gebhart/patrepeval huggingface dataset:
Regional Registration of Whole Slide Image Stacks Containing Highly Deformed Artefacts (2020)

Abstract Background: High resolution 2D whole slide imaging provides rich information about the tissue structure. This information can be a lot richer if these 2D images can be stacked into a 3D tissue volume. A 3D analysis, however, requires accurate reconstruction of the tissue volume from the 2D image stack. This task is not trivial due to the distortions that each individual tissue slice experiences while cutting and mounting the tissue on the glass slide. Performing registration for the whole tissue slices may be adversely affected by the deformed tissue regions. Consequently, regional registration is found to be more effective. In this paper, we propose an accurate and robust regional registration algorithm for whole slide images which incrementally focuses registration on the area around the region of interest. Results: Using mean similarity index as the metric, the proposed algorithm (mean +- std: 0.84 +- 0.11) followed by a fine registration algorithm (0.86 +- 0.08) outperformed the state-of-the-art linear whole tissue registration algorithm (0.74 +- 0.19) and the regional version of this algorithm (0.81 +- 0.15). The proposed algorithm also outperforms the state-of-the-art nonlinear registration algorithm (original: 0.82 +- 0.12, regional: 0.77 +- 0.22) for whole slide images and a recently proposed patch-based registration algorithm (patch size 256: 0.79 +- 0.16 , patch size 512: 0.77 +- 0.16) for medical images. Conclusion: The proposed algorithm is a more robust and accurate solution to the problem of regional registration of whole slide images in existence of highly deformed regions in the imaged tissue.
The estrogen antagonist ICI-182-780 does not inhibit the transformation phenotypes induced by 17-β-estradiol and 4-OH estradiol in human breast epithelial cells (2005)

Prolonged unopposed estrogen exposure is a widely accepted risk factor in breast cancer development. However, the mechanisms through which estrogens induce breast carcinogenesis have not been definitively unraveled. For testing whether estrogens exert their transforming effects through a non-receptor-mediated mechanism, we have treated the spontaneously immortalized human breast epithelial cells MCF-10F, which are estrogen receptor alpha negative, with 17-beta estradiol (E(2)) or its metabolite 4-OH-estradiol (4-OH-E(2)), each one either alone or in combination with the antiestrogen ICI-182-780. Treated cells were maintained for several passages in culture and evaluated for colony formation in agar-methocel (CE), tri-dimensional growth in collagen matrix, invasiveness in matrigel, and cell cycle analysis by flow cytometry. Both E(2) and 4-HO-E(2), at all the doses tested, in the presence or absence of ICI-182-780, increased CE and decreased the cells' ductulogenic capacity. They also increased the invasiveness and the number of cells in the S phase of the cell cycle. Our data clearly demonstrate that E(2) and 4-OH-E(2) increase cell proliferation and induce transformation in MCF-10F cells, phenomena that are not abrogated by ICI-182-780. The failure of the antiestrogen to abrogate the transformation phenotypes led us to hypothesize that estrogen-induced transformation is occurring by a non-estrogen receptor alpha-mediated process, more probably through the genotoxic effect of the estrogen metabolite 4-HO-E(2).
Visualization of Spin Polarized States in Biologically-Produced Ensembles of Ferromagnetic Palladium Nanoparticles (2012)

We report visualization of spin polarized states in macroscopic ensembles of biologically-produced ferromagnetic palladium nanoparticles using the Faraday effect-based technique of magneto-optical imaging. The ferromagnetic palladium only exists in the form of nanoparticles. Large quantities of palladium nanoparticles may be synthesized via biomineralization from a Pd2+ solution. The ferromagnetic Pd nanoparticles are formed in the periplasmic space of bacteria during the hydrogen-assisted reduction of Pd2+ ions by hydrogenases. The ferromagnetism in Pd comes from itinerant electrons. A high Curie temperature of ferromagnetic palladium, about 200 degrees centigrade above room temperature, would allow for a range of room-temperature magnetic applications. The processes of the isolation of electron spins in separate nanoparticles, spin hopping, spin transport and spin correlations may even form a basis of quantum computing. So far, measurements of the magnetic properties of Pd nanoparticles (PdNP) have been limited by integral techniques such as SQUID magnetometry, magnetic circular dihroism and muon spin rotation spectroscopy (SR). In the present study, ferromagnetic Pd nanoparticles are characterized using the technique of magneto-optical imaging. This allows visualization of the spin polarization by the variations in the intensity of polarized light. To perform measurements at relatively low magnetic fields, a spin injection from a colossal magnetoresistive material has been used.
PROTECTIVE EFFECT OF TWO DIFFERENT REMINERALIZING AGENTS ON ARTIFICIALLY INDUCED DENTAL EROSION IN PRIMARY AND PERMANENT TEETH: AN IN-VITRO ANALYSIS (2017)

The main purpose of this in vitro study was to assess the effect of Chicken Egg Shell Powder (CESP) solution on demineralized enamel surfaces, as well as to compare its effect with those of commercially available Sensodyne Pronamel. Twenty extracted human permanent pre-molars and 20 deciduous molars specimens were cleaned and sectioned longitudinally resulting in 80 samples.40 enamel sections obtained from permanent pre-molars and 40 from primary molars were assigned to the following four groups. Group A: demineralization by soft cola drink, Group B: demineralization by soft cola drink followed by direct application of Sensodyne Pronamel twice a day for a period of 7 days, Group C: demineralization by soft cola drink followed by 7 days’ immersion in CESP, Group D: untreated. The two treatments provided could increase the surface micro hardness values, Calcium and Phosphorous weight percentages in both the permanent and primary teeth. Both CESP (Group C) and Sensodyne Pronamel (Group B) exhibit significantly higher protective anti-erosive effects (p<0.05) but effects of Sensodyne Pronamel was significantly higher than CESP. CESP significantly (p<0.05) increases the micro hardness as well as calcium and phosphorous level of all treated tooth samples. This study demonstrated that both CESP and Sensodyne Pronamel can protect the tooth surface by preventing its erosive enamel loss and enhancing remineralization.
A One-Pot Tandem Olefin Isomerization/Metathesis-Coupling (ISOMET) Reaction (2014)

A tandem catalytic reaction has been developed as part of a process to discover tungsten-based olefin metathesis catalysts that have a strong preference for terminal olefins over cis or trans internal isomers in olefin metathesis. This tandem isomerization/terminal olefin metathesis reaction (ISOMET) converts Cn trans internal olefins into C2n–2 cis olefins and ethylene. This reaction is made possible with Ru-based “alkene zipper” catalysts, which selectively isomerize trans olefins to an equilibrium mixture of trans and terminal olefins, plus tungsten-based metathesis catalysts that react relatively selectively with terminal olefins to give Z homocoupled products. The most effective catalysts are W(NAr)(C3H6)(pyr)(OHIPT) (Ar = 2,6-diisopropylphenyl; pyr = pyrrolide; OHIPT = O-2,6-(2,4,6-i-Pr3C6H2)2C6H3) and various [CpRu(P–N)(MeCN)]X (X– = [B(3,5-(CF3)2C6H3)4]–, PF6–, B(C6F5)4–) isomerization catalysts.
Modeling User Behavior by Integrating AQ Learning with a Database: Initial Results (2002)

The paper describes recent results from developing and testing LUS methodology for user modeling. LUS employs AQ learning for automatically creating user models from datasets representing activities of computer users. The datasets are stored in a relational database and employed in the learning process through an SQL-style command that automatically executes the AQ20 rule learning program and generates user models. The models are in the form of attributional rulesets that are more expressive than conventional decision rules, and are easy to interpret and understand. Early experimental results from the testing of the LUS method gave highly encouraging results.
Ethenol is a common combustion intermediate in hydrocarbon flames. (2005)

In 2019, the World Health Organization (WHO) and the Pan-American Health Organization (PAHO) recognized Mexico as a country free of human rabies transmitted by dogs. Nevertheless, the sylvatic cycle remains as a public health concern in the country. Although cougars (<i>Puma concolor</i>) are not reservoirs of any rabies virus variant (RVV), these felines could act as vectors at the top of the food chain, and their relationships with other organisms must be considered important for the regulatory effect on their prey's populations. In this study, genetic and antigenic characterization was performed on all cougar rabies cases diagnosed at the Rabies Laboratory Network of the Ministry of Health (RLNMH) in Mexico from 2000 to 2021. Samples from other species, a skunk, a horse (<i>Equus caballus</i>) (attacked by a cougar), and a gray fox (<i>Urocyon cineroargenteus</i>), were included as reference. Rabies cases in cougars were restricted to two Northern states of Mexico (Sonora and Chihuahua). Five out of six samples of cougars were RVV7 (Arizona gray fox RVV) and one from Sonora was RVV1. Interestingly, there is no evidence of RVV1 in dogs in the Northern states since the 1990s but skunk species now harbor this RVV1 in this region of the country.
Surface-Wave Acousto-Optic Signal Processors (1980)

A number of signal-processing devices have been developed that use the Bragg interaction between laser beams and surface acoustic waves in transparent delay lines. Convolvers and correlators having time-bandwidth products of up to 10,000 have been constructed and have been used to obtain signal-to-noise enhancement of signals buried in noise. A real-time, continuous Fourier transformer has been achieved. Initial results have been obtained in performing a discrete Fourier transform using an acoustooptic implementation of the triple-product convolver. A programmable memory correlator based on the acousto-photorefractive effect has been demonstrated using two distinct writing modes and writing-laser wavelengths.
The Mechanical Properties of Hydroxypropylmethylcellulose Films Derived from Aqueous Systems Part 1: The Influence of Plasticisers (1981)

The aim of this work is to examine the effects that certain plasticisers have on the properties of aqueous based hydroxypropylmethylcellulose (HPMC) films of a type used for film coating tablets, and to investigate whether or not the inclusion of these additives is in fact beneficial in all cases.The film former HPMC is being used increasingly as a coating for pharmaceutical tablets because of its suitable properties, not least of which is the ability to coat using a fully aqueous system. This greatly improves the method and safety of application.
Disk system architectures for high performance computing (1989)

Following a brief review of the fundamentals of disk system architecture, the characteristics of the applications that demand high I/O system performance are described. Conventional ways to improve disk performance are discussed. New developments in disk array systems are introduced, and controller architectures are described.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Research on Multi-source Data Security Protection of Smart Grid Based on Quantum Key Combination (2019)

Power communication network is an important infrastructure of power system. For a large number of widely distributed business terminals and communication terminals. The data protection is related to the safe and stable operation of the whole power grid. How to solve the problem that lots of nodes need a large number of keys and avoid the situation that these nodes cannot exchange information safely because of the lack of keys. In order to solve the problem, this paper proposed a segmentation and combination technology based on quantum key to extend the limited key. The basic idea was to obtain a division scheme according to different conditions, and divide a key into several different sub-keys, and then combine these key segments to generate new keys and distribute them to different terminals in the system. Sufficient keys were beneficial to key updating, and could effectively enhance the ability of communication system to resist damage and intrusion. Through the analysis and calculation, the validity of this method in the use of limited quantum keys to achieve the business data secure transmission of a large number of terminal was further verified.
X-Ray Analysis of Mesoscopic Twin Structures (1996)

This review summarizes recent progress in the use of X-ray diffraction for microstructural investigations. Advances in both detector architecture and computational power have led to the development of powerful yet relatively straight forward methods of analysis. Several case studies are presented.
Pushing the envelope: Beyond two billion IP routing lookups per second on commodity CPUs (2017)

Over the past two decades, implementing routing lookups in dedicated hardware has been accepted as an undisputable gold standard in core Internet routers due to ever increasing performance requirements and unabated global routing table growth. Several recent proposals depart from that line of thinking and suggest that software algorithms running on commodity multi-core CPUs might (again) become well suited for the task. In this article we describe a refined implementation of the DXR routing lookup scheme and subject it to a series of synthetic tests using BGP table snapshots from major Internet exchange points. Our measurements show that the algorithm scales nearly linearly on contemporary multi-core microprocessors, while the achieved peak aggregate throughput of almost 2.5 billion lookups per second presents an over a threefold increase over previously published results. Our experiments show that the aggregate throughput of a software routing lookup algorithm running on a modern commodity microprocessor can outperform a state-of-the-art ASIC chip by more than an order of magnitude, with reasonable expectations that this gap could easily double on the emerging 32- and 36-thread commodity CPUs.
Single-Event Effects in CMOS Image Sensors (2013)

In this paper, 3T active pixel sensors (APS) are exposed to heavy ions (N, Ar, Kr, Xe), and single-event effects (SEE) are studied. Devices were fully functional during exposure, no single-event latch-up (SEL) or single-event functional interrupt (SEFI) happened. However, single-event transient (SET) effects happened on frames: line disturbances, and half or full circular clusters of white pixels. The collection of charges in cluster was investigated with arrays of two pixel width (7 and 10 μm), with bulk and epitaxial substrates. This paper shows technological and design parameters involved in the transient events. It also shows that STARDUST simulation software can predict cluster obtained for bulk substrate devices. However, the discrepancies in epitaxial layer devices are large-which shows the need for an improved model.
Behavioral response to sex pheromone-component blends in the mating disruption-resistant strain of the smaller tea tortrix, Adoxophyes honmai Yasuda (Lepidoptera: Tortricidae), and its mode of inheritance (2007)

The first example of resistance to a mating disruptant was reported in the smaller tea tortrix moth, Adoxophyes honmai. The active ingredient in the disruptant was (Z)-11-tetradecenyl acetate (Z11-14:OAc), which is one component of the sex pheromone of A. honmai. From a resistant colony in the field, a strain highly resistant to mating disruption was established through further selection imposed in the laboratory by rearing in the presence of Z11-14:OAc. With this resistant (R) strain, we investigated the response of males to mixtures of synthetic pheromone components in the present study. Males of the R strain were less attracted to a low concentration of the pheromone than non-resistant (S) males. However, the R males were attracted to lures with extremely deviated ratios of the pheromone components: 72% of them even responded to the mixture lacking Z11-14:OAc, which is indispensable for response behavior of the S males. Some F1 males of crosses between S and R (13–15%) and male progeny in both reciprocal backcrosses to R (29–38%) were also attracted to the mixture without Z11-14:OAc. The results of these crossing experiments could be seen corresponding with the expected pattern in a single-autosomal-locus model for inheritance of the ability to respond to a defective pheromone blend.
Historical Perspective of the Journal of Chemical & Engineering Data’s Published Topics, 1956–2020 (2021)

ADVERTISEMENT RETURN TO ISSUEEditorialNEXTHistorical Perspective of the Journal of Chemical& Engineering Data's Published Topics, 1956–2020Ramesh L. GardasRamesh L. GardasMore by Ramesh L. Gardashttp://orcid.org/0000-0002-6185-5825, David A. KofkeDavid A. KofkeMore by David A. Kofkehttp://orcid.org/0000-0002-2530-8816, Ronny PiniRonny PiniMore by Ronny Pinihttp://orcid.org/0000-0002-9443-3573, Gabriele SadowskiGabriele SadowskiMore by Gabriele Sadowskihttp://orcid.org/0000-0002-5038-9152, Cara E. SchwarzCara E. SchwarzMore by Cara E. Schwarzhttp://orcid.org/0000-0001-5513-2105, J. Ilja SiepmannJ. Ilja SiepmannMore by J. Ilja Siepmannhttp://orcid.org/0000-0003-2534-4507, and Jiangtao WuJiangtao WuMore by Jiangtao Wuhttp://orcid.org/0000-0003-1123-4307Cite this: J. Chem. Eng. Data 2021, 66, 4, 1555–1556Publication Date (Web):April 8, 2021Publication History Published online8 April 2021Published inissue 8 April 2021https://pubs.acs.org/doi/10.1021/acs.jced.1c00193https://doi.org/10.1021/acs.jced.1c00193editorialACS PublicationsCopyright © 2021 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views1074Altmetric-Citations1LEARN 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 PDF (1 MB) Get e-AlertscloseSUBJECTS:Binary mixtures,Biological databases,Chemical engineering and industrial chemistry,Cluster chemistry,Electrolytes Get e-Alerts
Development of a CRISPR/Cas9-Based Tool for Gene Deletion in Issatchenkia orientalis (2019)

The nonconventional yeast <i>Issatchenkia orientalis</i> has emerged as a potential platform microorganism for production of organic acids due to its ability to grow robustly under highly acidic conditions. However, lack of efficient genetic tools remains a major bottleneck in metabolic engineering of this organism. Here we report that the autonomously replicating sequence (ARS) from <i>Saccharomyces cerevisiae</i> (ScARS) was functional for plasmid replication in <i>I. orientalis</i>, and the resulting episomal plasmid enabled efficient genome editing by the CRISPR/Cas9 system. The optimized CRISPR/Cas9-based system employed a fusion <i>RPR1</i>'<i>-tRNA</i> promoter for single guide RNA (sgRNA) expression and could attain greater than 97% gene disruption efficiency for various gene targets. Additionally, we demonstrated multiplexed gene deletion with disruption efficiencies of 90% and 47% for double gene and triple gene knockouts, respectively. This genome editing tool can be used for rapid strain development and metabolic engineering of this organism for production of biofuels and chemicals.<b>IMPORTANCE</b> Microbial production of fuels and chemicals from renewable and readily available biomass is a sustainable and economically attractive alternative to petroleum-based production. Because of its unusual tolerance to highly acidic conditions, <i>I. orientalis</i> is a promising potential candidate for the manufacture of valued organic acids. Nevertheless, reliable and efficient genetic engineering tools in <i>I. orientalis</i> are limited. The results outlined in this paper describe a stable episomal ARS-containing plasmid and the first CRISPR/Cas9-based system for gene disruptions in <i>I. orientalis</i>, paving the way for applying genome engineering and metabolic engineering strategies and tools in this microorganism for production of fuels and chemicals.
On‐column digestion of proteins in aqueous‐organic solvents (2003)

Abstract Proteolytic digestion is an important step in protein identification by peptide mass mapping and tandem mass spectrometry (MS/MS)‐based peptide sequencing. Traditional methods of protein digestion require extended incubation times and have difficulty with proteolytically resistant proteins. Here, we describe a method in which a protein solution was combined with a mixed aqueous‐organic solution (methanol, isopropanol, or acetonitrile) and passed through a microcolumn containing immobilized trypsin. Myoglobin sequence coverage was high (&gt;85%) in all three solvents, and differences in spectra were seen among the different solution conditions. Notably, methanol‐based digestions produced fewer missed cleavages while acetonitrile‐based digestions produced the most peptides and the most intense mass spectra. Flow rates through the column were varied from 0.5 to 15 μL/min, corresponding to column residence times of 78 and 2.6 s, respectively. All flow rates produced high sequence coverage of myoglobin, although, at higher flow rates, more missed cleavages were observed. No significant increase in undigested myoglobin was observed with flow rates up to 15 μL/min. The described method was applied to the digestion of human transferrin (hTf), a proteolytically resistant protein. Matrix‐assisted laser desorption/ionization time‐of‐flight mass spectrometric (MALDI‐TOFMS) analysis detected 42 peptides covering 46% of the hTf sequence. The traditional aqueous method resulted in 12 peptides (8% sequence coverage) only when high concentrations of trypsin were used. Lastly, digestion of low nanomolar myoglobin was shown to produce detectable peptides and resulted in a correct database hit. Thus, we demonstrate a method that is capable of rapid on‐line digestion, thereby lending itself to high‐throughput identification of proteins. Copyright © 2003 John Wiley &amp; Sons, Ltd.