gebhart/patrepeval huggingface dataset:
Mechanistic study of boron trifluoride catalyzed ε‐caprolactone polymerization in the presence of glycerol (2006)

Abstract Boron trifluoride catalyzed ε‐caprolactone polymerization in the presence of glycerol can produce poly(ε‐caprolactone) with a high weight‐average molecular weight and a broad molecular weight distribution. This article reports an investigation of the polymerization mechanism to determine the formation of these molecular weight features through a study of the polymerization kinetics and the molecular structure with NMR. The polymerization proceeds via an activated monomer mechanism, resulting in polymer molecules with hydroxyl chain ends. The broad molecular weight distribution can be attributed to the etherification reactions between hydroxyl chain ends. © 2006 Wiley Periodicals, Inc. J Appl Polym Sci 102: 3900–3906, 2006
Handheld Ultrasound Video High-Quality Reconstruction Using a Low-Rank Representation Multipathway Generative Adversarial Network (2020)

Recently, the use of portable equipment has attracted much attention in the medical ultrasound field. Handheld ultrasound devices have great potential for improving the convenience of diagnosis, but noise-induced artifacts and low resolution limit their application. To enhance the video quality of handheld ultrasound devices, we propose a low-rank representation multipathway generative adversarial network (LRR MPGAN) with a cascade training strategy. This method can directly generate sequential, high-quality ultrasound video with clear tissue structures and details. In the cascade training process, the network is first trained with plane wave (PW) single-/multiangle video pairs to capture dynamic information and then fine-tuned with handheld/high-end image pairs to extract high-quality single-frame information. In the proposed GAN structure, a multipathway generator is applied to implement the cascade training strategy, which can simultaneously extract dynamic information and synthesize multiframe features. The LRR decomposition channel approach guarantees the fine reconstruction of both global features and local details. In addition, a novel ultrasound loss is added to the conventional mean square error (MSE) loss to acquire ultrasound-specific perceptual features. A comprehensive evaluation is conducted in the experiments, and the results confirm that the proposed method can effectively reconstruct high-quality ultrasound videos for handheld devices. With the aid of the proposed method, handheld ultrasound devices can be used to obtain convincing and convenient diagnoses.
Review of cetirizine hydrochloride for the treatment of allergic disorders (2004)

Cetirizine hydrochloride is an orally-active and selective histamine (H1)-receptor antagonist. It is a second-generation antihistamine and a human metabolite of hydroxyzine. Therefore, its principal effects are mediated via selective inhibition of peripheral H1 receptors. The antihistaminic activity of cetirizine has been documented in a variety of animal and human models. In vivo and ex vivo animal models have shown negligible anticholinergic and antiserotonergic activity. In clinical studies, however, dry mouth has been seen more commonly with cetirizine than with placebo. In vitro receptor binding studies have shown no measurable affinity for receptors other than H1 receptors. Auto-radiographical studies with radiolabelled cetirizine in the rat have shown negligible penetration into the brain. Ex vivo experiments in the mouse have shown that systemically administered cetirizine does not significantly occupy cerebral H1 receptors. Impairment of CNS function is comparable to other low-sedating antihistamines at the recommended dose of 10 mg/day for adults. It has anti-inflammatory properties that may play a role in asthma management. It does not interact with concomitantly administered medications, it has no cardiac adverse effects, and it does not appear to be associated with teratogenicity. Cetirizine is predominantly eliminated by the kidneys with a mean elimination half-life is 8.3 h. It is rapidly absorbed, and significant clinical inhibition of a wheal and flare response occurs in infants, children and adults within 20 min of a single oral dose and persists for 24 h. No tolerance to the wheal and flare response occurs even after 1 month of daily treatment. The clinical efficacy of cetirizine for allergic respiratory diseases has been established in numerous trials. There is evidence that cetirizine improves symptoms of urticaria. Concomitant use of cetirizine also decreases the duration and amount of topical anti-inflammatory preparations needed for the treatment of atopic dermatitis. Interestingly, several clinical studies suggest that cetirizine may be useful in the treatment and prevention of mild asthma.
Electric picosecond pulse length measurement through autocorrelation (2009)

An electric autocorrelator for the measurement of electric pulse lengths is presented. The setup is described and a simple model has been derived and used to evaluate the measurement results. Measurements have been done with electric pulses with a Gaussian profile with 40 ps FWHM. When assuming Gaussian pulses, autocorrelation calculations show that the FWHM of the autocorrelate is a factor √2 larger then the FWHM of the pulse under test. In the measurements this factor is 1.1. The difference in the measured and simulated results are possibly caused by simplifications in the model and by the fact that the electric input pulses are not perfectly Gaussian. (4 pages)
SRUMMA: a matrix multiplication algorithm suitable for clusters and scalable shared memory systems (2004)

Summary form only given. We describe a novel parallel algorithm that implements a dense matrix multiplication operation with algorithmic efficiency equivalent to that of Cannon's algorithm. It is suitable for clusters and scalable shared memory systems. The current approach differs from the other parallel matrix multiplication algorithms by the explicit use of shared memory and remote memory access (RMA) communication rather than message passing. The experimental results on clusters (IBM SP, Linux-Myrinet) and shared memory systems (SGI Altix, Cray XI) demonstrate consistent performance advantages over pdgemm from the ScaLAPACK/PBBLAS suite, the leading implementation of the parallel matrix multiplication algorithms used today. In the best case on the SGI Altix, the new algorithm performs 20 times better than pdgemm for a matrix size of 1000 on 128 processors. The impact of zero-copy nonblocking RMA communications and shared memory communication on matrix multiplication performance on clusters are investigated.
Subpotential lower bounds for nonnegative solutions to certain quasi-linear degenerate parabolic equations (2008)

Nonnegative weak solutions of quasi-linear degenerate parabolic equations of p-Laplacian type are shown to be locally bounded below by Barenblatt-type subpotentials. As a consequence, nonnegative solutions expand their positivity set. That is, a quantitative lower bound on a ball Bρ at time t̲ yields a quantitative lower bound on a ball B2ρ at some further time t. These lower bounds also permit one to recast the Harnack inequality of [4] in a family of alternative, equivalent forms
A Quantitative and Predictive Model of Electromigration-Induced Breakdown of Metal Nanowires (2013)

An isothermal model of electromigration breakdown of metal nanowires 80–700 nm in diameter is developed and validated using experimental data obtained from isolated cylindrical Au nanowires. The model considers electromigration from an applied current producing a net flux of metal atoms, reducing the nanowire radius and conductivity precipitously and accounting for both mass and electronic carrier transport. The model successfully predicts the observed critical failure current, the correct scaling with nanowire radius to 3/2 power, and the impedance evolution prior to breakdown. Application to the case where feedback control is employed to limit the rate of nanowire thinning reproduces key features, including slowed necking, a threshold current and voltage after which lower bias is required to advance formation, and the dependence of these values on feedback parameters.
U7 snRNP-specific Lsm11 protein: dual binding contacts with the 100 kDa zinc finger processing factor (ZFP100) and a ZFP100-independent function in histone RNA 3' end processing (2005)

The 3' cleavage generating non-polyadenylated animal histone mRNAs depends on the base pairing between U7 snRNA and a conserved histone pre-mRNA downstream element. This interaction is enhanced by a 100 kDa zinc finger protein (ZFP100) that forms a bridge between an RNA hairpin element upstream of the processing site and the U7 small nuclear ribonucleoprotein (snRNP). The N-terminus of Lsm11, a U7-specific Sm-like protein, was shown to be crucial for histone RNA processing and to bind ZFP100. By further analysing these two functions of Lsm11, we find that Lsm11 and ZFP100 can undergo two interactions, i.e. between the Lsm11 N-terminus and the zinc finger repeats of ZFP100, and between the N-terminus of ZFP100 and the Sm domain of Lsm11, respectively. Both interactions are not specific for the two proteins in vitro, but the second interaction is sufficient for a specific recognition of the U7 snRNP by ZFP100 in cell extracts. Furthermore, clustered point mutations in three phylogenetically conserved regions of the Lsm11 N-terminus impair or abolish histone RNA processing. As these mutations have no effect on the two interactions with ZFP100, these protein regions must play other roles in histone RNA processing, e.g. by contacting the pre-mRNA or additional processing factors.
Well, Where Are We Now? How to Position Wells without Good Velocity or Good Migration (2003)

F-33 WELL WHERE ARE WE NOW? HOW TO POSITION WELLS PERFECTLY WITHOUT GOOD VELOCITY OR GOOD MIGRATION Abstract Introduction 1 RODNEY CALVERT Shell International E and P It is common industry practice to design well positions based upon features seen in imaged seismic data based upon imperfect velocity information and imperfect imaging techniques. These features are in a seismic space which may be distorted relative to standard x y z geographical co-ordinates used by drillers. Although we are trying to optimise well targets more and more precisely with deep wells and uncertain velocities positioning miss-matches may be 100’s metres and
Wire recycling for quantum circuit optimization (2016)

Quantum information processing is expressed using quantum bits (qubits) and quantum gates which are arranged in terms of quantum circuits. Here, each qubit is associated with a quantum circuit wire which is used to conduct the desired operations. Most of the existing quantum circuits allocate a single quantum circuit wire for each qubit and hence introduce significant overhead. In fact, qubits are usually not needed during the entire computation, only between their initialization and measurement. Before and after that, corresponding wires may be used by other qubits. In this work, we propose a solution which exploits this fact in order to optimize the design of quantum circuits with respect to the required wires. To this end, we introduce a representation of the lifetimes of all qubits which is used to analyze the respective need for wires. Based on this analysis, a method is proposed which ``recycles'' the available wires and, as a result, reduces the size of the resulting circuit. Numerical tests based on established reversible and fault-tolerant quantum circuits confirm that the proposed solution reduces the number of wires by more than 90% compared to unoptimized quantum circuits.
Mechanism of furosemide-induced natriuresis by direct stimulation of renal prostaglandin E2 (1984)

Studies were conducted to investigate the interaction of renal prostaglandin E2 (PGE2) production and the renin-angiotensin system in the mechanism of furosemide-induced natriuresis. In conscious rabbits with permanent urinary bladder cannulation, furosemide in vivo (10 mg/kg) increased urinary water, sodium, and PGE2 excretion and plasma renin activity (PRA) over 50 min. Furosemide administered in vivo enhanced renal papillary but not cortical in vitro PGE2 biosynthesis. Prior administration of indomethacin at 2 mg/kg augmented the saluretic effect of furosemide, decreased its effect on UPGE2 V, abolished the rise in PRA, and reduced cortical but not papillary PGE2 biosynthesis. However, at 10 mg/kg, indomethacin reduced the saluretic effect of furosemide and eliminated the increase in UPGE2 V with continued suppression of PRA. Direct addition of furosemide in vitro to the incubation medium (10(-5) and 10(-3) M) markedly augmented papillary PGE2 synthesis. It is concluded that furosemide stimulates renal papillary PGE2 biosynthesis directly without mediation by angiotensin II, resulting in an increase in UPGE2 V, and the enhanced or inhibitory effect of indomethacin on furosemide-induced natriuresis is dose related and dependent on the degree of PGE2 synthesis inhibition in the presence of suppressed PRA, which occurred at all doses studied.
The Role of Polyamine Architecture on the Pharmacological Activity of Open Lactone Camptothecin−Polyamine Conjugates (2009)

A series of camptothecin open-ring lactone tripartate conjugates were synthesized, in which polyamine side chains with different architecture (ethane-1,2-diamine, spermidine, homospermidine, spermine, and 4,8,13,17-tetraza-icosane-1,20-diamine) are linked to the 21-carboxylic function through an amidic bond, while the 17-CH&lt;sub&gt;2&lt;/sub&gt;OH is acetylated. The rationale for the synthesis of these compounds was to explore the influence of the polyamine architecture on the activity of these CPT conjugates into cells, since the positively charged ammonium cations would favor interaction through electrostatic binding to the negatively charged DNA backbone. Topoisomerase I-mediated DNA cleavage assay was used to investigate the ability of these compounds to stimulate the DNA damage. The cleavage pattern was found to be similar to that of SN38 for all the new CPTs. The CPT tripartates were tested for growth inhibition ability against the human non-small-cell lung cancer carcinoma NCI-H460 cell line. Although these compounds were less potent than topotecan, SN38, and CPT after 1 h of treatment, the antiproliferative effects greatly increased after 72 h of exposure. The growth inhibition potency during long-term exposure is correlated with the number of charges of the 21-amide substituent. Both cleavage assay and &lt;i&gt;in vitro&lt;/i&gt; effects support the interpretation that the compounds may have inhibitory activity also in the open-ring form. The architecture of the polyamine moiety is important for antiproliferative activity, and a balance between the hydrophilic and lipophilic properties of the polyamine is critical for CPT potency.
Regulation of floral patterning and organ identity by Arabidopsis ERECTA-family receptor kinase genes (2013)

Due to the lack of cell migration, plant organogenesis relies on coordinated cell proliferation, cell growth, and differentiation. A flower possesses a complex structure, with sepals and petals constituting the perianth, and stamens and pistils where male and female gametophytes differentiate. While advances have been made in our understanding of gene regulatory networks controlling flower development, relatively little is known of how cell–cell coordination influences floral organ specification. The Arabidopsis ERECTA (ER)-family receptor kinases, ER, ER-LIKE1 (ERL1), and ERL2, regulate inflorescence architecture, organ shape, and epidermal stomatal patterning. Here it is reported that ER-family genes together regulate floral meristem organization and floral organ identity. The stem cell marker CLAVATA3 exhibits misplaced expression in the floral meristems of the er erl1 erl2 mutant. Strikingly, homeotic conversion of sepals to carpels was observed in er erl1 erl2 flowers. Consistently, ectopic expression of AGAMOUS, which determines carpel identity, was detected in er erl1 erl2 flower primordia. Among the known downstream components of ER-family receptor kinases in stomatal patterning, YODA (YDA) is also required for proper floral patterning. YDA and the ER-family show complex, synergistic genetic interactions: er erl1 erl2 yda quadruple mutant plants become extremely small, callus-like masses. While a constitutively active YDA fully rescues stomatal clustering in er erl1 erl2, it only partially rescues er erl1 erl2 flower defects. The study suggests that ER-family signalling is crucial for ensuring proper expression domains of floral meristem and floral organ identity determinants, and further implies the existence of a non-canonical downstream pathway.
Whole Blood Glucose Standard is Key to Accurate Insulin Dosages (2007)

Results of our experiments illustrate the ability of the blood glucose standard to closely mimic whole blood results. In addition, the blood glucose standard shows good open-vial and closed-vial stability at 6 degrees C.
Effect of Electronic ANR and Conventional Hearing Protectors on Vehicle Backup Alarm Detection in Noise (2004)

An experiment was conducted wherein masked thresholds (using ascending method of limits) for a backup alarm were obtained in pink and red noise at 85 and 100 dBA for 12 participants immersed in a probability monitoring task and wearing a conventional passive hearing protection device (HPD, an earmuff or a foam earplug), an active noise reduction (ANR) headset, or no HPD at all (only in 85 dBA noise). Results revealed statistically significant between-HPD differences in red noise (from 2.3 to 3.1 dB) and in the 100-dBA noise level (from 2.6 to 4.3 dB). An additional finding, which corroborates other studies using different protocols, was that masked thresholds in 85-dBA noise were significantly lower (from 3.2 to 4.4 dB) for the occluded conditions (wearing an HPD) than for the open-ear (unoccluded) condition. This result refutes the belief among many normal-hearing workers that the use of HPDs in relatively low levels of noise compromises their ability to hear necessary workplace sounds. Actual or potential applications of this research include (a) the selection of appropriate HPDs for low-frequency-biased noise exposures wherein signal detection is important and (b) gaining insight into the appropriateness of ANR-based HPDs for certain industrial noise environments.
[RuCl2(p-cymene)2]2 (2012)

[52462-29-0] C20H28Cl4Ru2 (MW 612.39 g mol−1)

InChI = 1S/2C10H14.4ClH.2Ru/c2*1-8(2)10-6-4-9(3)5-7-10;;;;;;/h2*4-8H,1-3H3;4*1H;;/q;;;;;;2*+2/p-4

InChIKey = LAXRNWSASWOFOT-UHFFFAOYSA-J





Physical Data: reddish-brown crystalline solid.



Solubility: soluble in ethanol, dichloromethane, and chloroform.



Form Supplied in: Johnson Matthey (Trade name Ru-120) for commercial quantities, Alfa Asear for catalog quantities.



(asymmetric transfer hydrogenation, oxidative coupling)



Preparative Methods: preparation of the complex was performed according to a modified literature procedure.1



Analysis of Reagent Purity: this compound can be characterized by mp (>200 °C), elemental assay, and 1H-NMR spectroscopy. 1H-NMR (400 MHz, 30 °C): ppm (σ) in CDCl3:1.28 (d, 12H, CH3 of isopropyl), 2.16 (s, 6H, CH3 of methyl), 2.92 (septet, 2H, CH of isopropyl); 5.34 (d, 4H, Ar-H), 5.46 (d, 4H, Ar-H).



Handling, Storage, and Precautions: Reasonably air stable.
Simulations suggest robust microtubule attachment of kinesin and dynein in antagonistic pairs (2022)

Abstract Intracellular transport is propelled by kinesin and cytoplasmic dynein motors that carry membrane-bound vesicles and organelles bidirectionally along microtubule tracks. Much is known about these motors at the molecular scale, but many questions remain regarding how kinesin and dynein cooperate and compete during bidirectional cargo transport at the cellular level. The goal of the present study was to use a stochastic stepping model constructed by using published load-dependent properties of kinesin-1 and dynein-dynactin-BicD2 (DDB) to identify specific motor properties that determine the speed, directionality, and transport dynamics of a cargo carried by one kinesin and one dynein motor. Model performance was evaluated by comparing simulations to recently published experiments of kinesin-DDB pairs connected by complementary oligonucleotide linkers. Plotting the instantaneous velocity distributions from kinesin-DDB experiments revealed a single peak centered around zero velocity. In contrast, velocity distributions from simulations displayed a central peak around 100 nm/s, along with two side peaks corresponding to the unloaded kinesin and DDB velocities. We hypothesized that frequent motor detachment events and relatively slow motor reattachment rates resulted in periods in which only one motor is attached. To investigate this hypothesis, we varied specific model parameters and compared the resulting instantaneous velocity distributions, and we confirmed this systematic investigation using a machine learning approach that minimized the residual sum of squares between the experimental and simulation velocity distributions. The experimental data were best recapitulated by a model in which the kinesin and dynein stall forces are matched, motor detachment rates are independent of load, and the kinesin-1 reattachment rate is 50 s -1 . These results provide new insights into motor dynamics during bidirectional transport and put forth hypotheses that can be tested by future experiments. Statement of significance: Bidirectional transport of vesicles along microtubules is vital for cellular function, particularly in the highly elongated axons and dendrites of neurons, and transport defects are linked to neurodegenerative diseases. For developing future therapeutic strategies, a better understanding is needed for how motors, cargo adapters, and accessory proteins coordinate their activities to transport cargo to their proper cellular locations. We approached this problem by simulating how antagonistic kinesin and dynein motors compete in pairs. We constrain our simulations by recent experimental results and conclude that the motors spend nearly all their time attached to the microtubule and competing against one another. This behavior is not predicted by existing single-molecule experiments and thus provides new insights into bidirectional transport.
Motion Detection in Diffraction Tomography by Common Circle Methods (2022)

The method of common lines is a well-established reconstruction technique in cryogenic electron microscopy (cryo-EM), which can be used to extract the relative orientations of an object given tomographic projection images from different directions. In this paper, we deal with an analogous problem in optical diffraction tomography. Based on the Fourier diffraction theorem, we show that rigid motions of the object, i.e., rotations and translations, can be determined by detecting common circles in the Fourier-transformed data. We introduce two methods to identify common circles. The first one is motivated by the common line approach for projection images and detects the relative orientation by parameterizing the common circles in the two images. The second one assumes a smooth motion over time and calculates the angular velocity of the rotational motion via an infinitesimal version of the common circle method. Interestingly, using the stereographic projection, both methods can be reformulated as common line methods, but these lines are, in contrast to those used in cryo-EM, not confined to pass through the origin and allow for a full reconstruction of the relative orientations. Numerical proof-of-the-concept examples demonstrate the performance of our reconstruction methods.
Supplementary Figure 1 from MUC4, a Multifunctional Transmembrane Glycoprotein, Induces Oncogenic Transformation of NIH3T3 Mouse Fibroblast Cells (2023)

Supplementary Figure 1 from MUC4, a Multifunctional Transmembrane Glycoprotein, Induces Oncogenic Transformation of NIH3T3 Mouse Fibroblast Cells