gebhart/patrepeval huggingface dataset:
Mechanism of Intramolecular Electron Transfer in the Photoexcited Zn-Substituted Cytochrome <i>c</i>: Theoretical and Experimental Perspective (2008)

Photoinduced electron transfer (ET) in zinc-substituted cytochrome c (Zn-cyt c) has been utilized in many studies on the long-range ET in protein. Attempting to understand its ET mechanism in terms of electronic structure of the molecule, we have calculated an all-electron wave function for the ground-state of Zn-cyt c on the basis of density functional theory (DFT). The four molecular orbitals (MOs) responsible for excitation by UV-vis light (Gouterman's 4-orbitals) are assigned on the basis of the excited states of chromophore model for Zn-porphine complex calculated with the time-dependent DFT method. ET rates between each Gouterman's 4-orbitals and other MOs were estimated using Fermi's golden rule. It appeared that the two occupied MOs of the 4-orbitals show exclusively higher ET rate from/to particular MOs that localize on outermost amino acid residues (Lys 7 or Asn 54), respectively, whereas ET rates involving the two unoccupied MOs of the 4-orbitals are much slower. These results imply that the intramolecular ET in photoexcited Zn-cyt c is governed by the hole transfer through occupied MOs. The couplings of MOs between zinc porphyrin core and specific amino acid residues on the protein surface have been demonstrated in Zn-cyt c immobilized on an Au electrode via carboxylic acid group-terminated self-assembled monolayer. The Zn-cyt c-modified electrode showed photocurrents responsible for photoillumination. The action spectrum of the photocurrent was identical with the absorption spectrum of Zn-cyt c, indicating photoinduced electron conduction via occupied MOs. The voltage dependence of the photocurrent appeared to be linear and bidirectional like a photoconductor, which strongly supports the intramolecular ET mechanism in Zn-cyt c proposed on the basis of the theoretical calculations.
Plasma DNA methylation of Wnt antagonists predicts recurrence of esophageal squamous cell carcinoma (2011)

The status of promoter hypermethylation of Wnt antagonists/inhibitors in plasma may serve as a non-invasive prognostic biomarker for ESCC.
Medical illustration education in the United States and Thailand: a comparison. (1991)

Considering varying social factors and health care needs, this article gives a comparative view of medical illustration education in the United States and Thailand. Different requirements exist within the application processes (such as the number and type of portfolio pieces required), and within the professional programs (such as the choice of specialization available in American schools). This article also discusses attitudes toward plagiarism and teaching methods for the development of creativity. The differences in Thai instruction stem from Thai culture, the economic situation, the emphasis on educational media, and the decision-making authorities who set standards for the programs.
Basis function cross‐correlations for Robust <i>k</i>‐space sample density compensation, with application to the design of radiofrequency excitations (2007)

The problem of k-space sample density compensation is restated as the normalization of the independent information that can be expressed by the ensemble of Fourier basis functions corresponding to the trajectory. Specifically, multiple samples (complex exponential functions) may be contributing to each independent information element (independent basis function). Normalization can be accomplished by solving a linear system based on the cross-correlation matrix of the underlying Fourier basis functions. The solution to this system is straightforward and can be obtained without resorting to discretization since the cross-correlations of Fourier basis functions are analytically known. Furthermore, no restrictions are placed on the k-space trajectory and its point-spread function. Additionally, the linear system can be used to elucidate key trade-offs involved in k-space trajectory design. The approach can be used to compensate samples acquired for image reconstruction or designed for low flip angle radiofrequency (RF) excitation. Here it is demonstrated for the latter application, using reversed spiral trajectories. In this case the linear system approach enables one to easily incorporate additional constraints such as smoothness to the solution. For typical RF excitation durations (<20 ms) it is shown that density compensation can even be achieved without numerical iteration.
A random matrix formulation of fidelity decay (2004)

We propose to study echo dynamics in a random matrix framework, where we assume that the perturbation is time independent, random and orthogonally invariant. This allows to use a basis in which the unperturbed Hamiltonian is diagonal and its properties are thus largely determined by its spectral statistics. We concentrate on the effect of spectral correlations usually associated to chaos and disregard secular variations in spectral density. We obtain analytic results for the fidelity decay in the linear response regime. To extend the domain of validity, we heuristically exponentiate the linear response result. The resulting expressions, exact in the perturbative limit, are accurate approximations in the transition region between the ``Fermi golden rule'' and the perturbative regimes, as examplarily verified for a deterministic chaotic system. To sense the effect of spectral stiffness, we apply our model also to the extreme cases of random spectra and equidistant spectra. In our analytical approximations as well as in extensive Monte Carlo calculations, we find that fidelity decay is fastest for random spectra and slowest for equidistant ones, while the classical ensembles lie in between. We conclude that spectral stiffness systematically enhances fidelity.
<title>Low-efficiency gratings for third-harmonic diagnostics applications</title> (1995)

The baseline design of the National Ignition Facility (NIF) calls for sampling gratings to provide third-harmonic energy diagnostics in the highly constrained area of the target chamber. These 40 multiplied by 40 cm transmission gratings are to diffract at (order plus 1) nominally 0.3% of the incident 351 nm light at a small angle onto a focusing mirror and into a calorimeter. The design calls for a plane grating of 500 lines/mm, and approximately 30 nm deep, etched into a fused silica focusing lens and subsequently overcoated with a sol-gel antireflective coating. Gratings of similar aperture and feature size have been produced for other applications by ion etching processes, but, in an effort to reduce substantially the cost of such optics, we are studying the feasibility of making these gratings by wet chemical etching techniques. Experimentation with high-quality fused silica substrates on 5 and 15 cm scale has led to a wet etching process which can meet the design goals and which offers no significant scaleup barriers to full sized optics. The grating is produced by holographic exposure and a series of processing steps using only a photoresist mask and a final hydrofluoric acid etch. Gratings on 15 cm diameter test substrates exhibit absolute diffraction efficiencies from 0.2 - 0.4% with a standard deviation of about 15% of the mean over the full aperture. The efficiency variation is due to variation in linewidth caused by spatial nonuniformities in exposure energy. Uniformity improvements can be realized by using a smaller, more uniform portion of the exposure beam and exposing for longer times. The laser damage threshold for these gratings has been measured at LLNL and found to be identical to that of the fused silica substrate. Scaleup to full-sized substrates will use techniques such as meniscus coating for photoresist, large-aperture holography and other processes already established at LLNL for optics of this size. A prototype sampling grating to be installed on the Beamlet laser will be produced in early 1996.
GPGPU-Aided Ensemble Empirical-Mode Decomposition for EEG Analysis During Anesthesia (2010)

Ensemble empirical-mode decomposition (EEMD) is a novel adaptive time-frequency analysis method, which is particularly suitable for extracting useful information from noisy nonlinear or nonstationary data. Unfortunately, since the EEMD is highly compute-intensive, the method does not apply in real-time applications on top of commercial-off-the-shelf computers. Aiming at this problem, a parallelized EEMD method has been developed using general-purpose computing on the graphics processing unit (GPGPU), namely, G-EEMD. A spectral entropy facilitated by G-EEMD was, therefore, proposed to analyze the EEG data for estimating the depth of anesthesia (DoA) in a real-time manner. In terms of EEG data analysis, G-EEMD has dramatically improved the run-time performance by more than 140 times compared to the original serial EEMD implementation. G-EEMD also performs far better than another parallelized implementation of EEMD bases on conventional CPU-based distributed computing technology despite the latter utilizes 16 high-end computing nodes for the same computing task. Furthermore, the results obtained from a pharmacokinetics/pharmacodynamic (PK/PD) model analysis indicate that the EEMD method is slightly more effective than its precedent alternative method (EMD) in estimating DoA, the coefficient of determination R(2) by EEMD is significantly higher than that by EMD (p < 0.05, paired t-test) and the prediction probability P(k) by EEMD is also slighter higher than that by EMD (p < 0.2, paired t-test).
Surface-Enhanced Raman Scattering with Ag Nanoparticles Optically Trapped by a Photonic Crystal Cavity (2013)

We demonstrate a reusable and reconfigurable surface enhanced Raman scattering (SERS) platform by optically trapping Ag nanoparticles with a photonic crystal cavity integrated with a microfluidic chip. High-performance SERS is performed in a very reproducible manner, owing to the fact that Ag aggregates are produced by optical trapping in a controllable process that is monitored in real-time by the cavity resonance shift that occurs with the trapping of each additional nanoparticle.
Potent induction of a neutrophil and eosinophil-rich infiltrate in vivo by human mast cell tryptase: selective enhancement of eosinophil recruitment by histamine (1997)

Tryptase is the most abundant protein constituent of the secretory granules of human mast cells, but little is known of the contribution of this serine proteinase in acute allergic reactions. We have purified tryptase from human lung tissue by immunoaffinity procedures, and have investigated its potential to provoke an inflammatory infiltrate in vivo. Within 6 h of injection into the skin of guinea pigs, the accumulation of large numbers of neutrophils and eosinophils was observed, and those eosinophils closest to the injection site were partially degranulated. Similarly, injection of tryptase into the peritoneum of mice, even in quantities as low as 5 ng, stimulated the ingress of neutrophils. The response was dose dependent at 3, 6, and 16 h, with increases in median numbers of up to 400-fold. At the later time points eosinophil numbers were increased by up to 10-fold, and there were elevations also in the numbers of lymphocytes and macrophages. In both models, the actions of tryptase appeared to be dependent on an intact catalytic site. Coinjection of heparin with tryptase had relatively little effect on tryptase-induced responses. On the other hand, although histamine did not itself stimulate cell accumulation, over a range of concentrations it altered the cellular composition of the infiltrate induced by tryptase. Addition of histamine to tryptase provoked selective increases in eosinophil numbers of up to fivefold in the mouse peritoneum. Tryptase may provide an important stimulus for granulocyte recruitment in allergic disease.
Acid‐catalyzed reactions of 3‐(α‐hydroxybenzyl)pyrazolo[1,5‐<i>a</i>]pyridines (1988)

Abstract Treatment of 3‐(or‐hydroxybenzyl)pyrazolo[1,5‐a]pyridines with trifluoroacetic acid in dichloromethane resulted in the formation of pyrazolo[1,5‐a]pyridines, bis[α‐(pyrazolo[1,5‐ a ]pyrid‐3‐yl)benzyl] ethers, and phenylbis(pyrazolo[1,5‐a]pyrid‐3‐yl)methanes, depending upon the presence or absence of the substituents at the 2‐ and/or 4‐positions and the reaction conditions employed.
In situ x-ray absorption study of lead ion surface complexes at the goethite-water interface (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIn situ x-ray absorption study of lead ion surface complexes at the goethite-water interfaceA. Lawrence Roe, Kim F. Hayes, Catherine Chisholm-Brause, Gordon E. Brown Jr., George A. Parks, Keith O. Hodgson, and James O. LeckieCite this: Langmuir 1991, 7, 2, 367–373Publication Date (Print):February 1, 1991Publication History Published online1 May 2002Published inissue 1 February 1991https://pubs.acs.org/doi/10.1021/la00050a029https://doi.org/10.1021/la00050a029research-articleACS PublicationsRequest reuse permissionsArticle Views456Altmetric-Citations88LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Effect of chemotherapeutic agents on the formation of estrogen-receptor complex in human breast tumor cytosol. (1980)

We have examined the effect of Adriamycin (doxorubicin), cytoxan, methotrexate, and oncovin on [3H]estradiol binding to the cytoplasmic estrogen receptor of rat uterus and human breast tumors. When the estrogen binding assay was performed in the presence of these drugs over concentrations ranging from 1 x 10(-8) to 1 x 10(-4) M, no effect on the formation of specific [3H]estradiol-receptor complexes as determined by the dextran-coated charcoal method was observed.
Multiwall carbon nanotubes and their applications (2009)

The chemical, electrophysical, magnetic, tribological, and physicomechanical properties of multiwall carbon nanotubes (MWCNTs), as well as the characteristics of new nanocomposites and instruments thereof were discussed. These MWCNTs are produced by unique technology and are free from impurities of other carbon modifications. Advantages of multiwall over single-wall carbon nanotubes were demonstrated for applications in electronic devices and preparation of nanocomposites (as filling agents).
The PARK2/Parkin receptor on damaged mitochondria revisited—uncovering the role of phosphorylated ubiquitin chains (2015)

Phosphorylated ubiquitin produced by PINK1 kinase functions as a PARK2/Parkin activator by derepressing intramolecular autoinhibition of PARK2 E3 activity. Unexpectedly, we revealed that phosphorylated polyubiquitin chain also functions in the PARK2 recruitment process as a PARK2 receptor. Phosphorylated ubiquitin enables us to comprehensively understand how PINK1 and PARK2 catalyzes (phospho-)ubiquitination of depolarized mitochondria and subsequent mitophagy.
Predictability of the t(1;19)(q23;p13) from surface antigen phenotype: implications for screening cases of childhood acute lymphoblastic leukemia for molecular analysis: a Pediatric Oncology Group study (1993)

The t(1;19)(q23;p13) translocation occurs in approximately 5% of B-precursor acute lymphoblastic leukemias (ALLs) occurring in children. Its presence has been associated with a poor prognosis, which may be overcome with more intensive therapy. Although leukemic cells from cases of t(1;19)-ALL frequently express cytoplasmic mu heavy chains, their complete antigenic profile remains undefined. Among 697 consecutive cases of B-precursor ALL with complete phenotypic studies using a panel of monoclonal antibodies, 22 cases were found to carry the t(1;19). Twenty of 22 cases had an identical, complex phenotype characterized by homogeneous expression of CD19, CD10, and CD9; complete absence of CD34; and at least partial absence of CD20. Overall, this phenotype was seen in only 8.0% (56 of 697) of childhood B-precursor ALL. One of the two remaining t(1;19)-carrying cases conformed to this phenotype, but was lacking data for CD9. The other case differed by virtue of expression of CD34 and was also hyperdiploid with 55 chromosomes. Molecular studies showed E2A-PBX1 abnormalities in all examined cases (12 of 12) with the t(1;19), including the case lacking CD9 data. In contrast, no E2A-PBX1 abnormalities were detected in the sole t(1;19)-ALL with CD34 expression. Seventeen cases with the characteristic phenotype and uninformative cytogenetics were also molecularly analyzed and 5 of 17 (including 4 of 8 with unsatisfactory cytogenetics and 1 of 9 with a normal karyotype) contained E2A gene rearrangements and E2A-PBX1 fusion mRNAs. Our results show that all cases of t(1;19)-ALL with concomitant E2A-PBX1 fusion invariably express a characteristic but uncommon profile of surface antigens. These observations suggest that selective molecular analysis of a small subset of patients (those with uninformative cytogenetics and the characteristic phenotype) can identify a significant number of additional cases of ALL with E2A-PBX1 fusion that might benefit from more intensive therapy.
Software Configurable Processors (2006)

A software configurable processor (SCP) is a hybrid device that couples a conventional processor datapath with programmable logic to allow application programs to dynamically customize the instruction set. SCP architectures can offer significant performance gains by exploiting data parallelism, operator specialization and deep pipelines. The S5000 is a family of high performance software configurable processors for embedded applications. The S5000 consists of a conventional 32-bit RISC processor coupled with a programmable Instruction Set Extension Fabric (ISEF). To develop an application for the S5 the programmer identifies critical sections to be accelerated, writes one or more extension instructions as functions in a variant of the C programming language, and accesses those functions from the application program. Performance gains of more than an order of magnitude over the unaccelerated processor can be achieved.
DIFFERENTIAL SOIL IMPEDANCE OBSTACLE DETECTION (2002)

This project develops a new and unique obstacle detection sensor for horizontal directional drilling (HDD) equipment. The development of this new technology will greatly improve the reliability and safety of natural gas HDD construction practices. This sensor utilizes a differential soil impedance measurement technique that will be sensitive to the presence of plastic and ceramic, as well as metallic obstacles. The use of HDD equipment has risen significantly in the gas industry because HDD provides a much more cost-effective and less disruptive method for gas pipe installation than older, trenching methods. However, there have been isolated strikes of underground utilities by HDD equipment, which may have been avoided if methods were available to detect other underground obstacles when using HDD systems. GTI advisors from the gas industry have ranked the value of solving the obstacle detection problem as the most important research and development project for GTI to pursue using Federal Energy Regulatory Commission (FERC) funds available through its industry partner, GRI. GTI proposes to develop a prototype down-hole sensor system that is simple and compact. The sensor utilizes an impedance measurement technique that is sensitive to the presence of metallic or nonmetallic objects in the proximity of the HDD head. The system will use a thin film sensor conformal with the drill head. The impedance of the soil will be measured with a low frequency signal injected through the drill head itself. A pair of bridge type impedance sensors, mounted orthogonal to one another, is capacitively coupled to the soil. Inclusions in the soil will cause changes to the sensor balance distinguishable from homogeneous soil. The sensor will provide range and direction data for obstacles near the HDD head. The goal is to provide a simple, robust system that provides the information required to avoid obstacles. This must be done within the size and ruggedness constraints of the HDD equipment. Imaging obstacles is not within the scope of this work, as it would require a more elaborate sensor than is practical within the HDD head.
Synthesis, properties, and reactions with C-nucleophiles of (phenyloxazoline)-, (phenylmethanimine)-, and (benzaldehyde hydrazone)tricarbonylchromium(0) complexes (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis, properties, and reactions with C-nucleophiles of (phenyloxazoline)-, (phenylmethanimine)-, and (benzaldehyde hydrazone)tricarbonylchromium(0) complexesE. Peter Kuendig, Alberto Ripa, Ronggang Liu, David Amurrio, and Gerald BernardinelliCite this: Organometallics 1993, 12, 9, 3724–3737Publication Date (Print):September 1, 1993Publication History Published online1 May 2002Published inissue 1 September 1993https://pubs.acs.org/doi/10.1021/om00033a050https://doi.org/10.1021/om00033a050research-articleACS PublicationsRequest reuse permissionsArticle Views537Altmetric-Citations18LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Single-Chip Ring Resonator-Based 1 $\times$ 8 Optical Beam Forming Network in CMOS-Compatible Waveguide Technology (2007)

Optical ring resonators (ORRs) are good candidates to provide continuously tunable delay in optical beam forming networks (OBFNs) for phased array antenna systems. Delay and splitting/combining elements can be integrated on a single optical chip to form an OBFN. A state-of-the-art ring resonator-based 1times 8 OBFN chip has been fabricated in complementary metal-oxide-semiconductor-compatible waveguide technology. A binary tree topology is used for the network such that a different number of ORRs is cascaded for delay generation at each output. In this letter, the principle of operation is explained and demonstrated by presenting some measurement results on the 1times 8 OBFN chip.