gebhart/patrepeval huggingface dataset:
Subpacketization-rate trade-off in multi-antenna coded caching (2019)

Coded caching can be applied in wireless multi- antenna communications by multicast beamforming coded data chunks to carefully selected user groups and using the existing file fragments in user caches to decode the desired files at each user. However, the number of packets a file should be split into, known as subpacketization, grows exponentially with the network size. We provide a new scheme, which enables the level of subpacketization to be selected freely among a set of predefined values depending on basic network parameters such as antenna and user count. A simple efficiency index is also proposed as a performance indicator at various subpacketization levels. The numerical examples demonstrate that larger subpacketization generally results in better efficiency index and higher symmetric rate, while smaller subpacketization incurs significant loss in the achievable rate. This enables more efficient caching schemes, tailored to the available computational and power resources.
The Role of Histo-Blood Group Antigens and Microbiota in Human Norovirus Replication in Zebrafish Larvae (2022)

Human norovirus (HuNoV) is the major agent for viral gastroenteritis, causing >700 million infections yearly. Fucose-containing carbohydrates named histo-blood group antigens (HBGAs) are known (co)receptors for HuNoV. Moreover, bacteria of the gut microbiota expressing HBGA-like structures have shown an enhancing effect on HuNoV replication in an <i>in vitro</i> model. Here, we studied the role of HBGAs and the host microbiota during HuNoV infection in zebrafish larvae. Using whole-mount immunohistochemistry, we visualized the fucose expression in the zebrafish gut for the HBGA Lewis X [Le<sup>X</sup>, α(1,3)-fucose] and core fucose [α(1,6)-fucose]. Costaining of HuNoV-infected larvae proved colocalization of Le<sup>X</sup> and to a lower extent core fucose with the viral capsid protein VP1, indicating the presence of fucose residues on infected cells. Upon blocking of fucose expression by a fluorinated fucose analogue, HuNoV replication was strongly reduced. Furthermore, by comparing HuNoV replication in conventional and germfree zebrafish larvae, we found that the natural zebrafish microbiome does not have an effect on HuNoV replication, contrary to earlier reports about the human gut microbiome. Interestingly, monoassociation with the HBGA-expressing Enterobacter cloacae resulted in a minor decrease in HuNoV replication, which was not triggered by a stronger innate immune response. Overall, we show here that fucose has an essential role for HuNoV infection in zebrafish larvae, as in the human host, but their natural gut microbiome does not affect viral replication. <b>IMPORTANCE</b> Despite causing over 700 million infections yearly, many gaps remain in the knowledge of human norovirus (HuNoV) biology due to an historical lack of efficient cultivation systems. Fucose-containing carbohydrate structures, named histo-blood group antigens, are known to be important (co)receptors for viral entry in humans, while the natural gut microbiota is suggested to enhance viral replication. This study shows a conserved mechanism of entry for HuNoV in the novel zebrafish infection model, highlighting the pivotal opportunity this model represents to study entry mechanisms and identify the cellular receptor of HuNoV. Our results shed light on the interaction of HuNoV with the zebrafish microbiota, contributing to the understanding of the interplay between gut microbiota and enteric viruses. The ease of generating germfree animals that can be colonized with human gut bacteria is an additional advantage of using zebrafish larvae in virology. This small animal model constitutes an innovative alternative to high-severity animal models.
pH-Sensitive Polymeric Micelles for Enhanced Intracellular Anti-cancer Drug Delivery (2013)

Polyion complex (PIC) micelles are expected to be used as nanocarrier for drug delivery. The PIC micelles formed by cationic anti-cancer drug, doxorubicin (DOX) and poly(ethylene glycol)-block-poly(4-vinylbenzylphosphonate) (PEG-b-PVBP) (DOX@PNP) was prepared with different pH conditions and composition ratio of the mixture. DOX and PEG-b-PVBP were spontaneously self-assembled in aqueous solutions into nanoparticles with average size of 45-55 nm over the entire range of the compositions of the mixtures including stoichiometric electroneutral complexes. The DOX@PNP described here would be promising nanocarrier for anti-cancer drug delivery.
Hemodynamic characteristics associated with cerebral aneurysm formation in patients with carotid occlusion (2018)

Flow velocity and WSS are significantly higher across the ACoA in patients who harbor an aneurysm, and de novo or growing aneurysms are often located on collateral vessels. Thus, robust primary collaterals after ICA occlusion may be a contributing factor in cerebral aneurysm formation.
Super resolution for microwave imaging: A deep learning approach (2017)

We propose a method to significantly improve the spatial resolution for microwave imaging. Conventional inverse methods for microwave imaging produce images at varying levels of resolution but none of them are at the resolution sufficiently fine to be useful for a complex real-world problem, mainly because of limited availability of independent measurements. We ease the problem by providing additional information through learning. We incorporate learning using a convolutional neural network in the second stage of our proposed two-staged approach, where the first stage is a non-linear inversion approach. Our method can be used with any conventional method and can boost the resolution in all dimensions. The applicability of our method is demonstrated for a 2D microwave imaging problem for an upscale factor of 3. The results show that the proposed method can produce a better detailed higher resolution image.
Oxidant-responsive ferrocene-based cyclodextrin complex coacervate core micelles (2019)

Coacervate-core micelles are considered promising materials for several applications, from catalysis to drug delivery. However, oxidant-responsive coacervate-core micelles, able to undergo structural changes upon specific oxidation stimuli, are not well reported. Here, we present a novel ferrocene–dipicolinic acid derivative as redox-responsive subcomponent to be incorporated in cyclodextrin-based coacervate core micelles, C4Ms, with tuneable core structure and responsiveness towards H2O2 treatment. The Fc-C4Ms are formed combining three orthogonal supramolecular interactions, namely (i) metal-to-ligand coordination between europium(III) ions and dipicolinic acid molecules, (ii) host-guest interaction between beta cyclodextrins and ferrocenes and (iii) electrostatic coacervation interaction. The micelle stability against oxidation can be controlled by varying three main parameters: (a) the core-unit structure, from monomeric metal complexes to supramolecular oligomers, (b) the H2O2 equivalents and c) the ratio between redox-responsive and non-redox-responsive bislinker. The H2O2-responsive ferrocene-based systems might have an interesting application, e.g. reactive oxygen species-mediated drug delivery.
Towards a design optimization method for reducing the mechanical complexity of underactuated robotic hands (2012)

Underactuated compliant robotic hands exploit passive mechanics and joint coupling to reduce the number of actuators required to achieve grasp robustness in unstructured environments. Reduced actuation requirements generally serve to decrease design cost and improve grasp planning efficiency, but overzealous simplification of an actuation topology, coupled with insufficient tuning of mechanical compliance and hand kinematics, can adversely affect grasp quality and adaptability. This paper presents a computational framework for reducing the mechanical complexity of robotic hand actuation topologies without significantly decreasing grasp robustness. Open-source grasp planning software and well-established grasp quality metrics are used to simulate a fully-actuated, 24 DOF anthropomorphic robotic hand grasping a set of daily living objects. DOFs are systematically demoted or removed from the hand actuation topology according to their contribution to grasp quality. The resulting actuation topology contained 22% fewer DOFs, 51% less aggregate joint motion, and required 82% less grasp planning time than the fully-actuated design, but decreased average grasp quality by only 11%.
Introduction (2015)

Abstract The introduction to Artificial Chemistries discusses its root in Artificial Life research before explaining with a simple example from the mathematical area of Arithmetic what we can imagine under an artificial chemistry. It explains how some fundamental questions of Artificial Life are connected to questions of Artificial Chemistry and shows a few of the general features we’d expect to be exhibited by an AC.
OpenCL Application Auto-tuning and Run-Time Resource Management for Multi-core Platforms (2014)

To support adaptivity of data parallel applications on multi-core platforms, we propose a framework based on the combination of OpenCL application auto-tuning and run-time resource management. The framework addresses computationally intensive multimedia OpenCL applications. For these target applications, we show that application auto-tuning, based on design-time analysis, can become synergistic with run-time resource management. In the proposed framework, run-time decisions are taken by each application, autonomously, to achieve system adaptivity. This paper describes the methodology and related toolchain, defined during the 2PARMA European project, based on the integration of independent tools to provide effective compilation of OpenCL code, multi-objective design space exploration, application monitoring and tuning and system-wide run-time resource management. Experimental results are reported for design optimization of an OpenCL stereo-matching application and then for a resource contention scenario where multiple stereo-matching applications are executed on the same platform with different run-time requirements.
Changepoint detection in non-exchangeable data (2021)

Changepoint models typically assume the data within each segment are independent and identically distributed conditional on some parameters which change across segments. This construction may be inadequate when data are subject to local correlation patterns, often resulting in many more changepoints fitted than preferable. This article proposes a Bayesian changepoint model which relaxes the assumption of exchangeability within segments. The proposed model supposes data within a segment are $m$-dependent for some unkown $m \geqslant0$ which may vary between segments, resulting in a model suitable for detecting clear discontinuities in data which are subject to different local temporal correlations. The approach is suited to both continuous and discrete data. A novel reversible jump MCMC algorithm is proposed to sample from the model; in particular, a detailed analysis of the parameter space is exploited to build proposals for the orders of dependence. Two applications demonstrate the benefits of the proposed model: computer network monitoring via change detection in count data, and segmentation of financial time series.
Morphological and Functional Characterization and Assessment of iPSC-Derived Hepatocytes for<i>In Vitro</i>Toxicity Testing (2015)

Drug-induced liver injury (DILI) remains a great challenge and a major concern during late-stage drug development. Induced pluripotent stem cells (iPSC) represent an exciting alternative in vitro model system to explore the role of genetic diversity in DILI, especially when derived from patients who have experienced drug-induced hepatotoxicity. The development and validation of the iPSC-derived hepatocytes as an in vitro cell-based model of DILI is an essential first step in creating more predictive tools for understanding patient-specific hepatotoxic responses to drug treatment. In this study, we performed extensive morphological and functional analyses on iPSC-derived hepatocytes from a commercial source. iPSC-derived hepatocytes exhibit many of the key morphological and functional features of primary hepatocytes, including membrane polarity and production of glycogen, lipids, and key hepatic proteins, such as albumin, asialoglycoprotein receptor and α1-antitrypsin. They maintain functional activity for many drug-metabolizing enzyme pathways and possess active efflux capacity of marker substrates into bile canalicular compartments. Whole genome-wide array analysis of multiple batches of iPSC-derived cells showed that their transcriptional profiles are more similar to those from neonatal and adult hepatocytes than those from fetal liver. Results from experiments using prototype DILI compounds, such as acetaminophen and trovafloxacin, indicate that these cells are able to reproduce key characteristic metabolic and adaptive responses attributed to the drug-induced hepatotoxic effects in vivo. Overall, this novel system represents a promising new tool for understanding the underlying mechanisms of idiosyncratic DILI and for screening new compounds for DILI-related liabilities.
The design and development of an atmospheric and vacuum rotating wafer scanner (1991)

A rotating wafer scanner was designed and developed in order to determine its operational feasibility and advantages over a linear wafer scanner. The scanner was first designed to operate at atmosphere. Each of its constituent parts were independently tested and when the final system was evaluated a 0.2 mum detection limit was observed. The latter result prompted the design and development of a vacuum rotating wafer scanner. The data obtained during the design and evaluation of the constituent parts of the latter system showed that particle detection in a vacuum is feasible.
Erratum: “Polymer dynamics under cylindrical confinement featuring a locally repulsive surface: A quasielastic neutron scattering study” [J. Chem. Phys. 146, 203306 (2017)] (2017)

First Page
Performance Analysis of Multimedia Traffic over HSDPA (2008)

Contents
2.1 Introduction 48
2.2 Scenario and Model Description 502.2.1 Multicell Propagation Model 51
2.2.2 System and User Characteristics 532.3 Scheduling 54
2.3.1 Round-Robin Scheduler 55
2.3.2 Max C/I Scheduler 55
2.3.3 Proportional Fair Scheduler 56
2.3.4 Time-To-Live Scheduler 572.4 Analysis of the Default Scenario 57
2.4.1 Validation of Cell Selection 57
2.4.2 Mixed Traffic Scenario 592.5 Mobility: Optimization of Handover Parameters 62
2.5.1 Handover Threshold 622.6 Performance of Different Scheduler Algorithms 682.6.1 Specific Scheduler Properties 68
2.6.2 Priority Scheduling 75
2.6.3 Comparison of Scheduling Algorithms 78
2.6.4 Consumption of System Resources 802.7 Conclusion 82
2.8 Open Issues 84
Acknowledgments 85
References 852.1 Introduction
The rapid advances in wireless technologies have brought about a worldwide demand for high quality multimedia applications and services. These
will particularly appear in the Internet, as well as in wireless scenarios [1,2].
Real-time services over high speed downlink packet access (HSDPA) is an
issue under discussion in 3rd Generation Partnership Project (3GPP) [3,4]. A
key improvement of Universal Mobile Telecommunications System (UMTS)
has been realized with HSDPA, which has been defined for release 5 of the
UMTS standard within 3GPP. HSDPA aims at increasing the systems capacity and the users’ peak throughput from 2 to over 10 Mbps. Its transmission
time feedback loop is smaller than that of regular UMTS and the scheduling functionality is no longer in the radio network controller (RNC) but in
the Node-B (base station). As a result, the fluctuations in the radio channel
fading characteristics can be better tracked. Scheduling of data flows is a
key mechanism to provide quality of service (QoS) and optimize resource
efficiency. Whereas the former objective is clearly the most important to
the user, the latter is essential for the operator.
ChemInform Abstract: MMPP (Magnesium Monoperoxyphthalate) in Acetonitrile: A New Approach to the Synthesis of Lactones via Baeyer‐Villiger Oxidation of Cyclic Ketones. (1997)

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.
Peptides for Infectious Diseases: From Probe Design to Diagnostic Microarrays (2019)

Peptides and peptidomimetics have attracted revived interest regarding their applications in chemical biology over the last few years. Their chemical versatility, synthetic accessibility and the ease of storage and management compared to full proteins have made peptides particularly interesting in diagnostic applications, where they proved to efficiently recapitulate the molecular recognition properties of larger protein antigens, and were proven to be able to capture antibodies circulating in the plasma and serum of patients previously exposed to bacterial or viral infections. Here, we describe the development, integration and application of strategies for computational prediction and design, advanced chemical synthesis, and diagnostic deployment in multiplexed assays of peptide-based materials which are able to bind antibodies of diagnostic as well as therapeutic interest. By presenting successful applications of such an integrated strategy, we argue that they will have an ever-increasing role in both basic and clinical realms of research, where important advances can be expected in the next few years.
Non-nucleoside Inhibitors of Zika Virus RNA-Dependent RNA Polymerase (2020)

Zika virus (ZIKV) remains a potentially significant public health concern because it can cause teratogenic effects, such as microcephaly in newborns and neurological disease, like Guillain-Barré syndrome. Together with efforts to develop a vaccine, the discovery of antiviral molecules is important to control ZIKV infections and to prevent its most severe symptoms. Here, we report the development of small nonnucleoside inhibitors (NNIs) of ZIKV RNA-dependent RNA polymerase (RdRp) activity. These NNIs target an allosteric pocket (N pocket) located next to a putative hinge region between the thumb and the palm subdomains that was originally described for dengue virus (DENV) RdRp. We first tested the activity of DENV RdRp N-pocket inhibitors against ZIKV RdRp, introduced chemical modifications into these molecules, and assessed their potency using both enzymatic and cell-based assays. The most potent compound had a 50% inhibitory concentration value of 7.3 μM and inhibited ZIKV replication in a cell-based assay with a 50% effective concentration value of 24.3 μM. Importantly, we report four high-resolution crystal structures detailing how these NNIs insert into the N pocket of ZIKV RdRp. Our observations point to subtle differences in the size, shape, chemical environment, and hydration of the N pocket from ZIKV RdRp from those of the N pocket from DENV RdRp that are crucial for the design of improved antiviral inhibitors with activity against ZIKV.<b>IMPORTANCE</b> Zika virus belongs to the <i>Flavivirus</i> genus, which comprises several important human pathogens. There is currently neither an approved vaccine nor antiviral drugs available to prevent infection by ZIKV. The nonstructural protein 5 (NS5) polymerase, which is responsible for replicating the viral RNA genome, represents one of the most promising targets for antiviral drug development. Starting from compounds recently developed against dengue virus NS5, we designed and synthesized inhibitors targeting Zika virus NS5. We show that these novel compounds inhibit viral replication by targeting the polymerase activity. High-resolution X-ray crystallographic structures of protein-inhibitor complexes demonstrated specific binding to an allosteric site within the polymerase, called the N pocket. This work paves the way for the future structure-based design of potent compounds specifically targeting ZIKV RNA polymerase activity.
Impairment of Plasmodium falciparum Growth in Thalassemic Red Blood Cells: Further Evidence by Using Biotin Labeling and Flow Cytometry (1999)

Certain red blood cell (RBC) disorders, including thalassemia, have been associated with an innate protection against malaria infection. However, many in vitro correlative studies have been inconclusive. To better understand the relationship between human RBCs with thalassemia hemoglobinopathies and susceptibility to in vitro infection, we used an in vitro coculture system that involved biotin labeling and flow cytometry to study the ability of normal and variant RBC populations in supporting the growth of Plasmodium falciparum malaria parasites. Results showed that both normal and thalassemic RBCs were susceptible to P falciparum invasion, but the parasite multiplication rates were significantly reduced in the thalassemic RBC populations. The growth inhibition was especially marked in RBCs from alpha-thalassemia patients (both alpha-thalassemia1/alpha-thalassemia2 and alpha-thalassemia1 heterozygote). Our observations support the contention that thalassemia confers protection against malaria and may explain why it is more prevalent in malaria endemic areas.
Preparation and Use of Microarrays Containing Synthetic Heparin Oligosaccharides for the Rapid Analysis of Heparin—Protein Interactions. (2007)

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, please click on HTML or PDF.
Nonlinear analysis of cardiac optical mapping data reveals ordered period in defibrillation failure (2005)

A high-speed video camera and voltage-sensitive dyes were used to acquire high resolution (80times80 pixels) and high-speed (500mus/frame) optical signals of ventricular fibrillation in a Langendorff-perfused porcine heart. The resulting spatiotemporal dynamics were recorded before and after the application of a defibrillation shock in order to study the mechanism of defibrillation failure. We used recurrence plots as a tool to qualify the evolution of ordered behavior on the heart surface before fibrillation was reestablished in defibrillation failure. Such ordered periods may point to robust periods in which the defibrillation attempt has had the most effect and may provide a window in which a smaller, corrective shock may be applied to achieve defibrillation
Umfassende prospektive Erhebung der Qualität der Vorsorge-Koloskopie in Berlin (Berlin Colonoscopy Project, BECOP-3) (2009)

Fragestellung: Die routinemäßige Dokumentation der Vorsorge-Koloskopie gibt erste Anhaltspunkte für die Versorgungs-Qualität in Deutschland. Spezielle Qualitätsaspekte wie z.B. die Rückzugszeit, Vorbereitungsqualität oder Patientenakzeptanz bleiben jedoch unberücksichtigt; auch gibt es keinen Audit der erhobenen Daten.
Simultaneous regeneration of two 160 Gbit/s WDM channels in a single highly nonlinear fiber (2013)

We experimentally demonstrate simultaneous all-optical regeneration of two 160-Gbit/s wavelength-division multiplexed (WDM) channels in a single highly nonlinear fiber (HNLF). The multi-channel regeneration performance is confirmed by bit-error rate (BER) measurements. The receiver powers at a BER of 10(-9) are improved by about 4.9 dB and 2.1 dB for the two channels, respectively. The BER performance is not degraded by the presence of a second channel. Mitigation of the inter-channel nonlinearities is achieved through bidirectional propagation.