gebhart/patrepeval huggingface dataset:
Aptamer-Derived Nucleic Acid Oligos:  Applications to Develop Nucleic Acid Chips to Analyze Proteins and Small Ligands (2005)

The specificity and affinity of aptamers for their cognate ligands are comparable to those of antibodies for antigens. To use aptamers effectively in high-throughput assays in a microarray format, to analyze various analytes, we developed a strategy in which the aptamer was split into two nonfunctional units and allowed to reassemble into the functional aptamer by the cognate ligand. We have named this method "analyte-dependent oligonucleotide modulation assay" (ADONMA). As proof-of-principle, we used oligonucleotides derived from the aptamer RNA against HIV-1 Tat and demonstrated, with both titer plates and plastic slide chips, that specifically in the presence of Tat or its peptide, the two oligos reconstituted the core binding regions of Tat. Thus, these results suggest that ADNOMA has the potential for use in nucleic acid microarrays for detecting various ligands.
Comparison of theory and simulation for a radially-symmetric transit-time oscillator (2003)

The transit-time effect in a coaxial structure has been used by Arman (1996) to design low impedance high power microwave devices that use no externally generated magnetic fields and have no confining foils. Luginsland et al. (1997) have developed simple one-dimensional (1D) nonlinear circuit equations that are solved numerically to estimate key device characteristics. This paper extends this approach to analytically estimate the values of the free parameters used in the circuit equations, compares the analytical values to similar values derived from two-dimensional (2D) particle-in-cell simulations, and compares the results of numerical solutions of the 1D circuit equations, 2D simulations, and initial experimental data. It is shown that the nonlinear relationship between voltage and current emission in a space charge-limited diode drives an RF oscillation whose frequency is determined by the resonant characteristics of the annular diode cavity. The results from the 1D analysis and 2D particle-in-cell simulation are shown to be in excellent agreement.
Identification of 20 polymer types by means of laser-induced breakdown spectroscopy (LIBS) and chemometrics (2021)

Over the past few years, laser-induced breakdown spectroscopy (LIBS) has earned a lot of attention in the field of online polymer identification. Unlike the well-established near-infrared spectroscopy (NIR), LIBS analysis is not limited by the sample thickness or color and therefore seems to be a promising candidate for this task. Nevertheless, the similar elemental composition of most polymers results in high similarity of their LIBS spectra, which makes their discrimination challenging. To address this problem, we developed a novel chemometric strategy based on a systematic optimization of two factors influencing the discrimination ability: the set of experimental conditions (laser energy, gate delay, and atmosphere) employed for the LIBS analysis and the set of spectral variables used as a basis for the polymer discrimination. In the process, a novel concept of spectral descriptors was used to extract chemically relevant information from the polymer spectra, cluster purity based on the k-nearest neighbors (k-NN) was established as a suitable tool for monitoring the extent of cluster overlaps and an in-house designed random forest (RDF) experiment combined with a cluster purity-governed forward selection algorithm was employed to identify spectral variables with the greatest relevance for polymer identification. Using this approach, it was possible to discriminate among 20 virgin polymer types, which is the highest number reported in the literature so far. Additionally, using the optimized experimental conditions and data evaluation, robust discrimination performance could be achieved even with polymer samples containing carbon black or other common additives, which hints at an applicability of the developed approach to real-life samples.
The Behavior of Amphibians Shapes Their Symbiotic Microbiomes (2020)

Seasonal dynamics in symbiotic microbiomes have been investigated in a number of vertebrates and are mainly caused by changes in the diet (in the gut microbiome) or the living environment (in the skin microbiome). Most amphibian microbiome studies focus on the skin, whereas internal microbiome structure and dynamics are often overlooked. The present study investigated the seasonal dynamics in three types of symbiotic microbiomes (the skin, stomach, and gut) across four wild frog species, belonging to different families, in May and October. The frogs harbored more water source microbes in May than in October. On the contrary, the frogs harbored more soil source microbes in October than in May. The frog species investigated tend to live in a water environment in May to maintain body surface humidity at high environmental temperatures and to breed. In October, these four species prefer to live on the land, as the environmental temperature decreases, to prepare for hibernation in caves or under stones. Thus, seasonal changes in the wild amphibian symbiotic microbiome may be caused by the difference in microbe transmission from their living environment due to specific behaviors. This study demonstrated that the behavior and living environment of wild amphibians shape their symbiotic microbiome externally (on the skin) and internally (in the stomach and gut). We revealed the potential association between specific behaviors in poikilothermic animals and host symbiotic microbiomes.<b>IMPORTANCE</b> Understanding the interactions between host behavior and microbiome dynamics remains an outstanding priority in the field of microbial ecology. Here, we provide the reader with a simple example of how the behavior and living environment of wild amphibians shape their symbiotic microbiome externally (on the skin) and internally (in the stomach and gut).
Heterologous expression of xanthophyll esterase genes affects carotenoid accumulation in petunia corollas (2020)

The majority of carotenoids in petals are xanthophylls and most of these xanthophylls are esterified with fatty acids. Although petunia (Petunia x hybrida) is an important ornamental plant, it cannot accumulate enough carotenoids to have deep-yellow flowers. Our previous study suggested that low esterification activity causes low carotenoid accumulation in petunia corollas. Here, we introduced xanthophyll esterase (XES) from the petals of Ipomoea obscura, tomato (Solanum lycopersicum), and marigold (Tagetes erecta) into a pale-yellow-flowered cultivar of petunia to see whether these affect carotenoid accumulation in petunia corollas. Carotenoid contents and the proportions of esterified xanthophylls were elevated in the corollas of XES-overexpressing (XES-OX) transformants. Expression analysis showed that the transcript levels of endogenous carotenoid biosynthetic genes, which included geranylgeranyl diphosphate synthase 2, ζ-carotene desaturase, and lycopene β-ring cyclase in corolla tubes were upregulated in XES-OX plants. In addition, we discovered a difference in the composition of esterified xanthophylls among XES-OX plants, which may be caused by differences in the substrate specificity of their respective XESs. We conclude that esterification is an important process for carotenoid accumulation and XES is a useful tool for the quantitative and qualitative control of carotenoid accumulation in petals.
Study of Adhesion and Survival of Lactobacilli and Bifidobacteria on Table Olives with the Aim of Formulating a New Probiotic Food (2005)

With the aim of developing new functional foods, a traditional product, the table olive, was used as a vehicle for incorporating probiotic bacterial species. Survival on table olives of Lactobacillus rhamnosus (three strains), Lactobacillus paracasei (two strains), Bifidobacterium bifidum (one strain), and Bifidobacterium longum (one strain) at room temperature was investigated. The results obtained using a selected olive sample demonstrated that bifidobacteria and one strain of L. rhamnosus (Lactobacillus GG) showed a good survival rate, with a recovery of about 10(6) CFU g(-1) after 30 days. The Lactobacillus GG population remained unvaried until the end of the experiment, while a slight decline (to about 10(5) CFU g(-1)) was observed for bifidobacteria. High viability, with more than 10(7) CFU g(-1), was observed throughout the 3-month experiment for L. paracasei IMPC2.1. This strain, selected for its potential probiotic characteristics and for its lengthy survival on olives, was used to validate table olives as a carrier for transporting bacterial cells into the human gastrointestinal tract. L. paracasei IMPC2.1 was recovered from fecal samples in four out of five volunteers fed 10 to 15 olives per day carrying about 10(9) to 10(10) viable cells for 10 days.
Market clearing price and equilibria of the progressive second price mechanism (2007)

The Progressive Second Price mechanism (PSP), recently introduced by Lazar and Semret to share an infinitely-divisible resource among users through pricing, has been shown to verify very interesting properties. Indeed, the incentive compatibility property of that scheme, and the convergence to an efficient resource allocation where established, using the framework of Game Theory. Therefore, that auction-based allocation and pricing scheme seems particularly well-suited to solve congestion problems in telecommunication networks, where the resource to share is the available bandwidth on a link. This paper aims at supplementing the existing results by highlighting some properties of the different equilibria that can be reached. We precisely characterize the possible outcomes of the PSP auction game in terms of players bid price: when the bid fee (cost of a bid update) tends to zero then the bid price of all users at equilibrium gets close to the so-called market clearing price of the resource. Therefore, observing an equilibrium of the PSP auction game gives some accurate information about the market clearing price of the resource.
PLACING AND SHRINKAGE AT EXTREME TEMPERATURES (1999)

The environmental conditions in many arid and semi-arid regions of the world significantly influence the properties of fresh and hardened concrete. The main problem posed by arid conditions is plastic shrinkage and cracking. This study was conducted to evaluate the effect of hot weather on the evaporation of surface water and plastic shrinkage cracking in concrete. The data developed in this study will be useful in formulating guidelines for concreting under environmental conditions not covered by ACI 305.
Cardenolide-Induced Lysosomal Membrane Permeabilization Demonstrates Therapeutic Benefits in Experimental Human Non-Small Cell Lung Cancers (2006)

Non-small cell lung cancers (NSCLCs) are the leading cause of cancer deaths in most developed countries. Targeting heat shock protein 70 (Hsp70) expression and function, together with the induction of lysosomal membrane permeabilization (LMP), could overcome the multiple anti-cell death mechanisms evidenced in NSCLCs that are responsible for the failure of currently used chemotherapeutic drugs. Because cardenolides bind to the sodium pump, they affect multiple signaling pathways and thus have a number of marked effects on tumor cell behavior. The aim of the present study was to characterize in vitro and in vivo the antitumor effects of a new cardenolide (UNBS1450) on experimental human NSCLCs. UNBS1450 is a potent source of in vivo antitumor activity in the case of paclitaxel-and oxaliplatin-resistant subcutaneous human NCI-H727 and orthotopic A549 xenografts in nude mice. In vitro UNBS1450-mediated antitumor activity results from the induction of nonapoptotic cell death. UNBS1450 mediates the decrease of Hsp70 at both mRNA and protein levels, and this is at least partly due to UNBS1450-induced downregulation of NFAT5/TonEBP (a factor responsible for the transcriptional control of Hsp70). These effects were paralleled by the induction of LMP, as evidenced by acridine orange staining and immunofluorescence analysis for cathepsin B accumulation.
Molecular cloning, mapping, and characterization of two novel human genes, ORCTL3 and ORCTL4, bearing homology to organic-cation transporters (1998)

Through a large-scale sequencing of genomic DNA at 3p22-->p21.3, we have isolated two human genes (ORCTL3 alias OCTL1 and ORCTL4 alias OCTL2) encoding novel members of the family of organic-cation transporter molecules. The predicted proteins revealed the highest similarities to recently- isolated organic-cation transporter proteins, rat OCT-1r, rat NLT and mouse NKT. The transcripts of both genes were expressed ubiquitously in various human tissues, but some tissue-specific transcripts were also observed in kidney, testis, or skeletal muscle. The two genes are clustered within a 52-kb region of genomic DNA and ORCTL4 lies about 27 kb telomeric to ORCTL3 in the genomic DNA sequence in a tail-to-head orientation.
The Influence of Wire Electrical Discharge Machining Cutting Parameters on the Surface Roughness and Flexural Strength of ZrO2/TiN Ceramic Nanocomposites Obtained by Spark Plasma Sintering (2019)

In this work, we characterized the mechanical and electrical properties of zirconia-based ceramic nanocomposites reinforced with 30 and 40 vol. % TiN and fabricated by spark plasma sintering. In addition to their improved mechanical performance, these compositions have sufficient electrical conductivity to allow wire electrical discharge machining (WEDM). The influence of WEDM variables on the roughness and the mechanical strength of samples was analyzed after each cut. The experimental results showed that the roughness of machined surfaces can be reduced by variations in WEDM manufacturing regimes, and, consequently, a drastic drop in flexural strength of workpieces can be avoided. Furthermore, the composites with higher content and homogeneous distribution of the conductive phase exhibited better surface quality as well.
Characteristics and Influence of Scattering Radiation in Cultural Heritage Radiography (2018)

(kVp) - (film-floor-distance: FFD) . ,
Biological function following radical photo-polymerization of biomedical polymers and surrounding tissues: Design considerations and cellular risk factors (2021)

Radical photo-cross-linking of polymers has been at the forefront in the development of biomedical applications to meet many of the biomaterial design criteria needed to address clinical and healthcare challenges, particularly in relation to regenerative and restorative medicine strategies, to treat damaged or diseased tissues and organs. Exciting new hybrid designs, elegantly expanding the range of properties and applications available to individual polymeric materials, are starting to offer detailed customization with complex and dynamic interactions similar to the events occurring within native tissue microenvironments in vivo. Yet the variety in success reported in the literature highlights the many unknown design criteria and parameters affecting functional restoration of damaged tissues and organs. The applied light curing units and radical initiating system, as well as underlying chemical reactions and resultant network structures, all require detailed consideration as means to modulate biological function while further being assessed as sources of toxicity. This is especially important when cells embedded in the polymeric material (or in surrounding tissues) are directly exposed to photo-irradiation. Ultimately, achieving successful clinical translation necessitates the chemical photo-polymerization platforms to be efficacious, safe, and customizable but also convenient for clinical use and cost-effective production. This review thus aims to summarize current and emerging toolkits to photo-polymerize biomedical polymers requiring the direct irradiation of cells and/or mammalian tissues and its associated impact on biological functionality. This specifically includes (1) in vitro photo-polymerization of cell-laden 3D-hydrogels for tissue engineering and regeneration medicine applications, (2) in vivo transdermal photo-polymerization of injectable hydrogels for cell/drug delivery, and (3) in vivo photo-polymerization of cell-free, injectable resin-based composites for load-bearing restorative surgery, all fast-growing and highly competitive fields of modern medicine. We herein summarize both design considerations and biological risk factors associated with selecting suitable light sources, photo-initiators, functional groups, chemical propagation, as well as how subsequent network properties can modulate biological function and ultimately clinical applicability. As more knowledge is continuously accumulated through materials science, matrix biology, and technology, this review provides recommendations for researchers to extend their chemical, biological, and structural characterizations to systematically enrich the paradigm of photo-polymerizable materials for biomedical applications to help ensure efficient and safe radical photo-processing.
Selective surface modifications with a scanning tunneling microscope (1997)

A combination scanning tunneling microscope (STM) and scanning electron microscope has been used to selectively pattern and image Si(111) and Si(001) surfaces in a SEM chamber. Both positive and negative STM tip polarities produce marks on the surface with linewidths as small as 20 nm. We have transferred these patterns to the silicon substrate via selective wet chemical etching. We demonstrate a well-defined voltage threshold for patterning at negative tip bias. The modifications are consistent with a model based on hydrogen depassivation and electric field mediated deposition. The physical mechanism for positive tip bias patterning is shown to be different than that for negative bias. At positive bias, the patterning is consistent with selective surface contamination.
Effects of the Chemical Compositions of Salars de Uyuni and Atacama Brines on Lithium Concentration during Evaporation (2014)

Abstract During L i recovery from salar brines, L i concentration is typically increased to about 60,000 mg L −1 by evaporation. We investigated the concentration changes of L i, N a, K , M g, C l, SO 4 , and B during evaporation of both natural U yuni and artificial Atacama brines. The U yuni brine exhibited a maximum L i concentration of 6810 mg L −1 at 31 days of evaporation, at which point the majority of the N a and K in the brine was removed. The L i concentration decreased with further evaporation due to precipitation as Li 2 SO 4 , such that the level at the 56 day mark was approximately 4130 mg L −1 . In contrast, the artificial Atacama brine showed no pronounced L i precipitation, even after 54 days, at which point the L i concentration was 21,800 mg L −1 . The initial concentrations of N a and K in the Atacama brine were higher than those in the U yuni brine, and the A tacama solution still retained K after 54 days of evaporation. The order of precipitation of cation species during the evaporation of both brines was: N a, followed by K , M g, and L i. Thus, L i precipitation in the Atacama brine might be prevented due to the more favored precipitations of N a and K , such that significant L i removal did not occur in this brine.
A new isolate of the nematophagous fungus Duddingtonia flagrans as biological control agent against free‐living larvae of horse strongyles (1999)

An experiment was carried out in 1997 to test the efficacy of an isolate of the microfungus Duddingtonia flagrans against free-living stages of horse strongyles under conditions in the field and to assess the eventual effect of the fungus on the normal degradation of faeces. Faecal pats were made from faeces of a naturally strongyle infected horse, which had been fed fungal material at a dose level of 106 fungal unit/kg bwt. Control pats without fungi were made from faeces collected from the same animal just before being fed fungi. Faecal cultures set up for both groups of faeces to monitor the activity of the fungus under laboratory conditions showed that the fungus significantly reduced the number of infective third-stage larvae (L3) by an average of 98.4%. Five faecal pats from each batch of faeces were deposited on pasture plots at 3 times during spring-summer. The herbage around each pat was sampled fortnightly to recover L3 transmitted from faeces. The results showed that the herbage infectivity around fungus-treated pats was reduced by 85.8-99.4%. The remaining faecal material at the end of each sampling period was collected, and the surviving L3 were extracted. Significantly fewer larvae were recovered from the fungus-treated pats. Analysis of wet and dry weight of the collected pats, as well as their organic matter content, were performed to compare the degradation of faeces of both groups. The results indicated that the presence of the fungus did not alter the degradation of the faeces.
Evidence for free monomeric thiometaphosphate anion in aqueous solution (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEvidence for free monomeric thiometaphosphate anion in aqueous solutionJ. Burgess, N. Blundell, Paul M. Cullis, C. D. Hubbard, and R. MisraCite this: J. Am. Chem. Soc. 1988, 110, 23, 7900–7901Publication Date (Print):November 1, 1988Publication History Published online1 May 2002Published inissue 1 November 1988https://pubs.acs.org/doi/10.1021/ja00231a064https://doi.org/10.1021/ja00231a064research-articleACS PublicationsRequest reuse permissionsArticle Views101Altmetric-Citations28LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Systematic encoders for convolutional codes and their application to turbo codes (2002)

Systematic recursive convolutional encoders have been shown to play a crucial role in the design and implementation of parallel concatenated codes ("turbo codes"). We present here a canonical structure of minimal linear systematic rate k/n encoders and use it in the search for good constituent codes of parallel concatenated codes. Tables of the best encoders for various rates are also presented.
Design of a low power time-gain-compensation amplifier for a 2D piezoelectric ultrasound transducer (2010)

In this paper, a programmable time-gain compensation amplifier dedicated to a 2D piezoelectric ultrasound transducer is presented. It uses an open-loop amplifier structure consisting of a voltage-to-current converter and a current-to-voltage converter. The circuit has been designed in a standard 0.35-μm CMOS process. Simulation and measurement results show that gains of 0dB, 12dB, 26dB and 40dB can be achieved for input signals centered at 6MHz with 80dB dynamic range (100μV to 1V). The measured gain errors at 6MHz are below 1dB for all gain settings. The amplifier consumes only 130μW when driving a 250fF load.