gebhart/patrepeval huggingface dataset:
An Exact Three-Dimensional Solution for Simply Supported Rectangular Piezoelectric Plates (1996)

An exact three-dimensional solution for the problem of a simply supported rectangular homogeneous piezoelectric plate is obtained, in the framework of the linear theory of piezoelectricity. The plate is made of a transversely isotropic material, is earthed on the lateral boundary, and is subjected to prescribed surface charge and tractions on the end faces. The limit of this solution as the plate thickness aspect ratio approaches zero is explicitly carried out. The analytical results obtained may constitute a reference case when developing or applying two-dimensional plate theories for the analysis of more complex piezoelectric problems. A numerical investigation in the case of a square uniformly loaded plate is also performed, in order to evaluate the influence of the thickness-to-side ratio on the three-dimensional solution of the plate problem.
Improved User-Specific Channel Estimation Using Geodesical Interpolation at the Transmitter (2015)

In this letter we study a precoding matrix (PM) interpolation in the context of user-specific channel estimation. We interpolate the fed-back PMs at the transmitter by the means of geodesic to enable continuous channel estimation across continuously scheduled frequency clusters in the receiver. The proposed scheme is compared to the case where a single PM is used for all sub-carriers within a frequency cluster and channel estimation can be performed only within that cluster. We compare the performance of geodesical interpolation on Grassmann, Stiefel, and Flag manifolds. For this purpose, we provide an iterative framework to obtain geodesics on Stiefel and Flag manifolds based on boundary conditions. We show by monte-carlo simulations that the interpolation of fed-back PMs at the transmitter improves significantly the quality of channel estimation.
Microarchitecture-aware floorplanning using a statistical design of experiments approach (2005)

Since across-chip interconnect delays can exceed a clock cycle in nanometer technologies, it has become essential in high performance designs to add flip-flops on wires with multi-cycle delays. Although such a wire pipelining strategy allows higher operating frequencies, it can reduce the delivered performance of a microarchitecture, since the extra flip-flops inserted may increase the operation latencies and stall cycles. Moreover, the addition of latencies on some wires can have a large impact on the overall performance while other wires are relatively insensitive to additional latencies. This varying sensitivity suggests the need for a throughput-aware strategy for pipelining the interconnects that interacts closely with the physical design step, which determines the lengths of these multicycle wires. We use a statistical design of experiments strategy based on a multifactorial design, which intelligently uses a limited number of simulations to rank the importance of the wires. When applied at the floorplanning level, our results show improvements both in the overall system performance and in the total wire length when compared with an existing technique.
Urotensin-II Receptor Modulators as Potential Drugs (2009)

ADVERTISEMENT RETURN TO ISSUEPREVPerspectiveNEXTUrotensin-II Receptor Modulators as Potential DrugsBruce E. Maryanoff*† and William A. Kinney‡View Author Information† Johnson & Johnson Pharmaceutical Research & Development, Welsh and McKean Roads, Spring House, Pennsylvania 19477-0776‡ Pennsylvania Biotechnology Center, 3805 Old Easton Road, Doylestown, Pennsylvania 18902*To whom correspondence should be addressed. Phone: 267-980-3512. Fax: 858-784-2798. E-mail: [email protected], [email protected]Cite this: J. Med. Chem. 2010, 53, 7, 2695–2708Publication Date (Web):December 31, 2009Publication History Received28 August 2009Published online31 December 2009Published inissue 8 April 2010https://pubs.acs.org/doi/10.1021/jm901294uhttps://doi.org/10.1021/jm901294ureview-articleACS PublicationsCopyright © 2009 American Chemical SocietyRequest reuse permissionsArticle Views1778Altmetric-Citations37LEARN 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 SUBJECTS:Agonists,Antagonists,Peptides and proteins,Receptors,Rodent models Get e-Alerts
Modulating growth factor release from hydrogels via a protein conformational change (2009)

Dynamic hydrogels have played a central role in the development of devices for controlled drug delivery. Previous drug delivery systems based on dynamic hydrogels have typically responded to non-specific, physicochemical stimuli such as heat, light, and pH. Here we describe an alternative approach to develop dynamic, drug-releasing materials based on a protein conformational change induced by a specific biochemical ligand. We report a synthetic process in which a dynamic protein, calmodulin (CaM), was efficiently reacted with poly(ethylene glycol) diacrylate (PEGDA) molecules. The resulting PEG-CaM-PEG conjugates were then photo-crosslinked to form dynamic hydrogels. The initial composition of PEG-CaM-PEG conjugates affected hydrogel formation and hydrogel dynamic properties. Specifically, various hydrogels prepared with combinations of PEG-CaM-PEG and PEGDA molecules underwent volume decreases of 10%–80% relative to their initial volume when exposed to the biochemical ligand trifluoperazine (TFP). This decrease in volume can be attributed to calmodulin's well-characterized hinge motion upon ligand binding. PEG-CaM-PEG hydrogels released a larger amount of VEGF more rapidly when exposed to the TFP ligand, indicating that the ligand-induced collapse in hydrogel volume could be translated into a significant change in therapeutic growth factor release. The increase in the amount of VEGF was dependent on: (i) the initial amount of VEGF absorbed into the hydrogel; (ii) the magnitude of dynamic volume change; and (iii) the timing of hydrogel exposure to TFP. This study provides a first demonstration that a protein conformational change can be used to modulate release of therapeutic proteins from hydrogels. There are over 200 proteins that undergo well characterized conformational changes, and so this mechanism could be broadly applicable in controlled drug delivery applications.
Audio and Music Research at LabROSA (2004)

Survey of project by the Laboratory for Recognition and Organization of Speech and Audio, Department of Electrical Engineering, Columbia University, including speech features work, music analysis, and "personal audio."
Radiation response of human cervical carcinoma cells transfected with sense and antisense p53 retroviral constructs (1994)

Abstract Dominant transforming genes such as raf, myc , and ras , alone or in combinations, have been shown to modify the radiation response of various cell types. Recent studies have shown that the status of the expression of p53 , the gene detected most frequently altered in human cancer, participates in the response of various cell types to DNA‐damaging agents, including ionizing radiation. We now report the radiation responses of three human cervical carcinoma cell lines expressing various endogenous levels of wild‐type or mutant p53 . In order to modulate the levels of p53, cervical carcinoma cells were transfected with retroviral vectors in which a wild‐type full‐length human p53 cDNA was inserted in the sense or antisense orientation relative to the retroviral promoter sequences. Results showed that alterations in the endogenous levels of p53 did not result in consistent differences in the cellular responses to ionizing radiation. These data indicate that the level of wild‐type p53 is not a major participant in the mechanisms of response to ionizing radiation by these cervical carcinoma cells. © 1995 Wiley‐Liss, Inc.
Flicker Effect Analysis in Human Subjects: New Noninvasive Method for Next-Generation Flickermeter (2011)

Flicker severity is a parameter defined in the Standard EN 50160 that involves both power quality and physiological features. Due to practical and theoretical reasons, the flickermeter described by the relevant International Standard may lead to incorrect results when used to correlate voltage variations with annoyance caused by fluctuations of light emitted by other types of lamps different from those based on the incandescent-filament principle. Therefore, its replacement is under consideration by some international organizations, given that this last type of lamps will no longer be available on the market starting next year. This paper aims at providing a contribution to the study of a new theory to be used for the design of next-generation flickermeters that must account for a wider variety of luminous sources. In particular, the research is focused on finding a new method for detecting human being annoyance in the presence of luminous flicker that is based on the measurement of the pupil diameter under flicker conditions. In this connection, this paper first investigates on the performance of an ad-hoc test system with the main goal to prove and evaluate its accuracy. Then, the results of tests on six volunteers are presented and discussed.
Measurement and Analysis of Near Specular Scatter (1987)

Reduction of near specular scatter in optics has become increasingly important in the last few years. Scatter measurement is often confined to the region outside of a 1° or 2° cone centered about the specular beam. Scatter measured as a function angle generally increases without apparent limit as the specular beam is approached. [1] This paper reviews the importance of near specular scatter, examines measurement, and presents some data that illustrates how some of these fundamental limitations can be reduced. Two examples of problems with near specular scatter are presented here.
Visual Text Analytics in Context of Digital Humanities (2016)

Digital Humanities (DH) research brings together scholars from different disciplines to work on tackling a common research challenge. Hence, DH-projects have to overcome common challenges of multi-disciplinary research, such as methodological differences or communication issues. However, in contrast to interdisciplinary collaborations from related fields of science, in the digital humanities, a gap between qualitative scholarship traditions and quantitative data-driven research has to be bridged to achieve a common goal. With this position paper, we aim at starting a discussion between the various involved disciplines in the digital humanities on how to approach the problem-solving process in DH-projects. Based on our experience in different visual text analytics projects and extensive two years of discussions, we propose an abstract conceptual workflow as a best practice for digital humanities projects.
Reduction of ferriprotoporphyrin IX to the ferroderivative by copoly(4‐vinylpyridine‐N‐(p‐vinylbenzyl)‐3‐carbamoyl‐1,4‐dihydropyridine) in dimethyl sulfoxide (1977)

Abstract The copolymer which has both ligand sites (4‐vinylpyridine) and redox sites ( N ‐( p ‐vinylbenzyl)‐3‐carbamoyl‐1,4‐dihydropyridine) was synthesized by the dithionite reduction of the copoly(4‐vinylpyridine‐ N ‐( p ‐vinylbenzyl)‐3‐carbamoylpyridinium chloride) and the reduction of a central ferric‐iron of ferriprotoporphyrin IX by the above‐described copolymer was studied spectrophotometrically in dimethyl sulfoxide. The rate of the reduction by the copolymer was much faster than by N ‐benzyl‐3‐carbamoyl‐1,4‐dihydropyridine. This acceleration by the copolymer could be explained by the intramolecular reduction of ferriprotoporphyrin IX which was coordinated by the pyridine residue of the copolymer.
From Active Sites to Machines: A Challenge for Enzyme Chemists (2018)

As researchers who study enzyme chemistry embrace increasingly complex systems, especially biological machines, our attention is also shifting from steps involving covalent bond formation or cleavage to those that exclusively involve changes in non-covalent bonding. Assembly line polyketide synthases are an example of this growing challenge. By now, the chemical reactions underpinning polyketide biosynthesis can be unequivocally mapped to well-defined active sites and are, for the most part, readily explicable in the language of physical organic chemistry. Yet, all of these insights merely serve as a backdrop to the real problem of explaining how the catalytic functions of dozens of active sites are synchronized in order to allow these remarkable machines to turn over with remarkable specificity. Notwithstanding the fact that the time-honored language of physical organic chemistry can teach us a lot, it is often insufficient to describe many of these events, and must therefore evolve.
Insights into human cognition from intracranial EEG: A review of audition, memory, internal cognition, and causality (2020)

By recording neural activity directly from the human brain, researchers gain unprecedented insight into how neurocognitive processes unfold in real time. We first briefly discuss how intracranial electroencephalography (iEEG) recordings, performed for clinical practice, are used to study human cognition with the spatiotemporal and single-trial precision traditionally limited to non-human animal research. We then delineate how studies using iEEG have informed our understanding of issues fundamental to human cognition: auditory prediction, working and episodic memory, and internal cognition. We also discuss the potential of iEEG to infer causality through the manipulation or 'engineering' of neurocognitive processes via spatiotemporally precise electrical stimulation. We close by highlighting limitations of iEEG, potential of burgeoning techniques to further increase spatiotemporal precision, and implications for future research using intracranial approaches to understand, restore, and enhance human cognition.
New Cardiac Magnetic Resonance Imaging Methods for Evaluating Patients with Pulmonary Hypertension; CMR-TAPSE, %FSATD (2015)

Poster: ECR 2015 / C-0560 / New Cardiac Magnetic Resonance Imaging Methods for Evaluating Patients with Pulmonary Hypertension; CMR-TAPSE, %FSATD by: R. Ishimura1, K. Yokoyama2, T. Kariyasu1, T. Nitatori1, S. kuhara3; 1Tokyo/JP, 2MItaka-shi /JP, 3Otawara-shi/JP
Design Aspects of High-Voltage Devices for a Versatile 700–1200V IC Process (1989)

The integration with junction isolation has been achieved of 1200V low- side lateral DMOS, 700V high-side lateral DMOS and 700V PMOS together with 250V vertical devices and low-voltage CMOS and bipolar devices, all with 700V capability to the substrate. Device design aspects for the HV-IC process and the properties of lateral DMOS with depleting floating rings are discussed.
Recent advancements in the SQUID magnetospinogram system (2017)

In this study, a new superconducting quantum interference device (SQUID) biomagnetic measurement system known as magnetospinogram (MSG) is developed. The MSG system is used for observation of a weak magnetic field distribution induced by the neural activity of the spinal cord over the body surface. The current source reconstruction for the observed magnetic field distribution provides noninvasive functional imaging of the spinal cord, which enables medical personnel to diagnose spinal cord diseases more accurately. The MSG system is equipped with a uniquely shaped cryostat and a sensor array of vector-type SQUID gradiometers that are designed to detect the magnetic field from deep sources across a narrow observation area over the body surface of supine subjects. The latest prototype of the MSG system is already applied in clinical studies to develop a diagnosis protocol for spinal cord diseases. Advancements in hardware and software for MSG signal processing and cryogenic components aid in effectively suppressing external magnetic field noise and reducing the cost of liquid helium that act as barriers with respect to the introduction of the MSG system to hospitals. The application of the MSG system is extended to various biomagnetic applications in addition to spinal cord functional imaging given the advantages of the MSG system for investigating deep sources. The study also includes a report on the recent advancements of the SQUID MSG system including its peripheral technologies and wide-spread applications.
Optimization of the strain tensor estimation for cross sectional non-invasive elastography of the carotid using plane wave imaging (2012)

Full-2D strain tensor estimation using non-invasive vascular elastography (NIVE) can be difficult to achieve using conventional beamforming methods due to its low lateral resolution. Angular compounding can help improving estimates of lateral components. However, using conventional focused imaging, compounding decreases dramatically the frame rate thus increasing the probability of decorrelation artefacts. As it can reconstruct the full field of view (FOV), using a single unfocused emission, plane wave imaging (PWI) can reach very high frame rate without significant loss of signal-to-noise ratio (SNR). In this study, we investigated the performance of compounding elastography using the lagrangian speckle model estimator (LSME) on tilted plane wave images. We introduced two compounding methods based on oriented strain fields without any mechanical assumptions. We evaluate our methods on both simulation and in-vitro data. It was found that, as well as conventional focused imaging, PWI can provide high quality axial strain and shear and significantly better lateral strain and shear. Moreover, the combination of compound elastography with tilted PWI improved significantly the quality of elastograms.
DFT-Level Calculations of IR, VCD and Raman Spectra for 13C-Labeled Beta Sheets (2013)

3514-Pos Board B669 MdDQm Calculations Explore the Origins of Differences amongst the Red Fluorescent Proteins J. Nathan Scott1, Patrik R. Callis2. Saint Francis University, Loretto, PA, USA, Montana State University, Bozeman, MT, USA. We present a number of theoretical results concerning the properties of and differences amongst several red fluorescent proteins (RFPs). RFPs are an extraordinarily useful group of fluorescent proteins that fluoresce at red-shifted wavelengths compared to GFP, thereby extending the color palette of fluorescent proteins for use in applications like FRET and multi-channel imaging. This redder fluorescence is caused by the extension of the pi-conjugated chain through oxidation of a second backbone bond of either Phenylalanine or Isoleucine, depending on the particular RFP. Our work has focused on the RFPs mCherry, mPlum, and DsRed, which share a common chromophore. Since these RFPs share a chromophore, differences in their photophysical properties must be due to differences in their chromophore environments. We performed a series of 100 ns molecular dynamics simulations followed by ZINDO semiempirical quantum mechanical calculations in an effort to explore variables such as excitation wavelength, quantum yield, and photostability in these RFPs. The ZINDO calculations were performed on MD simulation frames at 1 ps resolution. This fine resolution allowed for the observation of rare conformational states that suggest reasons for the known differences in quantum yield amongst the proteins. Notably, the electric field contributions from every nonchromophore protein atom and ion, and the ~14,000 simulation cell water molecules, were used as a perturbation in the ZINDO calculations, which allowed us to query the electrostatic environmental influence on the chromophore.
Accelerating Enzymatic Catalysis Using Vortex Fluidics (2016)

Abstract Enzymes catalyze chemical transformations with outstanding stereo‐ and regio‐specificities, but many enzymes are limited by their long reaction times. A general method to accelerate enzymes using pressure waves contained within thin films is described. Each enzyme responds best to specific frequencies of pressure waves, and an acceleration landscape for each protein is reported. A vortex fluidic device introduces pressure waves that drive increased rate constants ( k cat ) and enzymatic efficiency ( k cat / K m ). Four enzymes displayed an average seven‐fold acceleration, with deoxyribose‐5‐phosphate aldolase (DERA) achieving an average 15‐fold enhancement using this approach. In solving a common problem in enzyme catalysis, a powerful, generalizable tool for enzyme acceleration has been uncovered. This research provides new insights into previously uncontrolled factors affecting enzyme function.
Supplementary Figures 7 - 14, Tables 3 - 7 from Integrative Analysis of 1q23.3 Copy-Number Gain in Metastatic Urothelial Carcinoma (2023)

&lt;p&gt;PDF file - 310KB, Figure S7: Comparison of copy number ratios at the 1q21.2 (MCL1) locus and 1q23.3; Figure S8: IGV screenshots of the 1q23.3 amplified region (Figure 3) for both cohorts; Figure S9: Kaplan-Meier curves for the second 1q23.3 GISTIC peak, located around FCGR3B; Figure S10: Kaplan-Meier curves for the PBX1 GISTIC peak at 1q23.3 (peak 3); Figure S11: Venn diagram of patients with amplification (log2 &gt; 0.9) of the three GISTIC peaks in the (a) Spanish, (b) DFCI and (c) TCGA cohorts; Figure S12: Boxplots visualizing the correlation of mRNA expression and copy number in the Spanish cohort for all genes in the 1q23.3 GISTIC peak 1; Figure S13: Boxplots visualizing the correlation of mRNA expression and copy number in the DFCI cohort for all genes in the 1q23.3 GISTIC peak 1; Figure S14: Panel (a) shows the correlation of copy number and Immunohistochemistry (IHC) staining of the PVRL4 gene in the Spanish cohort; Table S3: Associations of GISTIC peaks with overall survival after start of chemotherapy, adjusted for ECOG performance status and visceral disease (Spanish cohort); Table S4: Copy numbers in all bladder cancer cohorts at all three 1q23.3 GISTIC peaks. Numbers of patients in the TCGA cohort correspond to patients with clinical information; Table S5: Associations of ECOG PS, visceral disease, 1q23.3 amplification (peak 2, FCGR3B gene) and OS; Table S6: Associations of ECOG PS, visceral disease, 1q23.3 amplification (peak 3, PBX1 gene) and OS; Table S7: For the genes in 1q23.3, this table lists the correlations of copy number and mRNA expression and the correlations of overall survival and mRNA expression.&lt;/p&gt;