gebhart/patrepeval huggingface dataset:
Characterization of two distinct opsonic and protective epitopes within the alpha C protein of the group B Streptococcus (1997)

Group B Streptococcus (GBS) is a major cause of neonatal sepsis, meningitis in early infancy, postpartum endometritis, and serious invasive infections in adults in the United States. We previously cloned, sequenced, and characterized the alpha antigen gene, bca, and showed that the alpha C protein of GBS is a trypsin-resistant, surface-associated polypeptide that contains a signal sequence, a unique N terminus, nine identical tandem repeats, and a C-terminal membrane anchor structure. Polyclonal antiserum raised to the recombinant alpha C protein and an opsonic monoclonal antibody, 4G8, raised to the native protein from GBS have been shown to be protective in a mouse model. The binding site of 4G8 has now been localized to the tandem repeat region of the alpha C protein. To determine whether the N terminus of the alpha C protein contains additional opsonic and/or protective epitopes, the sequence corresponding to the alpha C protein N terminus was subcloned into a pET vector, the expressed peptide from Escherichia coli was purified by Ni2+ affinity chromatography, and rabbit polyclonal antibodies were raised to the purified recombinant peptide. Antibodies to the alpha C protein N terminus were shown to be opsonic by an in vitro opsonophagocytosis assay. In addition, 69% of newborn mouse pups from mothers passively immunized with the antiserum to the recombinant N-terminal polypeptide of the alpha C protein were protected against lethal challenge with GBS A909. These data indicate that at least two distinct regions of the alpha C protein, the N terminus and the tandem repeat region, contain opsonic and protective epitopes.
Theoretical thermochemistry. 4. Ionization energies and proton affinities of AHn species (A = lithium to boron and sodium to aluminum): geometries and enthalpies of formation of their cations (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTheoretical thermochemistry. 4. Ionization energies and proton affinities of AHn species (A = lithium to boron and sodium to aluminum): geometries and enthalpies of formation of their cationsLarry A. Curtiss and John A. PopleCite this: J. Phys. Chem. 1988, 92, 4, 894–899Publication Date (Print):February 1, 1988Publication History Published online1 May 2002Published inissue 1 February 1988https://pubs.acs.org/doi/10.1021/j100315a007https://doi.org/10.1021/j100315a007research-articleACS PublicationsRequest reuse permissionsArticle Views148Altmetric-Citations74LEARN 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 options Get e-Alerts
Complete genome sequences of Aeromonas and Pseudomonas phages as a supportive tool for development of antibacterial treatment in aquaculture (2019)

From 11 newly isolated bacteriophages only 6 (25AhydR2PP, 50AhydR13PP, 60AhydR15PP, 22PfluR64PP, 67PfluR64PP, 71PfluR64PP) have a potential to be used in phage therapy due to confirmed lytic lifestyle and absence of virulence or resistance genes.
Hybrid Kinematic-Dynamic Sideslip and Friction Estimation (2023)

Abstract Vehicle sideslip and tyre/road friction are crucial variables for advanced vehicle stability control systems. Estimation is required since direct measurement through sensors is costly and unreliable. In this paper, we develop and validate a sideslip estimator robust to unknown road grip conditions. Particularly, the paper addresses the problem of rapid tyre/road friction adaptation when sudden road condition variations happen. The algorithm is based on a hybrid kinematic-dynamic closed-loop observer augmented with a tyre/road friction classifier that reinitializes the states of the estimator when a change of friction is detected. Extensive experiments on a four wheel drive electric vehicle carried out on different roads quantitatively validate the approach. The architecture guarantees accurate estimation on dry and wet asphalt and snow terrain with a maximum sideslip estimation error lower than 1.5 deg. The classifier correctly recognizes 87% of the friction changes; wrongly classifies 2% of the friction changes while it is unable to detect the change in 11% of the cases. The missed detections are due to the fact that the algorithm requires a certain level of vehicle excitation to detect a change of friction. The average classification time is 1.6 s. The tests also indicate the advantages of the friction classifiers on the sideslip estimation error.
Photochromism of sol-gel glasses containing encapsulated organic molecules (1992)

Photochromism is defined as a reversible light induced color change of a material. By encapsulating photochromic molecules in glasses prepared by the sol-gel technique, transparent photochromic glass has been made. The new optical materials have potential applications in the areas of information recording and optical switching. Both the reversible color changes and the corresponding rates of these changes depend in part on the environment of the molecule in the glass matrix. In this paper, the results of studies involving the incorporation of the photochromic molecule, 2,3-diphenylindenone oxide in a variety of sol- gel glasses (aluminosilicate, silicate, ORMOSIL) are reported. The unirradiated gel and glass are colorless. Upon exposure to light of wavelengths less than 400 nm, the material turns red. When the irradiation ceases, the material returns to its original colorless form. The photochromic and spectroscopic properties of these glasses are presented and the rates of the color transformations are discussed.
Perspective Chapter: Dielectric Elastomer Sensor Capable of Measuring Large Deformation and Pressure (2022)

Most of the conventional sensors used for measuring deformation, pressure, etc., use metal, ceramics, piezo, or the like. Many of them are very rigid, and when the object is deformed or when the pressure on the object changes currently, it is necessary to arrange a large number of sensors with different conditions side by side. However, it is still difficult to measure all changes over time. With the newly developed dielectric elastomer sensor, even a very thin (0.1–0.2 mm) elastomer thickness could be deformed in difficult environments (e.g., places with large temperature changes or large vibrations), and it would be possible to measure any pressure changes due to its deformation. By applying this sensor, it can be used as a position sensor (including a three-dimensional sensor) or an acceleration sensor, so that it could be applied to the control of the arms and legs of a robot, smart shoes, and the like.
Methylation analysis in urine fractions for optimal CIN3 and cervical cancer detection (2020)

Methylation analysis performs excellent in all urine fractions for cervical cancer detection. Our results indicate the potential of CIN3 detection by urinary methylation analysis, and demonstrate that urine sediment performs best to detect CIN3.
Vehicle charging stations with solar canopy: A realistic case study within a smart grid environment (2014)

This paper presents a case study of a charging stations with solar canopy within a smart grid environment. The charging stations and solar canopy are installed in the main campus of Illinois Institute of Technology (IIT) as part of its “Perfect Power Initiative”. This paper presents the configuration of the charging station and the solar canopy followed by the description of the technical solution for data acquisition, communication and display. The collected data from the installed charging stations and solar canopy, which can be utilized as reference for economic assessment, return of investment analysis, or other related researches, are presented. The optimal operation of charging stations within smart grid environment considering the real time electricity price and the Vehicle-to-grid (V2G) capacity is simulated and studied. Simulation results show that the charging stations with V2G capacity have the capability of both providing economic benefit and increasing the reliability of the smart grid system.
Internalization by Multiple Endocytic Pathways and Lysosomal Processing Impact Maspin-Based Therapeutics (2014)

Novel characterization of internalization and subcellular trafficking of rMaspin provides new insights for future therapeutic development.
Multiplex Sequencing of 1.5 Mb of the Mycobacterium leprae Genome (1997)

The nucleotide sequence of 1.5 Mb of genomic DNA from Mycobacterium leprae was determined using computer-assisted multiplex sequencing technology. This brings the 2.8-Mb M. leprae genome sequence to ∼66% completion. The sequences, derived from 43 recombinant cosmids, contain 1046 putative protein-coding genes, 44 repetitive regions, 3 rRNAs, and 15 tRNAs. The gene density of one per 1.4 kb is slightly lower than that of Mycoplasma (1.2 kb). Of the protein coding genes, 44% have significant matches to genes with well-defined functions. Comparison of 1157 M. leprae and 1564 Mycobacterium tuberculosis proteins shows a complex mosaic of homologous genomic blocks with up to 22 adjacent proteins in conserved map order. Matches to known enzymatic, antigenic, membrane, cell wall, cell division, multidrug resistance, and virulence proteins suggest therapeutic and vaccine targets. Unusual features of the M. leprae genome include large polyketide synthase (pks) operons, inteins, and highly fragmented pseudogenes. [The sequence data described in this paper have been submitted to GenBank under accession nos. L78811 – L78829 , U00010 – U00023 , U15180 – U15184 , U15186 , U15187 , L01095 , L01536 , L04666 , and L01263 . On-line supplementary information for Table 1 is available at http://www.cshl.org/gr .]
Efficient multi-die placement for blank defect mitigation in EUV lithography (2012)

Due to the absence of defect-free blanks in extreme ultraviolet (EUV) lithography, defect mitigation is necessary before mass production. One effective way to mitigate the defect impact is to increase the distance between the defects and feature boundaries such that the defects will not affect the printing of the features. Some algorithms have been developed to move the whole layout within the exposure field in order to avoid all defect impact. However, in reality the die size is usually much smaller than the exposure field, such that one blank is packed with multiple copies of the die, and each die can be placed independently within the exposure field. In this paper, we develop an EUV reticle placement algorithm to maximize the number of valid dies that are immune to defects. Given the layout of a die and a defective blank, we first apply a layout relocation algorithm to find all feasible regions for the die on the blank. Then we develop an efficient placement algorithm to place the dies within the feasible regions one at a time until all feasible regions are fully occupied. The simulation results show that our algorithm is able to find a solution efficiently and the number of valid dies placed by our algorithm is very close to the optimal solution.
Anti-vascular endothelial growth factor receptor 2 antibody reduces tumorigenicity and metastasis in orthotopic prostate cancer xenografts via induction of endothelial cell apoptosis and reduction of endothelial cell matrix metalloproteinase type 9 production. (2002)

This study confirms the principle of tumor growth inhibition by targeting angiogenesis within tumors and supports the use of anti-VEGF receptor agents.
A simple, high-throughput method of protein and label removal from extracellular vesicle samples (2020)

Abstract Evidence continues to increase of the clinical utility extracellular vesicles (EVs) can provide as translational biomarkers. While a wide variety of EV isolation and purification methods have been implemented, few techniques are high-throughput and scalable for removing excess fluorescent reagents (e.g. dyes, antibodies). EVs are too small to be recovered from routine cell-processing procedures, such as filtration or centrifugation. The lack of suitable methods for removing unbound labels, especially in optical assays, is a major roadblock to accurate EV phenotyping and utilization of EV assays in a translational or clinical setting. Therefore, we developed a method for using a multi-modal resin, referred to as EV-Clean, to remove unbound labels from EV samples, and we demonstrate improvement in flow cytometric EV analysis with the use of this EV-Clean method.
Infant Formula With a Specific Blend of Five Human Milk Oligosaccharides Drives the Gut Microbiota Development and Improves Gut Maturation Markers: A Randomized Controlled Trial (2022)

[https://clinicaltrials.gov/ct2/show/], identifier [NCT03722550].
Introduction to the Special Section on the 2008 Compound Semiconductor Integrated Circuit Symposium (CSICS'08) (2008)

The five papers in this special issue were originally presented at the 2008 Compound Semiconductor Integrated Circuit Symposium, held in Portland, Oregon, October 14-17.
Dissociation of Abrikosov-Nielsen-Olesen vortices (1983)

In this paper we discuss how Abrikosov-Nielsen-Olesen vortices can act as impurities that seed first-order phase transitions. The seeding mechanism comes about through dissociation of what is normally considered to be topologically stable defects. We discuss the conditions necessary for dissociation in which the core, which contains the seed of stable phase, becomes unstable and grows radially, converting the system from a metastable phase to a stable phase. We also discuss some peculiar characteristics of vortices in superfluid $^{3}\mathrm{He}$- $^{4}\mathrm{He}$ and the vortex dissociation that occurs when the $^{3}\mathrm{He}$- $^{4}\mathrm{He}$ phase separates at low temperatures.
Low modulation bias InGaN-based integrated EA-modulator-laser on semipolar GaN substrate (2015)

We have demonstrated the monolithic integration of an electroabsorption modulator with a laser diode and measured DC and AC modulation characteristics of the device, which is grown on (2021̅) plane GaN substrate. By alternating the modulation voltage at -3.5 V and 0 V, we achieve the laser output power of <; 1.5 mW to > 9 mW, respectively, leading to ~8.1 dB On/Off ratio. Our results clearly show that a low power consumption modulator can be achieved with semipolar EA-modulator compared to that of the c-plane devices.
In vivo high‐resolution 3D Overhauser‐enhanced MRI in mice at 0.2 T (2012)

Overhauser-enhanced MRI (OMRI) offers the potentiality of detecting low-concentrated species generated by specific biological processes. However molecular imaging applications of OMRI need significant improvement in spatial localization. Here it is shown that 3D-OMRI of a free radical injected in tumor-bearing mice can be performed at high anatomical resolution at a constant field. A 30 mm cavity operating at 5.43 GHz was inserted in a C-shaped magnet for proton MRI at 0.194 T. Nude mice with or without brain-implanted C6 rat glioma were positioned in the cavity and injected with TOPCA (1-oxyl-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrole-3-carboxylic acid). OMRI was performed in 3D within several minutes in the brain region without high overheating of the animals. Voxel size was 0.5 × 0.5 × 1 mm³ , providing good delineation of brain regions. Signal amplifications ranged from 2 in tumors to 10 in vessels several minutes after TOPCA injection. Time-course of signal enhancement could be measured by 2D OMRI at 15 s time intervals in a localized thin slice. The method opens the way for molecular imaging of biological activities able to generate OMRI-visible free radicals.
One-Stage Object Referring with Gaze Estimation (2022)

The classic object referring task aims at localizing the referred object in the image and requires a reference image and a natural language description as inputs. Given the facts that gaze signal can be easily obtained by a modern human-computer interaction system with a camera and that human tends to look at the object when referring to it, we propose a novel gaze-assisted object referring framework. The formulation not only simplifies the state-of-the-art gaze-assisted object referring system requiring many input signals besides gaze, but also incorporates the one-stage object detection idea to improve the inference efficiency. More importantly, it implicitly considers all object candidates and thus resolves the main pain point of existing two-stage object referring solutions for proposing an appropriate number of candidates – it cannot be too large, otherwise the computational cost can be prohibitive; it cannot be too small, otherwise the chance of missing a referred object can be significant. To utilize the gaze information, we propose to build a gaze heatmap by using the anchor position encoding map and the gaze prediction result. The gaze heatmap and the language feature are then merged into the feature pyramid in the object detection as the final one-stage referring system. In the CityScapes-OR dataset, the proposed method outperforms the state-of-the-art by 7.8% for Acc@1.
Pharmacokinetics and predicted neutralization coverage of VRC01 in HIV-uninfected participants of the Antibody Mediated Prevention (AMP) trials (2020)

Summary The phase 2b AMP trials are testing whether the broadly neutralizing antibody VRC01 prevents HIV-1 infection in two cohorts: women in sub-Saharan Africa, and men and transgender persons who have sex with men (MSM/TG) in the Americas and Switzerland. We used nonlinear mixed effects modeling of longitudinal serum VRC01 concentrations to characterize pharmacokinetics and predict HIV-1 neutralization coverage. We found that body weight significantly influenced clearance, and that the mean peripheral volume of distribution, steady state volume of distribution, elimination half-life, and accumulation ratio were significantly higher in MSM/TG than in women. Neutralization coverage was predicted to be higher in the first (versus second) half of a given 8-week infusion interval, and appeared to be higher in MSM/TG than in women overall. Study cohort differences in pharmacokinetics and neutralization coverage provide insights for interpreting the AMP results and for investigating how VRC01 concentration and neutralization correlate with HIV incidence.
High Open-Circuit Voltages: Evidence for a Sensitizer-Induced TiO2 Conduction Band Shift in Ru(II)-Dye Sensitized Solar Cells (2013)

Dye-sensitized solar cells (DSC) represent a valuable, efficient, and low-cost alternative to conventional semiconductor photovoltaic devices. A deeper understanding of the interactions at the dye/semiconductor heterointerface is fundamental for future progress in DSC technology. Here we present an interesting heteroleptic ruthenium(II) sensitizer that shifts the conduction band of TiO2 by 80 mV resulting in high open circuit potential for improved device efficiency.
Biological effect on restenosis and vascular healing of encapsulated paclitaxel nanocrystals delivered via coated balloon technology in the familial hypercholesterolaemic swine model of in-stent restenosis (2016)

Lower-dose encapsulated paclitaxel nanocrystals delivered via a coated balloon displayed comparable biological efficacy with superior healing features compared to a clinically validated PCB technology.
A Challenging Pie to Splice: Drugging the Spliceosome (2017)

Since its discovery in 1977, the study of alternative RNA splicing has revealed a plethora of mechanisms that had never before been documented in nature. Understanding these transitions and their outcome at the level of the cell and organism has become one of the great frontiers of modern chemical biology. Until 2007, this field remained in the hands of RNA biologists. However, the recent identification of natural product and synthetic modulators of RNA splicing has opened new access to this field, allowing for the first time a chemical-based interrogation of RNA splicing processes. Simultaneously, we have begun to understand the vital importance of splicing in disease, which offers a new platform for molecular discovery and therapy. As with many natural systems, gaining clear mechanistic detail at the molecular level is key towards understanding the operation of any biological machine. This minireview presents recent lessons learned in this emerging field of RNA splicing chemistry and chemical biology.
Tools for chemical synthesis in microsystems (2014)

Chemical synthesis in microsystems has evolved from simple proof-of-principle examples to become a general technique in academia and industry. Numerous such “flow chemistry” applications are now found in pharmaceutical and fine chemical synthesis. Much of the development has been based on systems employing macroscopic flow components and tubes, rather than the integrated chip technology envisioned by the lab-on-a-chip community. We review the major developments in systems for flow chemistry and discuss limitations underlying the development of chip-scale integrated systems.
Comparison of leptin- and interleukin-6-regulated expression of the rPAP gene family: evidence for differential co-regulatory signals. (2002)

The pancreatitis-associated protein (PAP)/regenerating protein (REG) family represents a complex group of small secretory proteins, which can function as acute phase reactants, lectins, antiapoptotic factors or growth factors for pancreatic beta-cells and neural cells. Transcriptional induction of rPAP/Reg genes was studied here in PC12 cells made responsive to leptin. Northern-blots showed quantitative differences in induction of four major family members by leptin and IL-6. Surprisingly, induction by leptin was strongly enhanced upon forskolin co-treatment whereas induction by IL-6 was counteracted. Functional studies involving progressive rPAP I promoter deletions showed, in the case of leptin, a clear correlation with predicted cis-regulatory elements. Leptin-induced stimulation was dependent on STAT3, since over-expression of dominant-negative STAT3, but not of dominant-negative STAT1, completely blocked transcriptional activation. In case of IL-6, an enhancer element outside the cloned promoter fragment is required for full stimulation. The effects of forskolin in a leptin and IL-6 context could not be explained at the promoter level, but rather events occurring upstream in the signalling cascade must be postulated to explain the differential co-regulatory effects.