gebhart/patrepeval huggingface dataset:
Influenza H1 Mosaic Hemagglutinin Vaccine Induces Broad Immunity and Protection in Mice (2019)

Annually, influenza A virus (IAV) infects ~5-10% of adults and 20-30% of children worldwide. The primary resource to protect against infection is by vaccination. However, vaccination only induces strain-specific and transient immunity. Vaccine strategies that induce cross-protective immunity against the broad diversity of IAV are needed. Here we developed and tested a novel mosaic H1 HA immunogen. The mosaic immunogen was optimized in silico to include the most potential B and T cell epitopes (PBTE) across a diverse population of human H1 IAV. Phylogenetic analysis showed that the mosaic HA localizes towards the non-pandemic 2009 strains which encompasses the broadest diversity in the H1 IAV population. We compared the mosaic H1 immunogen to wild-type HA immunogens and the commercial inactivated influenza vaccine, Fluzone. When analyzed by ELISA, the mosaic immunogen induced stronger antibody responses against all four diverse H1 HA proteins. When analyzing T cell responses, again the mosaic immunogen induced stronger cellular immunity against all 4 diverse HA strains. Not only was the magnitude of T cell responses strongest in mosaic immunized mice, the number of epitopes recognized was also greater. The mosaic vaccinated mice showed strong cross-protection against challenges with three divergent IAV strains. These data show that the mosaic immunogen induces strong cross-protective immunity and should be investigated further as a universal influenza vaccine.
A Microscale Platform for Integrated Cell-Free Expression and Activity Screening of Cellulases (2010)

Recent advances in production of cellulases by genetic engineering and isolation from natural microbial communities have necessitated the development of high-throughput analytical technologies for cellulase expression and screening. We have developed a novel cost-effective microscale approach based on in vitro protein synthesis, which seamlessly integrates cellulase expression with activity screening without the need for any protein purification procedures. Our platform achieves the entire process of transcription, translation, and activity screening within 2-3 hours in microwell arrays compared with days needed for conventional cell-based cellulase expression, purification, and activity screening. Highly sensitive fluorescence-based detection permits activity screening in volumes as low as 2-3 μL with minimal evaporation (even at temperatures as high as 95 °C) leading to two orders of magnitude reduction in reagent usage and cost. The platform was used for rapid expression and screening of β-glucosidases (BGs) and cellobiohydrolases (CBHs) isolated from thermophilic microorganisms. Furthermore, it was also used to determine optimum temperatures for BG and CBH activities and to study product inhibition of CBHs. The approach described here is well suited for first-pass screening of large libraries to identify cellulases with desired properties that can subsequently be produced on a large scale for detailed structural and functional characterization.
Using periodic metallic nanostructure for compact optical sensor to detect refractive index change (2005)

We demonstrate a compact optical transducer (~50&#956;m) based on a gold film perforated with a square array of square holes. The lattice constant (separation between nearest holes) is chosen to be <i>a ~</i>1&#956;m to detect refractive index change around (<i>n~</i>1.4) with resonant wavelength (&#955;~1.5&#956;m). Both reflectance measurement and finite difference time domain (FDTD) simulations are performed to evaluate the performance of the sensors. The responsivity of the resonant wavelength is measured to be &#916;&#955;/&#916;<i>n</i> ~835nm RIU<sup>-1</sup> (RIU= refractive index unit). The linewidth and contrast of resonance are compared with different size of holes from experimental measurement and FDTD simulations. Coupled mode theory analysis is also used to understand the change reflectance spectrum as a function of hole width.
Impact of crosstalk on 800 Gb/s 90 GBaud 64QAM channel (2021)

We experimentally investigate and model how optical in-band crosstalk impairs 200 Gb/s QPSK, 300 Gb/s PCS-16QAM as well as 400 Gb/s 16QAM 68 GBaud WDM carriers, and eventually 90 GBaud 800 Gb/s 64QAM channels.
REPORTE CORTO/SHORT REPORT - CLONING, EXPRESSION AND CHARACTERIZATION OF THE P64k OUTER MEMBRANE PROTEIN FROM N. meningitidis (1995)

no abstract
On the prediction of future vehicle locations in free-floating car sharing systems (2015)

The free-floating car sharing model is a recently introduced vehicle rental model, which allows customers to return the car anywhere within the operation area, without relying on depot stations. Driven by the flexibility of such a model, the popularity of car sharing has increased rapidly during the last years. However, some critical issues still arise when a user needs to make plans of vehicle usage, since no information is available on future vehicle locations. In this paper, the Vehicle Distance Prediction (VDP) approach is proposed, aimed to predict the distance of the nearest available vehicle at a given future instant. This technique shows great potential also for the service manager, e.g. vehicles could be moved in advance by the staff to balance the fleet distribution. The effectiveness of the proposed prediction approach is assessed on a real dataset taken from a car sharing service in Milan, Italy.
Characterization of Collagen Fiber Architecture in the Canine Diaphragmatic Central Tendon (1992)

The diaphragmatic central tendon (DCT), a collagenous soft tissue membrane, acts as a mechanical buffer between the costal and crural muscles. Its direction of mechanical anisotropy has been shown to correspond to the collagen fiber preferred directions. These preferred directions were determined by gross histological examination, and were thus qualitative. In this work we quantified the collagen fiber architecture throughout the DCT using small angle light scattering (SALS). Helium-Neon laser light was passed through tendon specimens and the resultant scattered light distribution, which characterized the local collagen fiber architecture, was recorded with a linear array of five photodiodes. Throughout the DCT two distinct collagen fiber populations were consistently found. For each population three parameters were determined: 1) the preferred directions of collagen fibers, 2) the volume fraction (Vf) of fibers, 3) OI, an orientation index, which ranges from 0 percent for a random network to 100 percent for a perfectly oriented network. Vector maps were used to display results from 1) and 2), and showed a primary group (G1) going from the crural to costal muscles and a secondary one (G2) running perpendicular to G1. Comparisons of Vf between G1 and G2 showed that G1 contained about three times as many fibers as G2, a ratio similar to that found for the degree of mechanical anisotropy. OI were found to be about 60 percent, indicating a high degree of orientation, with no significant regional or population differences (p less than 0.05). These quantitative results suggest that throughout the DCT the degree of mechanical anisotropy is controlled exclusively by Vf.
SGT Framework (2016)

While location-based social networks (LBSNs) have become widely used for sharing and consuming location information, a large number of users turn to general web search engines for recreational activity ideas. In these cases, users typically express a query combining desired activity type, constraints and suitability, around an explicit location and time -- for example, "parks for kids in NYC in winter", or "cheap bars for bachelor party in san francisco". In this work we characterize such queries as recreational queries, and propose a relevance framework for ranking points of interest (POIs) to present in the web search recreational vertical using signals from query logs and LBSNs. The first part of this framework is a taxonomy of recreational intents, which we derive from those previously seen in query logs and other behavioral data. Based on the most popular recreational intents, we proceed to outline a new relevance model combining social, geographical and temporal information. We implement a prototype and conduct a preliminary user-study evaluation. Results show the proposed relevance model and bundles greatly improve user satisfaction for recreational queries.
Single-step alcohol-free synthesis of core–shell nanoparticles of β-casein micelles and silica (2014)

β-Casein is wrapped in a thin shell of SiO<sub>2</sub> under biocompatible conditions forming hybrid core–shell nanoparticles.
Avoid communication outages in decentralized planning (2010)

This paper proposes an extension to the Consensus-Based Bundle Algorithm (CBBA), a distributed task allocation framework previously developed at the Aerospace Control Laboratory (ACL), MIT, designed to address complex mission planning for a team of heterogeneous agents operating in a dynamic environment. A key assumption of CBBA involves having a connected network, a constraint which is not always feasible in realistic mission scenarios. In this paper, we present a mechanism that aims at preventing and repairing network disconnects. The dynamic network topology is predicted using available information within the planner and relay tasks are created to strengthen the connectivity of the network. By employing underutilized resources, the presented approach improves network connectivity without limiting the scope of the active agents thus improving mission performance.
Abstract 406: Oxidative Stress Mediated Myocardial Lipid Dysfunction (2016)

Lipid phosphate phosphatases-3 control the conversion of bioactive lipid phosphates to their dephosphorylated counterparts. Oxidative stress transactivates microRNA-92a, which is a negative regulator of LPP3. We found that LPP3 expression was markedly downregulated in ischemic regions after ischemia/reperfusion (I/R) injury. We observed a similar trend in the myocardium from patients samples with acute MI at 24h. Our in vitro studies indicate that overexpression of LPP3 protects the cardiomyocyte against reactive oxygen species (ROS)-induced cardiac injury and knockout of LPP3 gene in the myocardium increases cardiac dysfunction and mortality. Using XF24 Seahorse analyzer we determined the effect of ROS on respiration in pluripotent stem cell-derived cardiomyocytes (iPSC-CM). Adding Phorbol 12-myristate 13-acetate (PMA) to these cells immediately increased oxygen consumption as compared to LPP3 overexpressed cells. This apparent increase in respiration was reversible by oligomycin, which blocks ATP synthase. The rate of oxygen consumption per cell was significantly lower in stimulated compared to LPP3 overexpressed iPSC-CM. The most noticeable difference in the O 2 consumption was found in the presence of carbonilcyanide p-trifluromethoxyphenylhydrazone (FCCP). FCCP is an inner membrane pore opener which resets the proton gradient between mitochondrial matrix and interspace, resulting in continuous transport of protons and consuming O 2 at the maximum potential. Remarkably, while the FCCP treatment increased O 2 consumption in LPP3 overexpressed cells (P&lt;0.05), the treatment showed no effect on the O 2 consumption in the PMA stimulated alone. The result indicated that the low basal oxidative phosphorylation activity in stimulated cells was due to unusually low oxidative phosphorylation potential. To explore the free radical regulation of LPP3 overexpressed cells, superoxide anion was measured using dihydroethidium, a fluorescent cholesterol analog. The levels of superoxide radicals in PMA treated cells were consistently and significantly higher than the levels in LPP3 overexpressed cells (P&lt;0.05). In turn, the radicals can be removed by adding MitoTEMPO (a specific scavenger of mitochondrial superoxide).
Regenerative heart failure therapy headed for optimization (2014)

This editorial refers to ‘Autologous CD133+ bone marrow cells and bypass grafting for regeneration of ischaemic myocardium: the Cardio133 Trial’[†][1], by B.A. Nasseri et al. , on page 1263 

The heart failure epidemic, accelerated by global ageing, is a rampant contributor to worldwide morbidity and mortality, underscoring the escalating burden of non-communicable diseases. In the context of a growing prevalence in ischaemic heart disease, advances in the acute management of myocardial infarction with rapid percutaneous revascularization have reduced premature death but have resulted in a high incidence of chronic heart failure overloading healthcare systems.1 The malignant nature of the disease associated with poor outcomes reflects a shortcoming of current therapies, largely ineffective against infarction-triggered tissue destruction. Established therapies target afterload reduction and mineralocorticoid dysregulation to limit myocardial remodelling without, however, treating parenchymal loss that underlies disease. Loss of ventricular mass, compounded by maladaptive remodelling, leads to progressive organ deterioration necessitating recurrent hospitalizations and life-extending measures. Yet, left ventricular assist devices or heart transplantation are complex and costly procedures, available to a limited patient population. In the USA alone, ∼2500 heart transplants are performed annually. Due to donor paucity, >100 000 additional patients are left without hope for such a life-saving intervention. A pressing need thus exists for institution of innovative therapies that would reach beyond existing standards of care.

The emergence of the science-powered regenerative toolkit offers such a prospect, signalling a potential for radical transformation of future practices.2 Curative options are viewed as being paramount in addressing the evolving patho-demographic landscape. Applied to cardiovascular diseases, regenerative technologies—exemplified by stem cell-based protocols—aim at restoring normative structure and function. By seeking definitive solutions, regenerative approaches are predicted to offer a cost-effective outlook. To this end, translation of a growing body of knowledge underlying repair strategies necessitates deployment of robust regenerative …

 [1]: #fn-2
Auto-FuzzyJoin (2021)

Fuzzy similarity join is an important database operator widely used in practice. So far the research community has focused exclusively on optimizing fuzzy joinscalability. However, practitioners today also struggle to optimize fuzzy-joinquality, because they face a daunting space of parameters (e.g., distance-functions, distance-thresholds, tokenization-options, etc.), and often have to resort to a manual trial-and-error approach to program these parameters in order to optimize fuzzy-join quality. This key challenge of automatically generating high-quality fuzzy-join programs has received surprisingly little attention thus far. In this work, we study the problem of "auto-program'' fuzzy-joins. Leveraging a geometric interpretation of distance-functions, we develop an unsupervised Auto-FuzzyJoin framework that can infer suitable fuzzy-join programs on given input tables, without requiring explicit human input such as labelled training data. Using Auto-FuzzyJoin, users only need to provide two input tables L and R, and a desired precision target τ (say 0.9). Auto-FuzzyJoin leverages the fact that one of the input is a reference table to automatically program fuzzy-joins that meet the precision target τ in expectation, while maximizing fuzzy-join recall (defined as the number of correctly joined records). Experiments on both existing benchmarks and a new benchmark with 50 fuzzy-join tasks created from Wikipedia data suggest that the proposed Auto-FuzzyJoin significantly outperforms existing unsupervised approaches, and is surprisingly competitive even against supervised approaches (e.g., Magellan and DeepMatcher) when 50% of ground-truth labels are used as training data. We have released our code and benchmark on GitHub\footnote\urlhttps://github.com/chu-data-lab/AutomaticFuzzyJoin to facilitate future research.
Vision of a Service Value Network in Maritime Container Logistics (2014)

Against the backdrop of stagnant or slow volume growth in the international container transport, liner shipping companies make considerable efforts to reduce costs and provide better service quality. Due to the strategic character of decisions associated with the implementation and reorganization of liner services, solution approaches that enable a substantial reduction of total roundtrip time without appreciable extra costs are regarded as promising. For this purpose, the authors develop the idea of a Maritime Service Value Network representing cooperation among container terminals as well as at least one ship routing company and one meteorological service provider. The network aims at acceleration of container liner services with (ideally) cost-neutral operations measures. The proposed concept can provide the container terminals with considerable competitive advantages and simultaneously put the liner shipping companies in a strong position for successful integration in global supply chain networks. The full paper gives an estimate of the magnitude of existing time saving potential and the associated economic and operational impact. Additionally, a rough description of the network idea is presented and obstacles for network coordination are highlighted.
Mice with induced pulmonary morbidities display severe lung inflammation and mortality following exposure to SARS-CoV-2 (2021)

Mice are normally unaffected by SARS coronavirus 2 (SARS-CoV-2) infection since the virus does not bind effectively to the murine version of the angiotensin-converting enzyme 2 (ACE2) receptor molecule. Here, we report that induced mild pulmonary morbidities rendered SARS-CoV-2-refractive CD-1 mice susceptible to this virus. Specifically, SARS-CoV-2 infection after application of low doses of the acute lung injury stimulants bleomycin or ricin caused severe disease in CD-1 mice, manifested by sustained body weight loss and mortality rates greater than 50%. Further studies revealed markedly higher levels of viral RNA in the lungs, heart, and serum of low-dose ricin-pretreated mice compared with non-pretreated mice. Furthermore, lung extracts prepared 2-3 days after viral infection contained subgenomic mRNA and virus particles capable of replication only when derived from the pretreated mice. The deleterious effects of SARS-CoV-2 infection were effectively alleviated by passive transfer of polyclonal or monoclonal antibodies generated against the SARS-CoV-2 receptor binding domain (RBD). Thus, viral cell entry in the sensitized mice seems to depend on viral RBD binding, albeit by a mechanism other than the canonical ACE2-mediated uptake route. This unique mode of viral entry, observed over a mildly injured tissue background, may contribute to the exacerbation of coronavirus disease 2019 (COVID-19) pathologies in patients with preexisting morbidities.
Formation of geometrically complex lipid nanotube-vesicle networks of higher-order topologies (2002)

We present a microelectrofusion method for construction of fluid-state lipid bilayer networks of high geometrical complexity up to fully connected networks with genus = 3 topology. Within networks, self-organizing branching nanotube architectures could be produced where intersections spontaneously arrange themselves into three-way junctions with an angle of 120 degrees between each nanotube. Formation of branching nanotube networks appears to follow a minimum-bending energy algorithm that solves for pathway minimization. It is also demonstrated that materials can be injected into specific containers within a network by nanotube-mediated transport of satellite vesicles having defined contents. Using a combination of microelectrofusion, spontaneous nanotube pattern formation, and satellite-vesicle injection, complex networks of containers and nanotubes can be produced for a range of applications in, for example, nanofluidics and artificial cell design. In addition, this electrofusion method allows integration of biological cells into lipid nanotube-vesicle networks.
Carbon-carbon bond formation in the reaction of calcium atoms with ethers (1980)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTCarbon-carbon bond formation in the reaction of calcium atoms with ethersW. E. Billups, Mark M. Konarski, Robert H. Hauge, and John L. MargraveCite this: J. Am. Chem. Soc. 1980, 102, 10, 3649–3650Publication Date (Print):May 1, 1980Publication History Published online1 May 2002Published inissue 1 May 1980https://doi.org/10.1021/ja00530a068Request reuse permissions Article Views82Altmetric-Citations12LEARN 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 InReddit PDF (301 KB) Get e-Alertsclose Get e-Alerts
System-Level Performance of mmWave Cellular Networks for Urban Micro\n Environments (2017)

In this paper, we investigate the propagation coupling loss (captures all\nsources of attenuation between serving cell and mobile station (MS)) and\ngeometry metric (GM) (downlink average signal-to-interference plus noise ratio)\nperformance of mmWave cellular networks for outdoor and indoor MSs, considering\nurban micro (UMi) environments. Based on these studies, we identify effective\nmmWave frequency bands for cellular communication. We consider 3GPP compliant\nsystem-level simulations with two power allocation schemes: 1) transmit power\nscaled with communication bandwidth, and 2) constant total transmit power.\nSimulation results show that with scaled transmit power allocation, GM\nperformance degradation is small: 20% of MSs experience GM less than 0 dB at\nall mmWave frequencies considered, for outdoor MSs. With constant Tx power\nallocation, 20% of MSs experience GM less than 0 dB for frequencies up to 30\nGHz. Furthermore, 35% (48%) of outdoor MSs experience GM performance less than\n0 dB at 60 GHz (100 GHz). On the other hand, for indoor MSs, even with scaled\nTx power allocation, favorable GM performance is observed only at low\nfrequencies, i.e., 2 GHz.\n
Targeting RPL39 and MLF2 reduces tumor initiation and metastasis in breast cancer by inhibiting nitric oxide synthase signaling (2014)

We previously described a gene signature for breast cancer stem cells (BCSCs) derived from patient biopsies. Selective shRNA knockdown identified ribosomal protein L39 (RPL39) and myeloid leukemia factor 2 (MLF2) as the top candidates that affect BCSC self-renewal. Knockdown of RPL39 and MLF2 by specific siRNA nanoparticles in patient-derived and human cancer xenografts reduced tumor volume and lung metastases with a concomitant decrease in BCSCs. RNA deep sequencing identified damaging mutations in both genes. These mutations were confirmed in patient lung metastases (n = 53) and were statistically associated with shorter median time to pulmonary metastasis. Both genes affect the nitric oxide synthase pathway and are altered by hypoxia. These findings support that extensive tumor heterogeneity exists within primary cancers; distinct subpopulations associated with stem-like properties have increased metastatic potential.