histamine secreted from mast cells based on allergic responses. Moreover, more selective detection to histamine was realized by using an HMIP with higher crosslink density, as shown by comparing the electrical response upon adding L-histidine to an HMIP-FET, which has a similar chemical structure to histamine. The enhancement of selectivity to histamine was clarified on the basis of the binding constant estimated by potentiometric Langmuir isotherm analysis.
A Network-based End-to-End Trainable Task-oriented Dialogue System (2017)

Tsung-Hsien Wen, David Vandyke, Nikola Mrkšić, Milica Gašić, Lina M. Rojas-Barahona, Pei-Hao Su, Stefan Ultes, Steve Young. Proceedings of the 15th Conference of the European Chapter of the Association for Computational Linguistics: Volume 1, Long Papers. 2017.
Development of High Magnetization Fe<sub>3</sub>O<sub>4</sub>/Polystyrene/Silica Nanospheres via Combined Miniemulsion/Emulsion Polymerization (2006)

Monodispersed, hydrophilic, superparamagnetic magnetic nanospheres with a high fraction of magnetite were synthesized by combining modified miniemulsion/emulsion polymerization and sol-gel technique for the first time. The surface of the nanospheres was coated by a silica layer with controlled thickness. Transmission electron microscopy experimental results showed well-proportioned, equal-sized, magnetite/polystyrene (Fe3O4/PS) nanospheres with a thin silica shell. Based on the TGA data, the fraction of magnetite in the Fe3O4/PS nanospheres core was estimated to be 80 wt %. Magnetization measurements indicated that the superparamagnetic nature of the nanospheres had high saturation magnetization of 40 emu/g at 300 K. The procedures of the novel synthesis are described in detail. Also discussed are the mechanisms of the novel combined miniemulsion/emulsion polymerization processes.
The interaction of Ras with GTPase‐activating proteins (1997)

Ras plays a major role as a molecular switch in many signal transduction pathways which lead to cell growth and differentiation. The GTPase reaction of Ras is of central importance in the function of the switch since it terminates Ras-effector interactions. GTPase-activating proteins (GAPs) accelerate the very slow intrinsic hydrolysis reaction of the GTP-bound Ras by several orders of magnitude and thereby act as presumably negative regulators of Ras action. The GTP hydrolysis of oncogenic mutants of Ras remains unaltered. In this review we discuss recent biochemical and structural findings relating to the mechanism of GAP action, which strengthen the hypothesis that GAP accelerates the actual cleavage step by stabilizing the transition state of the phosphoryl transfer reaction.
Widespread Nonhematopoietic Tissue Distribution by Transplanted Human Progenitor Cells with High Aldehyde Dehydrogenase Activity (2007)

Transplanted adult progenitor cells distribute to peripheral organs and can promote endogenous cellular repair in damaged tissues. However, development of cell-based regenerative therapies has been hindered by the lack of preclinical models to efficiently assess multiple organ distribution and difficulty defining human cells with regenerative function. After transplantation into beta-glucuronidase (GUSB)-deficient NOD/SCID/mucopolysaccharidosis type VII mice, we characterized the distribution of lineage-depleted human umbilical cord blood-derived cells purified by selection using high aldehyde dehydrogenase (ALDH) activity with CD133 coexpression. ALDH(hi) or ALDH(hi)CD133+ cells produced robust hematopoietic reconstitution and variable levels of tissue distribution in multiple organs. GUSB+ donor cells that coexpressed human leukocyte antigen (HLA-A,B,C) and hematopoietic (CD45+) cell surface markers were the primary cell phenotype found adjacent to the vascular beds of several tissues, including islet and ductal regions of mouse pancreata. In contrast, variable phenotypes were detected in the chimeric liver, with HLA+/CD45+ cells demonstrating robust GUSB expression adjacent to blood vessels and CD45-/HLA- cells with diluted GUSB expression predominant in the liver parenchyma. However, true nonhematopoietic human (HLA+/CD45-) cells were rarely detected in other peripheral tissues, suggesting that these GUSB+/HLA-/CD45- cells in the liver were a result of downregulated human surface marker expression in vivo, not widespread seeding of nonhematopoietic cells. However, relying solely on continued expression of cell surface markers, as used in traditional xenotransplantation models, may underestimate true tissue distribution. ALDH-expressing progenitor cells demonstrated widespread and tissue-specific distribution of variable cellular phenotypes, indicating that these adult progenitor cells should be explored in transplantation models of tissue damage.
The late pollen‐specific actins in angiosperms (1999)

The actin gene family of Arabidopsis has eight functional genes that are grouped into two ancient classes, vegetative and reproductive, and into five subclasses based on their phylogeny and mRNA expression patterns. Progress in deciphering the functional significance of this diversity is hindered by the lack of tools that can distinguish the highly conserved subclasses of actin proteins at the biochemical and cellular level. In order to address the functional diversity of actin isovariants, we have used Arabidopsis recombinant actins as immunogens and produced several new anti-actin monoclonal antibodies. One of them, MAb45a, specifically recognizes two closely related reproductive subclasses of actins. On immunoblots, MAb45a reacts strongly with actins expressed in mature pollen but not with actins in other Arabidopsis tissues. Moreover, immunocytochemical studies show that this antibody can distinguish actin filaments in pollen tubes from those in most vegetative tissues. Peptide competition analyses demonstrate that asparagine at position 79 (Asn79) within an otherwise conserved sequence is essential for MAb45a specificity. Actins with the Asn79 epitope are also expressed in the mature pollen from diverse angiosperms and Ephedra but not from lower gymnosperms, suggesting that this epitope arose in an ancestor common to angiosperms and advanced gymnosperms more than 220 million years ago. During late pollen development in angio- sperms there is a switch in expression of actins from vegetative to predominantly reproductive subclasses, perhaps to fulfil the unique functions of pollen in fertilization.
Feasibility, Safety, and Efficacy of the CT Guided Fine Needle Aspiration Cytology (FNAC) of Lung Lesions (2007)

Aim: We assessed the safety and accuracy of the CT Guided fine needle aspiration cytology (FNAC) of lung lesions and feasibility of the same as a day care procedure at our hospital.
Optimization of Solid State Fermentation Conditions for the Production of Cellulase by Using Trichoderma Reesei (2012)

The enzyme cellulase is produced by utilizing contemptible substrates like rice bran and corn straw supplanted with
nutrient sources in Solid State Fermentation using the fungal strain Trichoderma reesei (MTCC *164). A
fermentation time of 6 days is required to obtain maximum Cellulase and AŽÂ²-glycosidase activity. The activity
decreases with further increase in fermentation period. The optimum rice bran- corn straw ratio, pH and
temperature for maximum production of Cellulase are found to be 5:5, 5 and 28A‚Â°C respectively. The crude enzyme is
partially purified by Ammonium sulphate Precipitation, Dialysis and finally Ion Exchange Chromatography. The
effect of temperature, pH and substrate concentration were also studied in the purified sample and the optimum
condition for enzyme activity is found to be pH 5.0, temperature 50A‚Â° C.
The Interaction between Helicase and Primase Sets the Replication Fork Clock (1996)

The synthesis of an Okazaki fragment occurs once every 1-2 s at the Escherichia coli replication fork and requires precise coordination of the enzymatic activities required. We have shown previously that the primase is recruited anew from solution for each cycle of Okazaki fragment synthesis and that association of primase with the replication fork is via a protein-protein interaction with the helicase, DnaB. We describe here mutant primases that have an altered interaction with DnaB and that direct the synthesis of Okazaki fragments of altered length compared to the wild-type. The mutant primases were deficient only in their ability to participate in replication reactions where their entry to the DNA was provided by the initial protein-protein interaction with DnaB. The primer synthesis capacity of these proteins remained unaffected, as was their ability to interact with the DNA polymerase III holoenzyme. Neither replication fork rate nor the efficiency of primer utilization was affected at replication forks programmed by the mutant enzymes. Thus, the interaction between DnaG and DnaB at the replication fork is the primary regulator of the cycle of Okazaki fragment synthesis.
Customizing Multi-Tenant SaaS by Microservices: A Reference Architecture (2019)

Enterprise applications are migrating to cloud as mutli-tenant SaaS. To empower businesses with highly customizable SaaS, software vendors need a novel approach for customizing SaaS in mutli-tenant context that still benefits from moving to cloud. In this initial industrial experience report, we present our design and experimental findings towards a novel and cloud-native architecture of customizing multi-tenant SaaS by microservices. The report clarifies the key concepts related to the problem of multi-tenant customization, nd describes a design with a reference architecture and high-level principles. An experimental use case to customize an open source web-based shopping application demonstrates that a microservice-based approach is feasible to meet the general customization requirements, and achieves a balance between isolation, assimilation and economy of scale.