gebhart/patrepeval huggingface dataset:
Simulation of Viral Gene Delivery (2005)

Here we develop an integrative computational framework to model biophysical processes involved in viral gene delivery. The model uses reaction-diffusion-advection equations that describe intracellular trafficking in combination with kinetic equations that describe transcription and translation of the exogenous DNA. It relates molecular-level microtubular binding and trafficking events to whole-cell distribution of viruses. The approach makes use of current understanding of cellular processes and data from single-particle single-cell imaging experiments. We employ the model to study the influence of microtubule-mediated movements on nuclear targeting and gene expression of adenoviruses in HeLa and A549 cells. Effects of microtubule organization and dynamics and the presence of microtubule-destabilizing drug were analyzed and quantified. Model predictions agree well with experimental data available in literature. The paper serves as a guide for future theoretical and experimental efforts to understand viral gene delivery
HGG-01. A COMBINED PERFUSION AND DIFFUSION MRI BIOMARKER TO DISTINGUISH PEDIATRIC GLIOMA GRADE (2017)

BACKGROUND AND PURPOSE: This study aims to evaluate the effectiveness of perfusion MRI (pMRI) and diffusion MRI (DWI) parameters individually and in combination for distinguishing low-grade and high-grade pediatric brain tumors. MATERIALS AND METHODS: This IRB-approved study was performed in patients aged newborn to 18 years of age with newly diagnosed untreated brain lesions. A total of 38 patients were studied (22 females and 16 males). All MRI examinations were performed on a 1.5 T MRI scanner. Surgically resected and non-resected tumors were classified according to WHO tumor grades I, II (LG) and III, IV (HG). Pilocytic astrocytomas and optic pathway gliomas were grouped separately (PA+OPG). ROIs were selected using the tumor boundaries apparent on the FLAIR sequence with peritumoral edematous regions excluded if present. The rCBV determined as both standardized and normalized rCBV (sRCBV, nRCBV) as well as diffusion (ADC) mean values were determined. Statistical analysis included the Wilcoxon-Mann-Whitney t-test using an alpha=0.05 as the level of significance. RESULTS: This study demonstrates that the combined parameter, determined from the ratio of sRCBV to ADC has a greater statistical power for distinguishing HG, LG, PA+OPG lesions than ADC or rCBV alone. CONCLUSION: This study presents the ratio of sRCBV to ADC as a novel imaging biomarker able to distinguish low-grade from high-grade pediatric brain tumor and further distinguish PA+OPG from high-grade tumors. Tumor subclassification by imaging alone would be beneficial for treatment monitoring, may help to reduce invasive interventions and important for nonsurgical candidates.
O8 Performance of the EULAR/ACR 2019 classification criteria for systemic lupus erythematosus in men, ethnicities, and early disease (2020)

<h3>Background</h3> Supported by both the ACR and EULAR, the EULAR/ACR 2019 Classification Criteria for SLE employ positive ANA (ever) as an entry criterion and use a weighted scheme with values ranging from 2 to 10, for a classification cut-off of 10. Criteria items are attributed to SLE only if there is no more likely alternative diagnosis in the individual patients. Items are organized in domains, and only the highest ranking item within a domain is counted. These criteria have been validated in a cohort of 696 SLE patients and 574 non-SLE patients from a total of 21 centers, reaching an overall sensitivity of 96.1% and a specificity of 93.4%. To at least estimate the performance in groups underrepresented in the validation cohort of this transatlantic project, we analyzed this cohort for patient subsets with regard to sex, ethnicity, and disease duration. <h3>Methods</h3> The full EULAR/ACR 2019 classification criteria validation cohort was analyzed for female (n=1,098) and male (n=172) patients, Asian (n=118), Black (n=68), Hispanic (n=124) and White (n=941) patients, and patients with an SLE duration of less than 1 year (n=34), one to less than 3 years (n=196), 3 to less than 5 years (n=157), and 5 or more years (n=879). Sensitivity and specificity were calculated for the EULAR/ACR 2019 criteria, the SLICC 2012 criteria and the ACR 1997 criteria each. <h3>Results</h3> As shown in table 1, most of the point estimates for sensitivity and specificity in subsets lay within the 95% confidence intervals of the sensitivity and specificity of the EULAR/ACR 2019 criteria validation. In particular, sensitivity and specificity for all ethnic groups were within the confidence intervals or even higher. Formally, the sensitivity was slightly lower for male patients, corresponding to a higher specificity, but the male 95% confidence intervals (0.86–0.98 for sensitivity, 0.90–0.99 for specificity) overlapped. While sensitivity appeared independent of disease duration from year 1 on, sensitivity was only 89% in the first year of disease, identical to the SLICC criteria (89%) and numerically higher than the ACR criteria (56%), but all confidence intervals overlapped. <h3>Conclusion</h3> While not all subgroups of SLE patients in the validation cohort are of adequate size to fully explore the sensitivity and specificity of the EULAR/ACR 2019 SLE classification criteria in the respective subsets, the point estimates of sensitivity and specificity suggest that the new criteria perform at least reasonably well in all ethnic groups, in men and in early disease. Nevertheless, sensitivity and specificity should be independently validated in larger groups of Asian, Black and Hispanic patients, male patients and in early disease.
Therapeutic applications of RNAi : methods and protocols (2009)

1. Development and Application of a Dual-Purpose Nanoparticle Platform for Delivery and Imaging of siRNA in Tumors Zdravka Medarova, Mohanraja Kumar, Shu-wing Ng, and Anna Moore 2. Targeted Gene Silencing into Solid Tumors with Electrically Mediated siRNA Delivery Muriel Golzio, Laurent Mazzolini, Aurelie Paganin-Gioanni, and Justin Teissie 3. Liposomal siRNA for Ovarian Cancer Lingegowda S. Mangala, Hee Dong Han, Gabriel Lopez-Berestein, and Anil K. Sood 4. Therapeutic Applications of RNAi for Silencing Virus Replication Ralph A. Tripp and Stephen Mark Tompkins 5. RNAi in the Malaria Vector, Anopheles gambiae Flaminia Catteruccia and Elena A. Levashina 6. RNAi Using a Chitosan/siRNA Nanoparticle System: in vitro and in vivo Applications Morten Ostergaard Andersen, Kenneth Alan Howard, and Jorgen Kjems 7. Lentiviral and Adeno-Associated Vector-Based Therapy for Motor Neuron Disease through RNAi Chris Towne and Patrick Aebischer 8. Studying Autoimmunity by in vivo RNA Interference Stephan Kissler 9. Transcriptional Gene Silencing Using Small RNAs Daniel H. Kim and John J. Rossi 10. Alternative Splicing as a Therapeutic Target for Human Diseases Kenneth J. Dery, Veronica Gusti, Shikha Gaur, John E. Shively, Yun Yen, and Rajesh K. Gaur
Distributed feedback InGaN/GaN laser diodes (2018)

We have realised InGaN/GaN distributed feedback laser diodes emitting at a single wavelength in the 42X nm wavelength range. Laser diodes based on Gallium Nitride (GaN) are useful devices in a wide range of applications including atomic spectroscopy, data storage and optical communications. To fully exploit some of these application areas there is a need for a GaN laser diode with high spectral purity, e.g. in atomic clocks, where a narrow line width blue laser source can be used to target the atomic cooling transition. Previously, GaN DFB lasers have been realised using buried or surface gratings. Buried gratings require complex overgrowth steps which can introduce epi-defects. Surface gratings designs, can compromise the quality of the p-type contact due to dry etch damage and are prone to increased optical losses in the grating regions. In our approach the grating is etched into the sidewall of the ridge. Advantages include a simpler fabrication route and design freedom over the grating coupling strength.Our intended application for these devices is cooling of the Sr+ ion and for this objective the laser characteristics of SMSR, linewidth, and power are critical. We investigate how these characteristics are affected by adjusting laser design parameters such as grating coupling coefficient and cavity length.
Newest Titles In Computing from Wiley & the IEEE Computer Society (2008)

Written by experts in this area, Software Maintenance Management explores the domain of software maintenance in depth and describes the critical overlaps with software development. It presents a new way of capturing software maintenance activities in a model-based process-improvement approach. The focus of this book examines the uniqueness of software maintenance activities, teaches how to assess software maintenance using the Software Maintenance Maturity Model (S3m model), and explores paths for improvement.
Resonance ultrasound spectroscopy forward modeling and inverse characterization of nickel-based superalloys (2015)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation Eric Biedermann, Leanne Jauriqui, John C. Aldrin, Brent Goodlet, Tresa Pollock, Chris Torbet, Siamack Mazdiyasni; Resonance ultrasound spectroscopy forward modeling and inverse characterization of nickel-based superalloys. AIP Conference Proceedings 31 March 2015; 1650 (1): 835–844. https://doi.org/10.1063/1.4914687 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAIP Publishing PortfolioAIP Conference Proceedings Search Advanced Search |Citation Search
Nucleophilic additions to and reductiosn of 5-formyl-and 5-acyl-2-isoxazolines (4,5-dihydeoisoxazoles): a stereoselective route to β,γ-dihydroxy ketones (1991)

Reductions of readily available 5-acyl-2-isoxazolines with L-Selectride follow the Felkin–Anh model and produce syn-5-hydrodyallkyl-2-isoxazolines with excellent (>95 : 5) selectives. Swern oxidation of 5-hydroxymethyl-2-isoxazolines, followed by direct addition of a Grignard reagent to the intermediate 5-formyl-2-isoxazolines, also follows the Felkin–Anh model and produces anti-5 hydroxyalkyl-2-2 isoxazolines with modest (80 : 20) to excellent (>95.5) selevtivity. In contrast, additions of Grignard regents to 5-acyl-2-isoxazolines follow the chelation model, and give syn or anti products (depending on choice of acyl substiuent and Grignard reagent) with good (90 : 10) to excellent selectivity. These selectivities are almost always far superior to those that can be obtained by direct nitrile oxide cycloaddition to a chiral allylic alcohol ro ether. The resulting products are readily reduced to syn-or anti-β,γ-dihydroxy ketones. A speculative model to explain this surprising reversal in selectivity between formly and acyl isoxazolines is proposed.
Consensus document on the radial approach in percutaneous cardiovascular interventions: position paper by the European Association of Percutaneous Cardiovascular Interventions and Working Groups on Acute Cardiac Care** and Thrombosis of the European Society of Cardiology (2013)

Radial access use has been growing steadily but, despite encouraging results, still varies greatly among operators, hospitals, countries and continents. Twenty years from its introduction, it was felt that the time had come to develop a common evidence-based view on the technical, clinical and organisational implications of using the radial approach for coronary angiography and interventions. The European Association of Percutaneous Cardiovascular Interventions (EAPCI) has, therefore, appointed a core group of European and non-European experts, including pioneers of radial angioplasty and operators with different practices in vascular access supported by experts nominated by the Working Groups on Acute Cardiac Care and Thrombosis of the European Society of Cardiology (ESC). Their goal was to define the role of the radial approach in modern interventional practice and give advice on technique, training needs, and optimal clinical indications.
Investigations of Energy Migration in an Organic Dendrimer Macromolecule for Sensory Signal Amplification (2009)

The issue of macromolecular exciton delocalization length and fluorescence sensing of energetic materials is investigated and modeled from results of nonlinear optical and time-resolved spectroscopy. By using two- and three-photon absorption techniques the fluorescence quenching effects of an organic dendrimer for sensing TNT were carried out. The Stern-Volmer plots for the set of dendrimers were examined and a large quenching constant for the dendrimer G4 was obtained (1400 M(-1)). The quenching constant was found to increase with the dendrimer generation number. The mechanism for the enhanced sensitivity of the dendrimer system was examined by probing the exciton dynamics with femtosecond fluorescence up-conversion. Fluorescence lifetime measurements revealed a multicomponent relaxation that varied with dendrimer generation. Fluorescence anisotropy decay measurements were used to probe the exciton migration length in these dendrimer systems and for the large structure the excitation migration area covers approximately 20 units. All of these results were used in a model that describes the exciton localization length with the fluorescence quenching strength. The use of time-resolved techniques allows for a closer and more detailed description of the mechanism of sensory amplification in organic macromolecules.
Active Architecture for Pervasive Contextual Services (2010)

Pervasive services may be defined as services that are available "to any client (anytime, anywhere)". Here we focus on the software and network infrastructure required to support pervasive contextual services operating over a wide area. One of the key requirements is a matching service capable of as-similating and filtering information from various sources and determining matches relevant to those services. We consider some of the challenges in engineering a globally distributed matching service that is scalable, manageable, and able to evolve incrementally as usage patterns, data formats, services, network topologies and deployment technologies change. We outline an approach based on the use of a peer-to-peer architecture to distribute user events and data, and to support the deployment and evolution of the infrastructure itself.
A high yield route to rhenium(VII) bis(imido) neopentylidene complexes (1987)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTA high yield route to rhenium(VII) bis(imido) neopentylidene complexesA. D. Horton, R. R. Schrock, and J. H. FreudenbergerCite this: Organometallics 1987, 6, 4, 893–894Publication Date (Print):April 1, 1987Publication History Published online1 May 2002Published inissue 1 April 1987https://pubs.acs.org/doi/10.1021/om00147a038https://doi.org/10.1021/om00147a038research-articleACS PublicationsRequest reuse permissionsArticle Views150Altmetric-Citations27LEARN 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
Measurements and sensitivities of LWR in poly spacers (2010)

LER (Line Edge Roughness) and LWR (Line Width Roughness) have long been considered a primary issue in process development and monitoring. Development of a low power process flavors emphasizes the effect of LER, LWR on different aspects of the device. Gate level performance, particularly leakage current at the front end of line, resistance and reliability in the back-end layers. Traditionally, as can be seen in many publications, for the front end of line the focus is mainly on Poly and Active area layers. Poly spacers contribution to the gate leakage, for example, is rarely discussed. Following our research on sources of gate leakage, we found leakage current (I off ) in some processes to be highly sensitive to changes in the width of the Poly spacers - even more strongly to the actual Poly gate CDs. Therefore we decided to measure Poly spacers LWR, its correlation to the LWR in the poly, and its sensitivity to changes in layout and OPC. In our last year publication, we defined the terms LLER (Local Line Edge Roughness) and LLWR (Local Line Width Roughness). The local roughness is measured as the 3-sigma value of the line edge/width in a 5-nm segment around the measurement point. We will use these terms in this paper to evaluate the Poly roughness impact on Poly spacer's roughness. A dedicated test chip was designed for the experiments, having various transistors layout configurations with different densities to cover the all range of process design rules. Applied Materials LER and LWR innovative algorithms were used to measure and characterize the spacer roughness relative to the distance from the active edges and from other spaces. To accurately measure all structures in a reasonable time, the recipes were automatically generated from CAD. On silicon, after poly spacers generation, the transistors no longer resemble the Poly layer CAD layout, their morphology is different compared with Photo/Etch traditional structures, and dimensions vary significantly. This paper presents metrology and characterization of poly spacer LLWR and LLER compared to that of the poly gate in various transistor shapes, showing that the relation between them depends on the transistor architecture (final layout, including OPC). It also shows how the spacer deposition may reduce, keep or even enlarge the roughness measured on Poly, depending on transistor layout, but surprisingly, not dependent on proximity effects.
The development of a quality control system for the construction of seals (2008)

The Western Cape Provincial Administration, Roads Infrastructure Branch, is responsible for the maintenance of approximately 6000 km of sealed roads. Reseals are regularly undertaken according to needs identified by the Branch’s Pavement Management System. In the past, the Branch has experienced problems on seal projects, such as the lack of proper control; inconsistent approaches by consultants; recording and storage of accurate as-built data. Reporting on hard copy forms was time-consuming and often led to data errors that were not easily detected. The Branch has switched from a cumbersome, manual seal control system, to a modern, computerised approach. The Branch also suffers from an acute shortage of skills in both the public and private sector. To meet these challenges and address the above problems, a suite of supporting quality control systems was developed, one of which is the seal process control software discussed in this paper. This software solution addresses the maintenance of materials quality and source records; climatic, environmental and operational records; design change controls; and construction process controls. Advantages of the software include increased confidence and consistency of approach, while using a secure database, where data can be transferred to a central repository for construction monitoring and performance analysis.
LSO/photodiode and LSO avalanche photodiode detectors (2003)

The performance of Lu/sub 2(1-x)/Ce/sub 2x/(SiO/sub 4/)O (LSO) detectors was assessed under laboratory conditions. The PMT (photomultiplier tube) and the APD (avalanche photodiode) gave the same energy resolution when used with LSO, although the APD displayed a thermal noise threshold of 30 keV compared to <5 keV for the PMT. The PD resulted in a power energy resolution of 14% and also a considerably higher noise threshold of 140 keV. One notable advantage of LSO scintillators over CsI(Tl) and CdWO/sub 4/ when used with APD detectors is the short decay time of 40 ns. This allows the use of much shorter amplifier shaping times, 0.25 mu s for LSO compared to 3-20 mu s for CsI(Tl) of CdWO/sub 4/, which dramatically improves the count-rate capability of the detector as well as the ratio of signal to noise.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
ConoDictor: a tool for prediction of conopeptide superfamilies (2012)

ConoDictor is a tool that enables fast and accurate classification of conopeptides into superfamilies based on their amino acid sequence. ConoDictor combines predictions from two complementary approaches-profile hidden Markov models and generalized profiles. Results appear in a browser as tables that can be downloaded in various formats. This application is particularly valuable in view of the exponentially increasing number of conopeptides that are being identified. ConoDictor was written in Perl using the common gateway interface module with a php submission page. Sequence matching is performed with hmmsearch from HMMER 3 and ps_scan.pl from the pftools 2.3 package. ConoDictor is freely accessible at http://conco.ebc.ee.
Cost‐effectiveness analysis of sofosbuvir and velpatasvir in chronic hepatitis C patients with decompensated cirrhosis (2020)

This analysis informs payers that SOF/VEL should continue to be reimbursed in decompensated hepatitis C patients. It also supports the recommendations by the American Association for the Study of Liver Diseases to continue screening for HCC in decompensated cirrhotic patients who have achieved sustained virologic response.