gebhart/patrepeval huggingface dataset:
PERSPECTIVES The Evolution of Extracellular Matrix (2010)

We present a perspective on the molecular evolution of the extracellular matrix (ECM) in metazoa that draws on research publications and data from sequenced genomes and expressed sequence tag libraries. ECM components do not function in isolation, and the biological ECM system or “adhesome ” also depends on posttranslational processing enzymes, cell surface receptors, and extracellular proteases. We focus principally on the adhesome of internal tissues and discuss its origins at the dawn of the metazoa and the expansion of complexity that occurred in the chordate lineage. The analyses demonstrate very high conservation of a core adhesome that apparently evolved in a major wave of innovation in conjunction with the origin of metazoa. Integrin, CD36, and certain domains predate the metazoa, and some ECM-related proteins are identified in choanoflagellates as predicted sequences. Modern deuterostomes and vertebrates have many novelties and elaborations of ECM as a result of domain shuffling, domain innovations and gene family expansions. Knowledge of the evolution of metazoan ECM is important for understanding how it is built as a system, its roles in normal tissues and disease processes, and has relevance for tissue engineering, the development of artificial organs, and the goals of synthetic biology.
Reduction of Power Consumption of Optical Amplification with Hybrid Pumping Scheme MC-EDFA Controlled for Signal Allocation (2018)

We clarify the optimal pumping schemes for SDM/WDM channel allocation with a 7-core hybrid MC-EDFA. We report up to 20% of power consumption at maximum capacity. We estimate the benefits from improvement of cladding pumping.
Reuse Distance-Based Probabilistic Cache Replacement (2015)

This article proposes Probabilistic Replacement Policy (PRP), a novel replacement policy that evicts the line with minimum estimated hit probability under optimal replacement instead of the line with maximum expected reuse distance. The latter is optimal under the independent reference model of programs, which does not hold for last-level caches (LLC). PRP requires 7% and 2% metadata overheads in the cache and DRAM respectively. Using a sampling scheme makes DRAM overhead negligible, with minimal performance impact. Including detailed overhead modeling and equal cache areas, PRP outperforms SHiP, a state-of-the-art LLC replacement algorithm, by 4% for memory-intensive SPEC-CPU2006 benchmarks.
Peridynamics with LAMMPS : a user guide. (2008)

Peridynamics is a nonlocal formulation of continuum mechanics. The discrete peridynamic model has the same computational structure as a molecular dynamic model. This document details the implementation of a discrete peridynamic model within the LAMMPS molecular dynamic code. This document provides a brief overview of the peridynamic model of a continuum, then discusses how the peridynamic model is discretized, and overviews the LAMMPS implementation. A nontrivial example problem is also included.
Autonomic personal computing (2003)

Autonomic personal computing is personal computing on autonomic computing platforms. Its goals combine those of personal computing with those of autonomic computing. The challenge of personal autonomic computing is to simplify and enhance the end-user experience, delighting the user by anticipating his or her needs in the face of a complex, dynamic, and uncertain environment. In this paper we identify the key technologies that enable autonomic behavior as distinguished from fault-tolerant behavior. We give some examples of current autonomic behavior and some general considerations for an architecture that supports autonomic personal computing. We identify its challenges to standards and technology developers and conclude with some guidance for future work.
Experiences with the Design, Fielding, and Evaluation of a Real-Time Communications Agent (2003)

We review the design and evaluation of a fielded communications agent that routes telephone calls for several hundred people at our organization. In an advanced mode of operation, the system performs a cost-benefit analysis to balance the priority of calls with the context-sensitive cost of interrupting users. We discuss the challenges with developing a communications agent spanning client-side software and telephony infrastructure. We focus on metaphors and tools that allow users to specify priorities and costs. Finally, we report on the results analysis of surveys and monitored logs of preferences and activities. Keywords Computer-telephony integration, computer mediated communication, decision-making agents, interruptions ACM Classification H.5.2 User Interfaces—Graphical user interfaces, prototyping, evaluation/methodology. H.5.3 Group and Organization interfaces—Synchronous interaction.
The Known Antimammalian and Insecticidal Alkaloids Are Not Responsible for the Antifungal Activity of Epichloë Endophytes (2021)

Asexual <i>Epichloë</i> sp. endophytes in association with pasture grasses produce agronomically important alkaloids (e.g., lolitrem B, epoxy-janthitrems, ergovaline, peramine, and lolines) that exhibit toxicity to grazing mammals and/or insect pests. Novel strains are primarily characterised for the presence of these compounds to ensure they are beneficial in an agronomical setting. Previous work identified endophyte strains that exhibit enhanced antifungal activity, which have the potential to improve pasture and turf quality as well as animal welfare through phytopathogen disease control. The contribution of endophyte-derived alkaloids to improving pasture and turf grass disease resistance has not been closely examined. To assess antifungal bioactivity, nine <i>Epichloë</i> related compounds, namely peramine hemisulfate, <i>n</i>-formylloline-d3, <i>n</i>-acetylloline hydrochloride, lolitrem B, janthitrem A, paxilline, terpendole E, terpendole C, and ergovaline, and four <i>Claviceps purpurea</i> ergot alkaloids, namely ergotamine, ergocornine, ergocryptine, and ergotaminine, were tested at concentrations higher than observed in planta in glasshouse and field settings using in vitro agar well diffusion assays against three common pasture and turf phytopathogens, namely <i>Ceratobasidium</i> sp., <i>Drechslera</i> sp., and <i>Fusarium</i> sp. Visual characterisation of bioactivity using pathogen growth area, mycelial density, and direction of growth indicated no inhibition of pathogen growth. This was confirmed by statistical analysis. The compounds responsible for antifungal bioactivity of <i>Epichloë</i> endophytes hence remain unknown and require further investigation.
Atomic structure of [0001]-tilt grain boundaries in ZnO:  A high-resolution TEM study of fiber-textured thin films (2004)

The atomic structure of [0001]-tilt grain boundaries in ZnO was investigated using high-resolution transmission electron microscopy (HRTEM) and atomistic calculations. HRTEM observation was conducted for [0001] fiber-textured ZnO thin films grown on quartz-glass substrates by the pulsed-laser deposition. The [0001]-tilt boundaries observed in the films can be classified into three types: low-angle boundaries composed of irregular dislocation arrays, boundaries with ${10\overline{1}0}$ facet structures, and near-low $\ensuremath{\Sigma}$ boundaries represented by symmetric periodicity units. The atomic structure of the boundaries is discussed with a focus on a $\ensuremath{\Sigma}=7$ boundary in conjunction with atomistic calculations and HRTEM image simulations. The $\ensuremath{\Sigma}=7$ boundary consists of multiple structural units that are very similar to the core structures of edge dislocations. Straight or zigzag arrangements of the dislocationlike structural units constitute other high-angle boundaries with symmetric and ${10\overline{1}0}$ facet structures as well. It is suggested that [0001]-tilt boundaries in ZnO are generally described as an array of the dislocationlike units.
ChemInform Abstract: RHODIUM ATOM CHEMISTRY. 2. INTERACTION OF SMALL, WELL‐DEFINED RHODIUM CLUSTERS WITH DIOXYGEN. RH2(O2)N AND RH3(O2)M, LOCALIZED BONDING MODELS FOR DIOXYGEN CHEMISORPTION ON RHODIUM METAL (1978)

Abstract Die Wechselwirkung kleiner gut definierter Rh‐cluster Rhn (n: 2 oder 3) mit O2‐Molekülen wird erstmalig durch Matrix‐ IR‐ und UV‐VIS‐Spektroskopie, gekoppelt mit Metall/O2‐Konzentrationsexperimenten, Aufwärrnuntersuchungen und O2‐Isotopensubstitutionsexperimenten untersucht.
Nuclear magnetic resonance investigation of the cytochrome oxidase-phospholipid interaction: a new model for boundary lipid (1979)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNuclear magnetic resonance investigation of the cytochrome oxidase-phospholipid interaction: a new model for boundary lipidS. Y. Kang, H. S. Gutowsky, J. C. Hshung, Russell Jacobs, Tsoo E. King, David Rice, and Eric OldfieldCite this: Biochemistry 1979, 18, 15, 3257–3267Publication Date (Print):July 1, 1979Publication History Published online1 May 2002Published inissue 1 July 1979https://pubs.acs.org/doi/10.1021/bi00582a010https://doi.org/10.1021/bi00582a010research-articleACS PublicationsRequest reuse permissionsArticle Views55Altmetric-Citations105LEARN 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
ABSENCE OF CD44 EXPRESSION IS AN INDEPENDENT PREDICTOR OF POOR OUTCOME FOR PATIENTS WITH UROTHELIAL BLADDER CANCER (2009)

You have accessJournal of Urology1 Apr 2009ABSENCE OF CD44 EXPRESSION IS AN INDEPENDENT PREDICTOR OF POOR OUTCOME FOR PATIENTS WITH UROTHELIAL BLADDER CANCER Tobias Klatte, David B Seligson, Jian Yu Rao, Hong Yu, Michela de Martino, Kelly Kawaoka, Isla P Garraway, Steven G Wong, Arie S Belldegrun, and Allan J Pantuck Tobias KlatteTobias Klatte More articles by this author , David B SeligsonDavid B Seligson More articles by this author , Jian Yu RaoJian Yu Rao More articles by this author , Hong YuHong Yu More articles by this author , Michela de MartinoMichela de Martino More articles by this author , Kelly KawaokaKelly Kawaoka More articles by this author , Isla P GarrawayIsla P Garraway More articles by this author , Steven G WongSteven G Wong More articles by this author , Arie S BelldegrunArie S Belldegrun More articles by this author , and Allan J PantuckAllan J Pantuck More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(09)60881-8AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "ABSENCE OF CD44 EXPRESSION IS AN INDEPENDENT PREDICTOR OF POOR OUTCOME FOR PATIENTS WITH UROTHELIAL BLADDER CANCER." The Journal of Urology, 181(4S), p. 309 © 2009 by American Urological AssociationFiguresReferencesRelatedDetails Volume 181Issue 4SApril 2009Page: 309 Advertisement Copyright & Permissions© 2009 by American Urological AssociationMetricsAuthor Information Tobias Klatte More articles by this author David B Seligson More articles by this author Jian Yu Rao More articles by this author Hong Yu More articles by this author Michela de Martino More articles by this author Kelly Kawaoka More articles by this author Isla P Garraway More articles by this author Steven G Wong More articles by this author Arie S Belldegrun More articles by this author Allan J Pantuck More articles by this author Expand All Advertisement PDF downloadLoading ...
ChemInform Abstract: A NEW SYNTHESIS OF EPIDITHIAPIPERAZINEDIONES (1976)

Abstract Aus 1,4‐Dimethyl‐3,6‐dimercapto‐ 2,5‐piperazindion (Ia) entsteht der Bis‐methoxymethylthioäther (Ib), der über das Dianion zu den Disubstitutionsprodukten (II) führt.
Communication in a diffuse random medium with time-reversal techniques (2001)

The application of time-reversal focusing to communication in a diffuse random medium is discussed, and new experimental results are presented. Binary information was transmitted by using a 24-element time-reversal array, with a 3.2 central frequency, either in water or in a multiple scattering sample. The media we studied consisted of random collections of parallel steel rods immersed in water. Experiments show that it is possible to take advantage of high-order multiple scattering in order to transmit five different binary sequences to five different points simultaneously, which would be impossible to achieve in a homogeneous medium with the same antenna, due to its poor resolution. The results are discussed in relation with the numbers of significant singular values of the propagation matrix.
Report for Evaluation of Canonical SNP Taqman Assays to Detect Biothreat Agents and Environmental Samples for DHS (2011)

The objective of this project is to provide DHS a comprehensive evaluation of the current genomic technologies including genotyping, Taqman PCR, multiple locus variable tandem repeat analysis (MLVA), microarray and high-throughput DNA sequencing in the analysis of biothreat agents from complex environmental samples. Taqman assays were designed to detect the canonical SNPs to discriminate different strains of Bacillus anthracis. The assays were run to test purified DNA from several strains of B. anthracis and BioWatch aerosol filter extracts and soil samples that were spiked with B. anthracis. The assays were very sensitive. We were able to detect signatures specific to B. anthracis Ames at the 10-100 genome copy level after spiking B. anthracis Ames DNA into BioWatch aerosol filter extracts 100-1000 when spiked into soil samples.
Main memory organization trade-offs with DRAM and STT-MRAM options based on gem5-NVMain simulation frameworks (2018)

Current main memory organizations in embedded and mobile application systems are DRAM dominated. The ever-increasing gap between today's processor and memory speeds makes the DRAM subsystem design a major aspect of computer system design. However, the limitations to DRAM scaling and other challenges like refresh provide undesired trade-offs between performance, energy and area to be made by architecture designers. Several emerging NVM options are being explored to at least partly remedy this but today it is very hard to assess the viability of these proposals because the simulations are not fully based on realistic assumptions on the NVM memory technologies and on the system architecture level. In this paper, we propose to use realistic, calibrated STT-MRAM models and a well calibrated cross-layer simulation and exploration framework, named SEAT, to better consider technologies aspects and architecture constraints. We will focus on general purpose/mobile SoC multi-core architectures. We will highlight results for a number of relevant benchmarks, representatives of numerous applications based on actual system architecture. The most energy efficient STT-MRAM based main memory proposal provides an average energy consumption reduction of 27% at the cost of 2x the area and the least energy efficient STT-MRAM based main memory proposal provides an average energy consumption reduction of 8% at the around the same area or lesser when compared to DRAM.
Polymorphic Restriction Sites of Type II Collagen Gene: Their Location and Frequencies in the Finnish Population (1988)

Restriction fragment length polymorphism (RFLP) of the cartilage-specific type II collagen gene has been studied in the Finnish population. Two high-frequency alleles, also reported in other populations, were detected. The HindIII allele had a frequency of 0.33, and that detected with PvuII a frequency of 0.46. Both of these frequencies resembled the ones reported for other populations. Also one BamHI allele, not earlier reported, was found at a low frequency. Two other previously reported polymorphisms for BamHI and EcoRI were not detected in the Finnish population. The RFLPs showed a fair agreement with the Hardy-Weinberg equilibrium. A linkage disequilibrium was found between PvuII and HindIII markers. The alpha 1(II) collagen gene seems to be more conserved in populations of various origins than the alpha 2(I) collagen gene. These polymorphic collagen markers would be useful in linkage studies of various inherited cartilage disorders.
A New Anti‐Counterfeiting Feature Relying on Invisible Luminescent Full Color Images Printed with Lanthanide‐Based Inks (2014)

Europium and terbium trisdipicolinate complexes are inkjet printed onto paper with commercially available desktop inkjet printers. Together with a commercial blue luminescent ink, the red‐emitting luminescent ink containing europium and the green‐emitting luminescent ink containing terbium are used to reproduce accurate full color images that are invisible under white light and appear under a 254 nm UV light. Such invisible luminescent images are attractive anti‐counterfeiting security features. The luminescent prints have a color range (gamut) nearly as wide as the gamut of a standard sRGB display. The gamut of the luminescent prints is determined by relying on a simple model predicting the relative spectral radiant emittances of any printed luminescent color halftone. The model is also used to establish the correspondence between the surface coverages of the printed luminescent inks and the emitted color of these luminescent halftones. The accuracy of the spectral prediction model is very good and can be rationalized by the absence of quenching when the luminescent lanthanide complexes are printed in superposition with the other luminescent materials.
High Sensitivity Differential Phase OTDR for Acoustic Signals Detection (2021)

We demonstrate the detection of speech signals and footsteps through a novel polarization-multiplexed coded differential-phase OTDR (optical time domain reflectometry) interrogation of standard telecom fibers in different configurations. We assess the sensitivity to audio signals by measuring the induced phase variation with respect to the sound pressure level of the perturbation, and manage to detect acoustic signals with high reliability. Further experiments are performed using an installed fiber cable showing the ability to track footsteps in an indoor scenario. These experiments pave the way for numerous applications of Distributed Acoustic Sensing (DAS) where a high sensitivity is required.
Ultra-sensitive vibrational spectroscopy of protein monolayers with plasmonic nanoantenna arrays (2009)

Infrared absorption spectroscopy enabling direct access to vibrational fingerprints of the molecular structure is a powerful method for functional studies of bio-molecules. Although the intrinsic absorption cross-sections of IR active modes of proteins are nearly 10 orders of magnitude larger than the corresponding Raman cross-sections, they are still small compared to that of fluorescence-label based methods. Here, we developed a new tool based on collective excitation of plasmonic nanoantenna arrays and demonstrated direct detection of vibrational signatures of single protein monolayers. We first tailored the geometry of individual nanoantennas to form resonant structures that match the molecular vibrational modes. The tailored nanoantennas are then arranged in such a way that their in-phase dipolar coupling leads to a collective excitation of the ensemble with strongly enhanced near fields. The combined collective and individual plasmonic responses of the antenna array play a critical role in attaining signal enhancement factors of 10(4)-10(5). We achieved measurement of the vibrational spectra of proteins at zeptomole levels for the entire array, corresponding to only 145 molecules per antenna. The near-field nature of the plasmonic enhancement of the absorption signals is demonstrated with progressive loading of the nanoantennas with varying protein film thicknesses. Finally, an advanced model based on nonequilibrium Green's function formalism is introduced, which explains the observed Fano-type absorption line-shapes and tuning of the absorption strengths with the antenna resonance.
Hole Relaxation in p-type InGaAs/AlGaAs Quantum Wells Observed by Ultrafast Mid-Infrared Spectroscopy (1995)

The mechanism of intersubband relaxation in quantum wells (QWs) is very important from a fundamental physics perspective and for device applications. Measurements performed by infrared bleaching [1-3] and anti-Stokes Raman scattering [4] techniques in n-type QWs have revealed a relaxation time ranging from less than 1 ps to 10 ps when the well is narrow enough to make the intersubband transition energy larger than the LO phonon energy.
ChemInform Abstract: Efficient Solar‐to‐Chemical Conversion by One Chip of n‐Type Silicon with Surface Asymmetry. (1998)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Observation 5 : Monsieur Gilbert C. (2009)

site ou, le cas chant, des conditions gnrales de la licence souscrite par votre tablissement.
LBH589, A Hydroxamic Acid-Derived HDAC Inhibitor, is Neuroprotective in Mouse Models of Huntington’s Disease (2016)

Our efficacious results of LBH589 in fragment and full-length mouse models of HD suggest that LBH589 is a promising candidate for clinical assessment in HD patients and provides confirmation that non-selective HDAC inhibitors can be viable clinical candidates.
A bug's eye view of immediate visual feedback in direct-manipulation programming systems (1997)

Immediate visual feedback is becoming a common feature in direct-manipulation programming systems of all kinds-from demonstrational macro builders to spreadsheet packages to visual programming languages featuring direct manipulation. But does immediate visual feedback actually help in the domain of programming? We previously reported on an empirical study to determine whether the inclusion of immediate visual feedback into a direct-manipulation programming system helps with one particular task: debugging. In that study, subjects debugged programs with and without immediate visual feedback. We found that although immediate visual feedback did not significantly help with debugging in general, it did significantly help with debugging in some circumstances.
Low Frequency Eddy Current Imaging using MR Sensor Detecting Tangential Magnetic Components for Non-destructing Evaluation (2006)

An eddy-current distribution imaging system with wide area magnetic field exposure, which can be applied to the detection of deep crack of the metal using a magnetic resistive (MR) sensor is developed. This eddy current image is obtained by the developed system detecting perpendicular components to the magnetic filed exposure. By using very low frequency magnetic field exposure, detection of the opposite side slit of the metal substrate is enabled.