gebhart/patrepeval huggingface dataset:
Dataset supporting the paper entitled "Hardware-Validated CPU Performance and Energy Modelling" (2018)

This dataset supports the paper entitled "Hardware-Validated CPU Performance and Energy Modelling" accepted for publication.
A Microfabricated Device for Subcellular Organelle Sorting (2004)

We report a microfabricated field flow fractionation device for continuous separation of subcellular organelles by isoelectric focusing. The microdevice provides fast separation in very small samples while avoiding large voltages and heating effects typically associated with conventional electrophoresis-based devices. The basis of the separation is the presence of membrane proteins that give rise to the effective isoelectric points of the organelles. Simulations of isoelectric focusing of mitochondria in microchannels are used to assess design parameters, such as dimensions and time scales. In addition, a model of Joule heating effects in the microdevice during operation indicates that there is no significant heating, even without active cooling. The device is fabricated using a combination of photolithography, thin-film metal deposition/patterning, and electroplating techniques. We demonstrate that in the microfluidic devices, mitochondria from cultured cells migrate under the influence of an electric field into a focused band in less than 6 min, consistent with model predictions. We also illustrate separation of mitochondria from whole cells and nuclei as well as the separation of two mitochondrial subpopulations. When automated and operated in parallel, these microdevices should facilitate high-throughput analysis in studies requiring separation of organelles.
Configuration of Autonomous Walkers for Extreme Terrain (1993)

Robots that can competently, efficiently, and autonomously operate in extreme terrain do not exist. Although walking locomotion offers unique advantages, existing walking mech anisms are not suited to the comprehensive requirements of extreme terrain autonomy. This work synthesizes and ana lyzes candidate walker configurations, implements and tests a walker of unprecedented capability and design, and devel ops insights regarding walker configuration and the class of orthogonal-legged walking robots. Three orthogonal-legged walker configurations are described and compared in a variety of terrain situations. Two of the configurations-circulating and weaving-are unique, as they place recovering feet ahead of supporting feet and are specifically notable for their long stride. The third uses a traditional follow-the-leader gait. The Ambler is a fully operable autonomous walking robot built in part to further investigate the benefits of the orthogonal leg and circulating gait configuration. The orthogonal leg appears to be well suited to autonomous walking in extreme terrain. A circulating walker's advantages—as demonstrated by the Am bler-notwithstanding, a follow-the-leader orthogonal-legged walker appears to have superior overall mobility and stability (the crucial capabilities in extreme terrain).
ORMDL3 expression levels have no influence on the activity of serine palmitoyltransferase (2016)

ORMDL proteins are believed to be negative regulators of serine palmitoyltransferase (SPT), which catalyzes the first and rate limiting step in sphingolipid (SL) de novo synthesis. Several single-nucleotide polymorphisms (SNPs) that are close to the ORMDL3 locus have been reported to increase ORMDL3 expression and to be associated with an elevated risk for early childhood asthma; however, the direct effect of ORMDL3 expression on SPT activity and its link to asthma remains elusive. In this study, we investigated whether ORMDL3 expression is associated with changes in SPT activity and total SL levels. Ormdl3-knockout (Ormdl3<sup>-/-</sup>) and transgenic (Ormdl3<sup>Tg/wt</sup>) mice were generated to study the effect of ORMDL3 on total SL levels in plasma and tissues. Cellular SPT activity was measured in mouse embryonic fibroblasts from Ormdl3<sup>-/-</sup> mice, as well as in HEK293 cells in which ORMDL3 was overexpressed and silenced. Furthermore, we analyzed the association of the reported ORMDL3 asthma SNPs with plasma sphingoid bases in a population-based cohort of 971 individuals. Total C<sub>18</sub>-long chain bases were not significantly altered in the plasma and tissues of Ormdl3<sup>-/-</sup> mice, whereas C<sub>18</sub>-sphinganine showed a small and significant increase in plasma, lung, and liver tissues. Mouse embryonic fibroblast cells from Ormdl3<sup>-/-</sup> mice did not show an altered SPT activity compared with Ormdl3<sup>+/-</sup> and Ormdl3<sup>+/+</sup> mice. Overexpression or knockdown of ORMDL3 in HEK293 cells did not alter SPT activity; however, parallel knockdown of all 3 ORMDL isoforms increased enzyme activity significantly. A significant association of the annotated ORMDL3 asthma SNPs with plasma long-chain sphingoid base levels could not be confirmed. ORMDL3 expression levels seem not to be directly associated with changes in SPT activity. ORMDL3 might influence de novo sphingolipid metabolism downstream of SPT.-Zhakupova, A., Debeuf, N., Krols, M., Toussaint, W., Vanhoutte, L., Alecu, I., Kutalik, Z., Vollenweider, P., Ernst, D., von Eckardstein, A., Lambrecht, B. N., Janssens, S., Hornemann, T. ORMDL3 expression levels have no influence on the activity of serine palmitoyltransferase.
Spin Dynamics of B2 and L2 1 -Ordered Co 2 FeAl 0.5 Si 0.5 Heusler Alloy Films (2011)

Measurements of magnetization precession are performed for L21 and B2-ordered Co2FeAl0.5Si0.5 full Heusler alloy films using the time-resolved magneto-optical Kerr effect technique in the out-of-plan configuration. Dependence of the precession frequency on the external magnetic field can be fitted by the Landau-Lifshitz-Gilbert equation. The chirp parameters are close to each other for the L21 and B2 structures, and decrease with the external magnetic field increasing. The relaxation rate of the B2-ordered film is smaller than that of the L21 one.
Simultaneous wavelength conversion of ASK and DPSK signals based on four-wave-mixing in dispersion engineered silicon waveguides (2011)

We experimentally demonstrate four-wave-mixing (FWM)-based continuous wavelength conversion of optical differential-phase-shift-keyed (DPSK) signals with large wavelength conversion ranges as well as simultaneous wavelength conversion of dual-wavelength channels with mixed modulation formats in 1.1-cm-long dispersion-engineered silicon waveguides. We first validate up to 100-nm wavelength conversion range for 10-Gb/s DPSK signals, showcasing the capability to perform phase-preserving operations at high bit rates in chip-scale devices over wide conversion ranges. We further validate the wavelength conversion of dual-wavelength channels modulated with 10-Gb/s packetized phase-shift-keyed (PSK) and amplitude-shift-keyed (ASK) signals; demonstrate simultaneous operation on multiple channels with mixed formats in chip-scale devices. For both configurations, we measure the spectral and temporal responses and evaluate the performances using bit-error-rate (BER) measurements.
Using advanced compiler technology to exploit the performance of the Cell Broadband Engine™ architecture (2006)

The continuing importance of game applications and other numerically intensive workloads has generated an upsurge in novel computer architectures tailored for such functionality. Game applications feature highly parallel code for functions such as game physics, which have high computation and memory requirements, and scalar code for functions such as game artificial intelligence, for which fast response times and a full-featured programming environment are critical. The Cell Broadband Engine™ architecture targets such applications, providing both flexibility and high performance by utilizing a 64-bit multithreaded PowerPC® processor element (PPE) with two levels of globally coherent cache and eight synergistic processor elements (SPEs), each consisting of a processor designed for streaming workloads, a local memory, and a globally coherent DMA (direct memory access) engine. Growth in processor complexity is driving a parallel need for sophisticated compiler technology. In this paper, we present a variety of compiler techniques designed to exploit the performance potential of the SPEs and to enable the multilevel heterogeneous parallelism found in the Cell Broadband Engine architecture. Our goal in developing this compiler has been to enhance programmability while continuing to provide high performance. We review the Cell Broadband Engine architecture and present the results of our compiler techniques, including SPE optimization, automatic code generation, single source parallelization, and partitioning.
Membrane transport systems. V. Coupled countertransport of alkaline earth cations and protons (1984)

The extraction and transport of alkaline earth cations from a basic to an acidic solution across an artificial membrane by crown ether carboxylic acids are reported. Monocarboxylate carriers achieve the transport via 2:1 complexes or by ternary complexes in the presence of readily extractible anions, while dicarboxylate carriers transport cations as 1: 1 complexes. Both types of carrier exhibit two regimes of kinetic behaviour depending on the relative concentrations of the carrier and the metal ion: a zero order regime in which the rate depends only on the carrier concentration, and a reversible consecutive first order regime in which the rate depends only on the metal ion concentration. In the former, the rate of adsorption of the carrier on the interface is presumed to be rate limiting while in the latter, the diffusion of metal ion to the interface is rate limiting. Carrier structure exerts a general influence over both the rate and selectivity of transport but this influence varies with the kinetic regime considered.
Fabrication and Characterization of SiO2 Particles Generated by Spray Method for Standards Aerosol. (2001)

This paper describes the investigation of the generation of spherical silica particles, which could potentially be used as alternative calibration aerosol for substituting DOP (dioctylphthalate) particles. Silica particles were generated by a spray drying method using a nanometer-sized colloidal silica suspension as the starting material. The generated silica particles have a spherical morphology, are nearly monodispersed and their size can be controlled at submicron order. The smoothness of the particle surface is greatly affected by the size of the colloidal silica particles used. Silica aerosol particles were also generated by the spray pyrolysis of an aqueous solution of tetraethylorthosilicate (TEOS), in order to compare their properties with those of silica particles obtained by spray drying method. The electrical mobility equivalent diameter of silica particles generated by spray drying method is in good agreement with the diameter determined by SEM observation. The light scattering characteristics of the silica aerosol particles were also measured using a laser particle counter and compared with a polystyrene latex (PSL) aerosol. By increasing the drying temperature of the silica sol droplets to 1200°C, the change of scattered light intensity with particle diameter shows a tendency similar to that of spherical PSL particles. Consequently, the spherical submicron silica particles generated by the present spray drying method appear to be applicable to the test of air filters.
ChemInform Abstract: Mizoroki—Heck Reactions Promoted by Microwave Irradiation. Part 1. General Aspects, Reaction Media and Conditions (2009)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 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.
Osmotic response of lymphocytes measured by means of forward light scattering: Theoretical considerations (1988)

Recent data provide solid experimental evidence that increase in cell size of human lymphocytes, caused by osmotic stress, is not directly proportional to forward scattering intensity but rather is inversely proportional. Here, we provide arguments that this phenomenon can be quantitatively explained by means of a model based on a modified Rayleigh-Debye-Gans theory. As a consequence, the current view that forward scattering intensities can be used as a measure of gross cell size needs to be reconsidered. In addition, we postulate that structural changes of the cytoplasm, imposed by an osmotic stress, reflect corresponding changes in the nucleus.
Modeling Pharmacological Inhibition of Mast Cell Degranulation as a Therapy for Insulinoma (2011)

Myc, a pleiotropic transcription factor that is deregulated and/or overexpressed in most human cancers, instructs multiple extracellular programs that are required to sustain the complex microenvironment needed for tumor maintenance, including remodeling of tumor stroma, angiogenesis, and inflammation. We previously showed in a model of pancreatic β-cell tumorigenesis that acute Myc activation in vivo triggers rapid recruitment of mast cells to the tumor site and that this is absolutely required for angiogenesis and macroscopic tumor expansion. Moreover, systemic inhibition of mast cell degranulation with sodium cromoglycate induced death of tumor and endothelial cells in established tumors. Hence, mast cells are required both to establish and to maintain the tumors. Whereas this intimates that selective inhibition of mast cell function could be therapeutically efficacious, cromoglycate is not a practical drug for systemic delivery in humans, and no other systemic inhibitor of mast cell degranulation has hitherto been available. PCI-32765 is a novel inhibitor of Bruton tyrosine kinase (Btk) that blocks mast cell degranulation and is currently in clinical trial as a therapy for B-cell non-Hodgkin lymphoma. Here, we show that systemic treatment of insulinoma-bearing mice with PCI-32765 efficiently inhibits Btk, blocks mast cell degranulation, and triggers collapse of tumor vasculature and tumor regression. These data reinforce the notion that mast cell function is required for maintenance of certain tumor types and indicate that the Btk inhibitor PCI-32765 may be useful in treating such diseases.
Urolithiasis, Endourology and Laparoscopy (2006)

No AccessJournal of UrologyInvestigative urology1 Dec 2006Urolithiasis, Endourology and Laparoscopy Ralph ClaymanM.D. Ralph ClaymanRalph Clayman View All Author Informationhttps://doi.org/10.1016/j.juro.2006.08.116AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Urolithiasis, Endourology and Laparoscopy." The Journal of Urology, 176(6), pp. 2742–2743 © 2006 by American Urological AssociationFiguresReferencesRelatedDetails Volume 176Issue 6December 2006Page: 2742-2743 Advertisement Copyright & Permissions© 2006 by American Urological AssociationMetrics Author Information Ralph Clayman More articles by this author Expand All Advertisement PDF downloadLoading ...
Identification and colorimetric determination of organic cyanates in nanomolar quantities (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTIdentification and colorimetric determination of organic cyanates in nanomolar quantitiesJoachim. Kohn, Elizabeth C. Albert, Meir. Wilchek, and Robert. LangerCite this: Anal. Chem. 1986, 58, 14, 3184–3188Publication Date (Print):December 1, 1986Publication History Published online1 May 2002Published inissue 1 December 1986https://pubs.acs.org/doi/10.1021/ac00127a058https://doi.org/10.1021/ac00127a058research-articleACS PublicationsRequest reuse permissionsArticle Views156Altmetric-Citations5LEARN 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
SENSOR COMPONENTS FOR PCR DETECTION OF SALMONELLA IN ALFALFA SPROUT IRRIGATION WATER (2004)

Salmonella has been associated with a number of recent outbreaks of foodborne illness involving sprouted seeds.In this research, we addressed the design of sensor components intended for use in a fully automated detection system. Areal-time PCR assay was developed to detect Salmonella in sprout irrigation water. Specific detection was achieved bytargeting a region of the invasion gene, invA. The detection limit for Salmonella in sterile water was approximately 400 CFU,and in sprout irrigation water the detection limit was approximately 200 CFU. Components for an automated sensing systemwere designed, including a thermal cycler and a fluorescent optical sensor. The thermal cycler utilized a thermoelectricmodule for heating and cooling the sample block and a heat sink and fan to remove heat from the module during cooling.Sample temperature was controlled to within about 1C at each of the PCR setpoints (94C, 55C, and 72C). The opticalsensor used a laser diode (635 nm) for excitation and a bandpass interference filter (700 20 nm) coupled with a photodiodefor fluorescence detection. The DNA dye TO-PRO-3 (642 nm excitation; 661 nm emission) was chosen to match the excitationwavelength of the laser diode. Calibration of the optical sensor with calf thymus DNA showed detection down to 0.01 .g mL-1,demonstrating the potential to detect down to 1 CFU if used in conjunction with PCR. When the sensor components were usedto implement the real-time assay, S. Newport was detected to approximately 7.3 104 CFU in sterile water andapproximately 1.5 106 CFU in sprout irrigation water. Further optimization of the assay in the sensor will be needed toimprove the detection limits.
Design of co-phasing allpass filters for full-duplex OFDM relays (2008)

This paper studies amplify-and-forward relaying of OFDM signals. In the considered cellular hotspot scenario, a destination node receives superposition of single-hop transmission from a source node and two-hop transmissions via full-duplex relays. We propose a novel co-phasing scheme that results in significant coherent combining gain in the destination due to subcarrier phase rotation in the relays. In full-duplex relays, the phase rotation is achievable by time-domain baseband filtering. Taking into account the properties of this particular application, we propose to use a complex FIR eigenfilter method for designing approximately allpass filters with desired phase response.
A 0.13-<formula formulatype="inline"><tex Notation="TeX">$\mu{\rm m}$</tex></formula> CMOS Low-Power Capacitor-Less LDO Regulator Using Bulk-Modulation Technique (2014)

In this paper, a bulk-modulation technique is introduced for improving the performance of low-drop-out (LDO) voltage regulators. Compared to conventional LDO voltage regulators, the proposed circuit achieves improved accuracy, stability, and output load current capability. The technique is particularly suited for low-power applications such as biomedical implants and portable devices. A proof-of-concept prototype is designed and fabricated in 0.13-μm CMOS, to illustrate the enhancement that can be achieved by applying this technique. The proposed enhanced LDO regulator which is based on conventional LDO regulators is able to delivers up to 5 mA of load current while providing a 1 V (~ 1.5% load regulation) drawing 99.0 μA from a 1.2 V supply. Measurement results confirm that as compared to conventional LDOs, the proposed circuit offers better stability as well as %75 improvement in the load current delivery and ~10× faster recovery time for no-load to and from full-load transitions.
Prion protein attenuates excitotoxicity by inhibiting NMDA receptors (2008)

It is well established that misfolded forms of cellular prion protein (PrP [PrPC]) are crucial in the genesis and progression of transmissible spongiform encephalitis, whereas the function of native PrPC remains incompletely understood. To determine the physiological role of PrPC, we examine the neurophysiological properties of hippocampal neurons isolated from PrP-null mice. We show that PrP-null mouse neurons exhibit enhanced and drastically prolonged N-methyl-D-aspartate (NMDA)-evoked currents as a result of a functional upregulation of NMDA receptors (NMDARs) containing NR2D subunits. These effects are phenocopied by RNA interference and are rescued upon the overexpression of exogenous PrPC. The enhanced NMDAR activity results in an increase in neuronal excitability as well as enhanced glutamate excitotoxicity both in vitro and in vivo. Thus, native PrPC mediates an important neuroprotective role by virtue of its ability to inhibit NR2D subunits.
Labeling and Glycosylation of Peptides Using Click Chemistry: A General Approach to 18F‐Glycopeptides as Effective Imaging Probes for Positron Emission Tomography (2009)

Click for PET: An efficient strategy based on click chemistry has been developed for 18F-labeling alkyne-bearing peptides with concomitant glycosylation. The mild conditions and general applicability of this reliable reaction gives access to a new class of 18F-glycopeptide radiopharmaceuticals with improved biological properties for in vivo imaging studies by positron emission tomography (PET). Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Interactive Assignments for Teaching Structured Neural NLP (2021)

We present a set of assignments for a graduatelevel NLP course. Assignments are designed to be interactive, easily gradable, and to give students hands-on experience with several key types of structure (sequences, tags, parse trees, and logical forms), modern neural architectures (LSTMs and Transformers), inference algorithms (dynamic programs and approximate search) and training methods (full and weak supervision). We designed assignments to build incrementally both within each assignment and across assignments, with the goal of enabling students to undertake graduate-level research in NLP by the end of the course.