gebhart/patrepeval huggingface dataset:
3-Mercapto-1-propanesulfonic acid and Bis(3-sulfopropyl) Disulfide Adsorbed on Au(111): In Situ Scanning Tunneling Microscopy and Electrochemical Studies (2008)

3-Mercapto-1-propanesulfonic acid (MPS) and bis(3-sulfopropyl) disulfide (SPS) adsorbed on a Au(111) electrode were studied by using in situ scanning tunneling microscopy (STM). Although the adsorptions of MPS and SPS are known to be oxidative and reductive, respectively, on an Au(111) electrode, these two admolecules behave similarly in terms of phase evolution, surface coverage, potential for stripping, and characteristics of cyclic voltammetry. However, different adsorption mechanisms of these molecules result in different structures. Raising electrode potential causes more MPS and SPS molecules to adsorb, yielding ordered adlattices between 0.67 and 0.8 V (vs reversible hydrogen electrode). The ordered adlattices of MPS and SPS appear as striped and netlike structures with molecules adsorbed parallel to the Au(111) surface. Switching potential to 0.9 V or more positive still does not result in upright molecular orientation, possibly inhibited by electrostatic interaction between the end group of -SO(3)(-) and the Au(111) electrode. Lowering the potential to 0.4 V disrupted the ordered adlayer. Stripping voltammetric experiments show that MPS and SPS admolecules are desorbed from Au(111) at the same potential, suggesting that these molecules are both adsorbed via their sulfur headgroups. The S-S bond in SPS is likely broken upon its adsorption on Au(111).
Fabric movement and washing performance in a front-loading washer with a built-in pulsator (2019)

The objective of this study was to investigate the change of fabric movement by introducing a pulsator in a front-loading washer. To examine the effect of the changed fabric movements on washing performance, detergency, mechanical action, wrinkling, tangling, and tensile strength were also investigated. Three-dimensional fabric movement was analyzed by representing the fabric center in the washer as XYZ coordinate values. Seven indexes of fabric movement were used to analyze the correlation between fabric movement and detergency. On comparing fabric movements using the indexes, the front-loading washer with a built-in pulsator showed more diverse fabric movements than the conventional washer and, in particular, movement in the depth direction of the drum occurred more frequently in the newly developed system. This led to 7.6% higher detergency compared to the conventional one, possibly due to the increased interaction between fabrics. Regression analysis verified that the diversified fabric movements induced by the pulsator in the front-loading washer resulted in the improvement of detergency. The different fabric movements in the newly developed system also affected fabric damage, tangling and wrinkling.
The eDRAM based L3-Cache of the BlueGene/L Supercomputer Processor Node (2004)

BlueGene/L is a supercomputer consisting of 64K dual-processor system-on-a-chip compute nodes, capable of delivering an arithmetic peak performance of 5.6Gflops per node. To match the memory speed to the high compute performance, the system implements an aggressive three-level on-chip cache hierarchy for each node. The implemented hierarchy offers high bandwidth and integrated prefetching on cache hierarchy levels 2 and 3 to reduce memory access time. The integrated L3-cache stores a total of 4MB of data, using multibank embedded DRAM. The 1024 bit wide data port of the embedded DRAM provides 22.4GB/s bandwidth to serve the speculative prefetching demands of the two processor cores and the Gigabit Ethernet DMA engine.
The Eph Tyrosine Kinase Receptors EphB2 and EphA2 Are Novel Proteolytic Substrates of Tissue Factor/Coagulation Factor VIIa (2014)

Tissue factor (TF) binds the serine protease factor VIIa (FVIIa) to form a proteolytically active complex that can trigger coagulation or activate cell signaling. Here we addressed the involvement of tyrosine kinase receptors (RTKs) in TF/FVIIa signaling by antibody array analysis and subsequently found that EphB2 and EphA2 of the Eph RTK family were cleaved in their ectodomains by TF/FVIIa. We used N-terminal Edman sequencing and LC-MS/MS analysis to characterize the cleaved Eph isoforms and identified a key arginine residue at the cleavage site, in agreement with the tryptic serine protease activity of FVIIa. Protease-activated receptor 2 (PAR2) signaling and downstream coagulation activity was non-essential in this context, in further support of a direct cleavage by TF/FVIIa. EphB2 was cleaved by FVIIa concentrations in the subnanomolar range in a number of TF expressing cell types, indicating that the active cellular pool of TF was involved. FVIIa caused potentiation of cell repulsion by the EphB2 ligand ephrin-B1, demonstrating a novel proteolytical event to control Eph-mediated cell segregation. These results define Eph RTKs as novel proteolytical targets of TF/FVIIa and provide new insights into how TF/FVIIa regulates cellular functions independently of PAR2.
Convolutional codes with optimum distance spectrum (1999)

New convolutional codes with rates 1/2, 1/3, and 1/4 are presented for constraint lengths ranging from 3 to 15. These new codes are maximum free-distance codes. Furthermore, the codes have optimized information error weights, resulting in a low bit-error rate for binary communication on both additive white Gaussian noise (AWGN) and Rayleigh fading channels. Improved coding gains of as much as 0.6 dB compared to previously published codes have been observed for coherent BPSK over a Rayleigh fading channel and a wide range of signal-to-noise ratios.
BLOCON (2011)

On-chip photonic waveguides have been proposed as a feasible replacement for the long interconnects that cause speed and power bottlenecks. Along with recent advancements in nanophotonic technologies, we believe that combining on-chip waveguides with high-radix Network on Chip (NoC) topologies is a promising way to improve NoC performance. In this paper, we propose the BLOCON (BufferLess phOtonic ClOs Network) to exploit silicon photonics. We propose a scheduling algorithm named Sustained and Informed Dual Round-Robin Matching (SIDRRM) to solve the output contention problem, and a path allocation scheme named Distributed and Informed Path Allocation (DIPA) to solve the Clos network routing problem. In the simulation results, we show that with SIDRRM and DIPA, BLOCON improves the delay and power performance of the compared electrical and photonic NoC architectures over synthetic traffic patterns and SPLASH-2 traces.
Generation mechanism of terahertz coherent acoustic phonons in Fe (2016)

We use femtosecond time-resolved hard x-ray scattering to detect coherent acoustic phonons generated during ultrafast laser excitation of ferromagnetic bcc Fe films grown on MgO(001). We observe the coherent longitudinal-acoustic phonons as a function of wave vector through analysis of the temporal oscillations in the x-ray scattering signal. The width of the extracted strain wave front associated with this coherent motion is $\ensuremath{\sim}100$ fs. An effective electronic Gr\"uneisen parameter is extracted within a two-temperature model. However, ab initio calculations show that the phonons are nonthermal on the time scale of the experiment, which calls into question the validity of extracting physical constants by fitting such a two-temperature model.
Energy resolution limiting factors of multi-pixel events in 3D position sensitive CZT gamma-ray spectrometer (2008)

The energy resolution limiting factors of a prototype 3D position-sensitive CZT gamma-ray spectrometer are investigated with both single and multi-pixel events from 662 keV gamma rays. The spectrometer was developed using a 10x10x10 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sup> CZT detector with 8×8 pixellated anode and a RENA-3 readout system from NOVA R&D. The RENA-3 system has energy and timing readout channels for the cathode and each individual pixel that enable the reconstruction of the energy depositions and interaction locations for both single and multi-interaction events in the detector by either C/A ratio or electron drift time. So 3D correction of detector response non-uniformity can be applied to all interaction events to optimize the overall energy resolution of the detector. For single interaction events in the detector, the energy resolution at 662 keV after 3D correction is ∼1% FWHM, which is mainly limited by the electronic noise of the readout system. For multi-pixel events from either multi-interaction or charge sharing in the detector, weighting potential crosstalk among multiple collecting pixels and electronic crosstalk between different ASIC channels turn out to have a big impact on energy resolution. Investigation shows that the weighting potential and electronic crosstalk could account for ≫2% FWHM energy resolution degradation at 662 keV for adjacent-pixel events. These effects are verified with 3D weighting potential modeling and electronic crosstalk measurement using test pulses. It is also demonstrated that the energy resolution of adjacent-pixel events can be improved to 1.8∼1.9% FWHM at 662 keV with proper calibration and correction.
Compositional study of a coal surface using a laser microprobe mass detector (1982)

Laser-induced mass spectrometry offers unique opportunities for studying mass spectra of a nonvolatile sample. 1 Molecular and structural information can be obtained from the mass spectra of molecules in the range of 1000 amu. 2 Since the coherent beam of the laser can be focused down to very small areas (a few micrometers), opportunities for microprobe analysis also exist. 3
Title: Aggregate modeling and control of demand response speaker: David chassin (2012)

Load behavior and load control are playing an increasingly important role in the evolution of the bulk power system. On the one hand loads exhibit sometime adverse responses that can detrimentally affect power systems. However, those same responses can also be used to mitigate the behavior of intermittent generation and provide other ?smart? services. This talk will focus on the importance of load modeling in power system studies, and provide some examples of advanced load control modeling and theory used in the deployment of demand response in smart grid applications.
Compiling Stan to generative probabilistic languages and extension to deep probabilistic programming (2021)

Stan is a probabilistic programming language that is popular in the statistics community, with a high-level syntax for expressing probabilistic models. Stan differs by nature from generative probabilistic programming languages like Church, Anglican, or Pyro. This paper presents a comprehensive compilation scheme to compile any Stan model to a generative language and proves its correctness. We use our compilation scheme to build two new backends for the Stanc3 compiler targeting Pyro and NumPyro. Experimental results show that the NumPyro backend yields a 2.3x speedup compared to Stan in geometric mean over 26 benchmarks. Building on Pyro we extend Stan with support for explicit variational inference guides and deep probabilistic models. That way, users familiar with Stan get access to new features without having to learn a fundamentally new language.
A genomic and evolutionary approach reveals non-genetic drug resistance in malaria (2014)

Drug resistance remains a major public health challenge for malaria treatment and eradication. Individual loci associated with drug resistance to many antimalarials have been identified, but their epistasis with other resistance mechanisms has not yet been elucidated. We previously described two mutations in the cytoplasmic prolyl-tRNA synthetase (cPRS) gene that confer resistance to halofuginone. We describe here the evolutionary trajectory of halofuginone resistance of two independent drug resistance selections in Plasmodium falciparum. Using this novel methodology, we discover an unexpected non-genetic drug resistance mechanism that P. falciparum utilizes before genetic modification of the cPRS. P. falciparum first upregulates its proline amino acid homeostasis in response to halofuginone pressure. We show that this non-genetic adaptation to halofuginone is not likely mediated by differential RNA expression and precedes mutation or amplification of the cPRS gene. By tracking the evolution of the two drug resistance selections with whole genome sequencing, we further demonstrate that the cPRS locus accounts for the majority of genetic adaptation to halofuginone in P. falciparum. We further validate that copy-number variations at the cPRS locus also contribute to halofuginone resistance. We provide a three-step model for multi-locus evolution of halofuginone drug resistance in P. falciparum. Informed by genomic approaches, our results provide the first comprehensive view of the evolutionary trajectory malaria parasites take to achieve drug resistance. Our understanding of the multiple genetic and non-genetic mechanisms of drug resistance informs how we will design and pair future anti-malarials for clinical use.
Restoration Signaling Protocol Design for Next-Generation Optical Network1 (2009)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text A. Chiu, R. Doverspike, G. Li, and J. Strand, "Restoration Signaling Protocol Design for Next-Generation Optical Network1," in Optical Fiber Communication Conference and National Fiber Optic Engineers Conference, OSA Technical Digest (CD) (Optica Publishing Group, 2009), paper NTuC2. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Dielectric resonator antenna with dual linear polarisation and orthogonal excitation (2005)

This paper presents a novel structure with dual polarisation and orthogonal feeding. The radiating element is a dielectric resonator antenna (DRA). It constitutes a very compact source suitable for active arrays. The simulated results are presented at 4.5 GHz. At that step, a large bandwidth, a low cross-polarisation and a high isolation between polarisations are demonstrated.
Interpolation-Based Parameterized Model Order Reduction of Delayed Systems (2012)

Three-dimensional electromagnetic methods are fundamental tools for the analysis and design of high-speed systems. These methods often generate large systems of equations, and model order reduction (MOR) methods are used to reduce such a high complexity. When the geometric dimensions become electrically large or signal waveform rise times decrease, time delays must be included in the modeling. Design space optimization and exploration are usually performed during a typical design process that consequently requires repeated simulations for different design parameter values. Efficient performing of these design activities calls for parameterized model order reduction (PMOR) methods, which are able to reduce large systems of equations with respect to frequency and other design parameters of the circuit, such as layout or substrate features. We propose a novel PMOR method for neutral delayed differential systems, which is based on an efficient and reliable combination of univariate model order reduction methods, a procedure to find scaling and frequency shifting coefficients and positive interpolation schemes. The proposed scaling and frequency shifting coefficients enhance and improve the modeling capability of standard positive interpolation schemes and allow accurate modeling of highly dynamic systems with a limited amount of initial univariate models in the design space. The proposed method is able to provide parameterized reduced order models passive by construction over the design space of interest. Pertinent numerical examples validate the proposed PMOR approach.
Data from Reverse Transcriptase Inhibition Disrupts Repeat Element Life Cycle in Colorectal Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;Altered RNA expression of repetitive sequences and retrotransposition are frequently seen in colorectal cancer, implicating a functional importance of repeat activity in cancer progression. We show the nucleoside reverse transcriptase inhibitor 3TC targets activities of these repeat elements in colorectal cancer preclinical models with a preferential effect in p53-mutant cell lines linked with direct binding of p53 to repeat elements. We translate these findings to a human phase II trial of single-agent 3TC treatment in metastatic colorectal cancer with demonstration of clinical benefit in 9 of 32 patients. Analysis of 3TC effects on colorectal cancer tumorspheres demonstrates accumulation of immunogenic RNA:DNA hybrids linked with induction of interferon response genes and DNA damage response. Epigenetic and DNA-damaging agents induce repeat RNAs and have enhanced cytotoxicity with 3TC. These findings identify a vulnerability in colorectal cancer by targeting the viral mimicry of repeat elements.&lt;/p&gt;Significance:&lt;p&gt;Colorectal cancers express abundant repeat elements that have a viral-like life cycle that can be therapeutically targeted with nucleoside reverse transcriptase inhibitors (NRTI) commonly used for viral diseases. NRTIs induce DNA damage and interferon response that provide a new anticancer therapeutic strategy.&lt;/p&gt;&lt;p&gt;&lt;i&gt;This article is highlighted in the In This Issue feature, p. 1397&lt;/i&gt;&lt;/p&gt;&lt;/div&gt;
The Connectivity Map Links Iron Regulatory Protein-1–Mediated Inhibition of Hypoxia-Inducible Factor-2a Translation to the Anti-inflammatory 15-deoxy-Δ12,14-Prostaglandin J2 (2010)

Hypoxia-inducible factors 1 and 2 (HIF1 and HIF2) are heterodimeric transcription factors consisting of alpha regulatory subunits and a constitutively expressed beta subunit. The expression of alpha regulatory subunits is promoted by hypoxia, cancer-associated mutations, and inflammatory cytokines. Thus, HIF1 and HIF2 provide a molecular link between cancer and inflammation. We have recently identified novel small molecules that selectively inhibit translation of the HIF2a message and thereby powerfully inhibit the expression of HIF2a target genes. We report here that Connectivity Map analysis links three of these compounds to the anti-inflammatory cytokine 15-deoxy-Delta(12,14)-prostaglandin J(2) (PGJ(2)). As with our identified compounds, PGJ(2) inhibits translation of the HIF2a message in a mammalian target of rapamycin-independent manner by promoting the binding of iron regulatory protein-1 (IRP1) to a noncanonical iron responsive element (IRE) embedded within the 5'-untranslated region of the HIF2a message. The IRE is necessary and sufficient for mediating the effect. Mutation of the IRE sequence, or downregulation of IRP1 expression, blocks the effect of PGJ(2) on HIF2a translation. This is the first report of an endogenous natural molecule regulating HIF2a translation, and it suggests that part of the anti-inflammatory and putative antineoplastic effects of PGJ(2) may be mediated through inhibition of HIF2a within tumor epithelial cells themselves and/or mesenchymal cells of the tumor microenvironment.
Dendrimer-RNA nanoparticles generate protective immunity against lethal Ebola, H1N1 influenza, and (2016)

Vaccines have had broad medical impact, but existing vaccine technologies and production methods are limited in their ability to respond rapidly to evolving and emerging pathogens, or sudden outbreaks. Here, we develop a rapid-response, fully synthetic, singledose, adjuvant-free dendrimer nanoparticle vaccine platform wherein antigens are encoded by encapsulated mRNA replicons. To our knowledge, this system is the first capable of generating protective immunity against a broad spectrum of lethal pathogen challenges, including H1N1 influenza, Toxoplasma gondii, and Ebola virus. The vaccine can be formed with multiple antigenexpressing replicons, and is capable of eliciting both CD8⁺ T-cell and antibody responses. The ability to generate viable, contaminant-free vaccines within days, to single or multiple antigens, may have broad utility for a range of diseases.
Continued Development of the Gulf of Mexico Coastal Ocean Observing System (2011)

Abstract : The overarching goal of this project is to build a robust, user-driven, sustained, operational Gulf of Mexico Coastal Ocean Observing System (GCOOS). The specific goals of this project are to maintain the existing GCOOS capabilities and, as funding allows, to augment the existing observations to fill gaps and provide enhanced products and services. GCOOS capabilities include components to integrate data sets from diverse providers; assure consistency, quality, and accuracy of the data; create new products needed by users; and provide in a timely and efficient manner the data, products, and services needed by decision-makers, diverse stakeholders, and the public. Physical, meteorological, biogeochemical, and bathymetrical data are major components of the data system.
Cerebrospinal fluid concentrations of α‐melanocyte‐stimulating hormone in bacterial and aseptic meningitis (2000)

CSF alpha-MSH is elevated in children with severe bacterial meningitis who had neurological sequelae.
Stomach 3D Reconstruction Based on Virtual Chromoendoscopic Image Generation (2020)

Gastric endoscopy is a standard clinical process that enables medical practitioners to diagnose various lesions inside a patient's stomach. If any lesion is found, it is very important to perceive the location of the lesion relative to the global view of the stomach. Our previous research showed that this could be addressed by reconstructing the whole stomach shape from chromoendoscopic images using a structure-from-motion (SfM) pipeline, in which indigo carmine (IC) blue dye-sprayed images were used to increase feature matches for SfM by enhancing stomach surface's textures. However, spraying the IC dye to the whole stomach requires additional time, labor, and cost, which is not desirable for patients and practitioners. In this paper, we propose an alternative way to achieve whole stomach 3D reconstruction without the need of the IC dye by generating virtual IC-sprayed (VIC) images based on image-to-image style translation trained on unpaired real no-IC and IC-sprayed images. We have specifically investigated the effect of input and output color channel selection for generating the VIC images and found that translating no-IC green-channel images to IC-sprayed red-channel images gives the best SfM reconstruction result.
UCSD-Adobe at MEDIQA 2021: Transfer Learning and Answer Sentence Selection for Medical Summarization (2021)

In this paper, we describe our approach to question summarization and multi-answer summarization in the context of the 2021 MEDIQA shared task We propose two kinds of transfer learning for the abstractive summarization of medical questions. First, we train on Health-CareMagic, a large question summarization dataset collected from an online healthcare service platform. Second, we leverage the ability of the BART encoder-decoder architecture to model both generation and classification tasks to train on the task of Recognizing Question Entailment (RQE) in the medical domain. We show that both transfer learning methods combined achieve the highest ROUGE scores. Finally, we cast the question-driven extractive summarization of multiple relevant answer documents as an Answer Sentence Selection (AS2) problem. We show how we can preprocess the MEDIQA-AnS dataset such that it can be trained in an AS2 setting. Our AS2 model is able to generate extractive summaries achieving high ROUGE scores.