gebhart/patrepeval huggingface dataset:
Detection of Mutations by RNase Cleavage (1997)

Ribonucleases can specifically recognize and cleave RNA at the site of sequence mismatches in RNA-DNA or RNA-RNA hybrids. The cleavage products are then characterized by gel electrophoresis. In this unit, a procedure is presented for RNase cleavage of (32)P-labeled riboprobes (transcribed from a cloned copy of the normal sequence) that have been annealed to amplified sequences of a candidate gene or cDNA obtained from affected individuals. A Support Protocol explains how to prepare riboprobes from a genomic or cDNA template obtained from a nonmutant individual. An alternate protocol describes cleavage of RNARNA hybrids using a nonisotopic RNase cleavage mutation assay. Sequential PCR and in vitro transcription steps generate sufficient quantities of duplex RNA targets so that the cleavage products can be detected on a gel by ethidium bromide staining. The unit also discusses the use of alternative ribonucleases for cleaving singlebase mismatches.
The controlled logical clock--a global time for trace-based software monitoring of parallel applications in workstation clusters. (1997)

Copyright 1996 IEEE. Copies may not used in any way that implies IEEE endorsement of a product or service of an employer.
Numerical analysis for aerodynamic noise reduction (1998)

The purpose of the present study is to predict the aerodynamic noise (via numerical modeling) for variously shaped objects and, in particular, to investigate the noise by systematicall y varying the object's dimensions for each shape analyzed. An attempt is also made to establish an algorithm to reduce the amplitude of the aerodynamic noise using optimization techniques. A two-dimensiona l NavierStokes code has been developed. The aerodynamic noise is calculated using Curie's formula and the pressure calculated from the Navier-Stokes code. The calculated results are compared for different shapes in the time and frequency domains. Furthermore, a program has been developed to change automatically the shape of the object to reduce the aerodynamic noise. It consists of a two-dimensional Navier-Stokes code, a Curie's formula, a grid generator, and an optimization routine. The shape of the object's cross section is the adjustable parameter and the results obtained demonstrate that the algorithm can, indeed, reduce the amplitude of the aerodynamic noise.
Regulating transcriptional activity by phosphorylation: A new mechanism for the ARX homeodomain transcription factor (2018)

Aristaless-related homeobox (ARX) gene encodes a paired-type homeodomain transcription factor with critical roles in development. Here we identify that ARX protein is phosphorylated. Using mass spectrometry and in vitro kinase assays we identify phosphorylation at serines 37, 67 and 174. Through yeast-2-hybrid and CoIP we identified PICK1 (Protein interacting with C kinase 1) binding with the C-terminal region of ARX. PICK1 is a scaffold protein known to facilitate phosphorylation of protein partners by protein kinase C alpha (PRKCA). We confirm that ARX is phosphorylated by PRKCA and demonstrate phosphorylation at serine 174. We demonstrate that phosphorylation is required for correct transcriptional activity of the ARX protein using transcriptome-wide analysis of gene expression of phospho-null mutants (alanines replacing serines) compared to ARX wild-type (ARX-WT) overexpressed in pancreatic alpha TC cells. Compared to untransfected cells, ARX-WT overexpression significantly altered expression of 70 genes (Log2FC >+/-1.0, P-value <0.05). There were fewer genes with significantly altered expression compared to untransfected cells with the double phospho-null mutant Ser37Ala+Ser67Ala (26%) and Ser174Ala (39%), respectively. We demonstrate that the c-terminal region of ARX required to bind PICK1 causes a shift in PICK1 subcellular localisation to the nucleus to co-locate with the ARX protein, and truncation of this C-terminal region leads to the same loss of transcriptional activation as S174A mutant. In conclusion, we show that ARX is phosphorylated at several sites and that this modification affects its transcriptional activity.
Localization of hCAP-18 on the surface of chemoattractant-stimulated human granulocytes: analysis using two novel hCAP-18-specific monoclonal antibodies (2007)

The well-described antimicrobial and immunoregulatory properties of human cathelicidin antimicrobial protein 18 (hCAP-18) derive in part from the ability of its proteolytic fragment, LL-37 (a.k.a. CAP-37), to associate with activated immune and epithelial cells during inflammation. We now show a stable association between hCAP-18 and the cell surface of formyl-Met-Leu-Phe (fMLF)-stimulated neutrophils using two novel hCAP-18-specific mAb, H7 and N9, which recognize a single 16-kDa band, identified by N-terminal sequencing and mass spectrometry as hCAP-18. Phage display analysis of epitope-binding sites showed that both mAb probably recognize a similar five amino acid sequence near the C terminus of the prodomain. Immunoblot analysis of degranulated neutrophil supernatants resulted in mAb recognition of the 14-kDa prodomain of hCAP-18. Subcellular fractionation of unstimulated neutrophils on density gradients showed expected cosedimentation of hCAP-18 with specific granule lactoferrin (LF). fMLF stimulation resulted in an average 25% release of specific granule hCAP-18, with approximately 15% of the total cellular hCAP-18 recovered from culture media, and approximately 10% and approximately 75%, respectively, codistributing with plasma membrane alkaline phosphatase and specific granule LF. Surface association of hCAP-18 on fMLF-stimulated neutrophils was confirmed by immunofluorescence microscopy and flow cytometry analysis, which also suggested a significant up-regulation of surface hCAP-18 on cytochalasin B-pretreated, fully degranulated neutrophils. hCAP-18 surface association was labile to 10 mM NaOH treatment but resistant to 1 M NaCl and also partitioned into the detergent phase following Triton X-114 solubilization, possibly suggesting a stable association with one or more integral membrane proteins. We conclude that fMLF stimulation promotes redistribution of hCAP-18 to the surface of human neutrophils.
Association Between Healthy Eating Patterns and Risk of Cardiovascular Disease (2020)

In 3 large prospective cohorts with up to 32 years of follow-up, greater adherence to various healthy eating patterns was consistently associated with lower risk of CVD. These findings support the recommendations of the 2015-2020 Dietary Guidelines for Americans that multiple healthy eating patterns can be adapted to individual food traditions and preferences.
Hyperspectral Imaging and Raman Analyses of the Red Decoration of the St. Mauro Altar in St. Salvatore's Church (Pavia) (2023)

In the basilica of St. Salvatore, antependiums belonging to different phases of monument decoration are visible. The most valuable, the marble frontal of the high altar, dates to 1511 and is probably the only one from the first decorative phase of the church. The side altar frontals appear to be made of wood, embroidered damask, or other fabrics. They are partly related to the renovations the basilica underwent when it was reopened for worship in the early 20th century, except for this frontal in St. Mauro’s Chapel, which was plausibly made during the early 18th-century redecoration of the chapel itself. Because of its style and construction, it is assumed to belong to the Baroque decorative phase, referring to the date "1709" painted on the vault. This hypothesis is being verified by means of art-history research supported by the diagnostic study of the materials. The analyses, which are ongoing, were initially conducted on the red areas of the artefact, using portable Raman and visible reflectance spectroscopic techniques. Subsequently, measurements were taken with a hyperspectral camera, obtaining images highlighting the spatial distribution of the red pigments on the frontal.
Synthesis and Surface Expression of CD14 by Human Endothelial Cells (2001)

Previous studies have reported that human vascular endothelial cells lack the membrane-bound lipopolysaccharide (LPS) receptor, CD14 (mCD14). By optimizing assay conditions, including the selection of anti-CD14 monoclonal antibody, we now demonstrate that human umbilical vein endothelial cells (HUVEC) express CD14 on the cell surface. Single-passage HUVEC showed approximately 20 times less expression of CD14 than monocytes. Interestingly, there was significant loss of surface CD14 expression with increasing numbers of culture passages. Evidence for synthesis of CD14 by HUVEC was provided by the finding that L-[(35)S]methionine was incorporated into CD14. In addition, the expression of CD14 on HUVEC was upregulated by LPS, lysophosphatidic acid, and tissue culture supplements, and this upregulation was dependent on protein synthesis. Furthermore, the results imply that mCD14 is required for LPS-induced activation of endothelial cells in the absence of serum and that it acts in concert with serum factors (soluble CD14). Our results provide evidence that CD14 is expressed by endothelial cells and suggest that the previous inability to observe expression of this molecule has been due to culture and staining conditions. This finding has important implications for the understanding of the mechanisms by which LPS stimulates endothelial cells and the management of sepsis caused by gram-negative bacteria.
Proposed NIST standard for role-based access control (2001)

In this article we propose a standard for role-based access control (RBAC). Although RBAC models have received broad support as a generalized approach to access control, and are well recognized for their many advantages in performing large-scale authorization management, no single authoritative definition of RBAC exists today. This lack of a widely accepted model results in uncertainty and confusion about RBAC's utility and meaning. The standard proposed here seeks to resolve this situation by unifying ideas from a base of frequently referenced RBAC models, commercial products, and research prototypes. It is intended to serve as a foundation for product development, evaluation, and procurement specification. Although RBAC continues to evolve as users, researchers, and vendors gain experience with its application, we feel the features and components proposed in this standard represent a fundamental and stable set of mechanisms that may be enhanced by developers in further meeting the needs of their customers. As such, this document does not attempt to standardize RBAC features beyond those that have achieved acceptance in the commercial marketplace and research community, but instead focuses on defining a fundamental and stable set of RBAC components. This standard is organized into the RBAC Reference Model and the RBAC System and Administrative Functional Specification. The reference model defines the scope of features that comprise the standard and provides a consistent vocabulary in support of the specification. The RBAC System and Administrative Functional Specification defines functional requirements for administrative operations and queries for the creation, maintenance, and review of RBAC sets and relations, as well as for specifying system level functionality in support of session attribute management and an access control decision process.
Non-contact method for surface roughness measurement after machining (2012)

The paper deals with the measurement and identification of surfaces after machining in a non-contact manner. It presents a new modified measurement method and its implementation, the results of intensity distribution in the defocusing plane, their analysis and interpretation. The scanned intensity distribution at the defocusing plane gives information necessary to assess the second derivatives, and thus, surface functions which can be used to determine groove curvatures of the real surface morphology. The proposed method of measurement has proved to be very sensitive in evaluating the differences between surface finishing methods by which the measured surface standards (etalons) were machined. Two methods of machining were chosen: face grinding and planning. By comparing the roughness standard values Ra, there were obtained relationships between these values and the parameter of the characteristic frequency of vertical inequality being measured according to the presented method. A good correlation between the measured and surface standard values with the correlation coefficient taking a range of values from 0.8 to 1 was achieved.
Modeling the dynamics of carbon dioxide removal in the atmosphere (2014)

The temperature of Earth's surface is increasing over the past few years due to emission of global warming gases such as CO2, CH4 and NOx from industries, power plants, etc., leading to several adverse effects on human and his environment. Therefore, the question of their removal/reduction from the atmosphere is very important. In this paper, a nonlinear mathematical model to study the removal/reduction of carbon dioxide by using suitable absorbent (such as aqueous ammonia solution, amines, sodium hydroxide, etc.) near the source of emission and externally introducing liquid species in the atmosphere is presented. Dynamical properties of the model which include local and global stabilities for the equilibrium are analyzed carefully. Model analysis is performed by considering three physical situations i.e. when both absorbent and the liquid species are used, only absorbent is used and only liquid species is used. It is shown that the concentration of carbon dioxide decreases as the rate of introduction of absorbent in the absorber increases. It decreases further as the rate of introduction of liquid species. Thus, the concentration of carbon dioxide would be reduced by a large amount if adequate amount of absorbent is used near the source of emission. The remaining amount can be reduced further by infusing liquid drops in the atmosphere. Numerical simulations are also carried out to support the analytical results.
Two levels of semantics and irregular morphology in Thompson Salish clefts* (2012)

Based on original fieldwork data, this paper examines previously undescribed irregularity in agreement marking in Thompson Salish clefts. Agreement morphology in cleft remnant clauses may either match with a clefted 1st or 2nd person focus, or may employ a default 3rd person morpheme. This optionality is evident for both verb agreement and bound possessor variables. I suggest that this optionality results from competition between two levels of semantics: expressing the ordinary semantic denotation results in multiple exponence, while expressing the focus semantic denotation results in default 3rd person morphology in cleft remnants. Multiple exponence, however, is limited to person agreement – there are no similar connectivity effects between cleft head and remnant for case marking or binding. Implications for the interface of morphology are discussed. The study shows that morphological irregularity can arise when two levels of semantics compete for expression in a single phonological output.
Infrared study of isolated hydroxyl groups on silica surfaces (1975)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTInfrared study of isolated hydroxyl groups on silica surfacesP. R. Ryason and B. G. RussellCite this: J. Phys. Chem. 1975, 79, 13, 1276–1279Publication Date (Print):June 1, 1975Publication History Published online1 May 2002Published inissue 1 June 1975https://pubs.acs.org/doi/10.1021/j100580a010https://doi.org/10.1021/j100580a010research-articleACS PublicationsRequest reuse permissionsArticle Views191Altmetric-Citations39LEARN 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
Rat mitochondrial and cytosolic 3-hydroxy-3-methylglutaryl-CoA synthases are encoded by two different genes. (1990)

We report the isolation and characterization of a 1994-base-pair cDNA that encompasses the entire transcription unit of the mitochondrial 3-hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) synthase (EC 4.1.3.5.) gene from rat. Analysis of the nucleotide sequence reveals that the cDNA encodes a polypeptide of 508 residues and 56,918-Da molecular mass. Identify of the cDNA clone isolated as mitochondrial HMG-CoA synthase was confirmed by the following criteria: (i) Amino acid residues are 65% homologous with hamster cytosolic HMG-CoA synthase. (ii) A 19-amino acid sequence probably corresponding to the catalytic site is highly homologous (90%) to that reported for chicken liver mitochondrial HMG-CoA synthase. (iii) The expression product of the cDNA in Escherichia coli has HMG-CoA synthase activity. (iv) The protein includes a sequence of 37 amino acid residues at the N terminus that is not present in the cytosolic enzyme. The predominantly basic, hydrophobic, and hydroxylated nature of the residues of this sequence suggests that it is a leader peptide to target HMG-CoA synthase inside mitochondria. These data plus the hybridization pattern in genomic Southern blot analysis, the different transcript size (2.0 kilobases versus 3.4 kilobases for the cytosolic enzyme), and the different expression pattern shown in RNA blot experiments suggest the presence of two HMG-CoA synthase genes, one for the cytosolic and another for the mitochondrial enzyme.
Olfactory Neuroblastoma: Fate of the Neck—A Long‐term Multicenter Retrospective Study (2014)

Objectives: Determine the incidence and factors influencing neck disease, at presentation and delayed, in patients with olfactory neuroblastoma. Methods: Patients with a histological diagnosis of olfactory neuroblastoma that were treated across 6 tertiary hospitals were included. Treatment modalities to primary site and neck included radiotherapy, surgery, and combinations. The status of cervical lymph node metastases at presentation and at last follow‐up was defined. Disease‐free survival (DFS) was calculated as time taken for patients to develop delayed neck disease following primary treatment of olfactory neuroblastoma. Pearson correlation, regression analysis, and Kaplan Meier plots were performed to identify risk factors for developing cervical neck metastases. Results: A total of 113 patients (46 females, 49.7 ± 13.2 years) with median follow‐up of 41.5 months (interquartile range, 58.2 months) were identified. Of the patients, 7.1% presented with primary neck disease while 8.8% of patients presented with delayed neck disease. Neck disease, both primary and delayed, was present in patients with Hyams grade II (22.2%), III (55.6%), and IV (22.2%) lesions (χ 2 2 5.66, P =. 13). Histologic grade was higher in patients with primary neck disease (χ 2 2 16.22, P =. 001). Positive surgical margins were associated with a higher risk of delayed neck disease compared with clear surgical margin (17.9% vs 5%, P =. 034). Five‐ and 10‐year disease‐free survival for regional neck disease was 92.4% (SE: 2.8%) and 79.6% (SE: 9.0%), respectively. Conclusions: Neck metastasis is an important clinical consideration for olfactory neuroblastoma both at presentation and in surveillance. Primary treatment of the neck could be considered in select patients.
Sex hormones and hypertension (2002)

Gender has an important influence on blood pressure, with premenopausal women having a lower arterial blood pressure than age-matched men. Compared with premenopausal women, postmenopausal women have higher blood pressures, suggesting that ovarian hormones may modulate blood pressure. However, whether sex hormones are responsible for the observed gender-associated differences in arterial blood pressure and whether ovarian hormones account for differences in blood pressure in premenopausal versus postmenopausal women remains unclear. In this review, we provide a discussion of the potential blood pressure regulating effects of female and male sex hormones, as well as the cellular, biochemical and molecular mechanisms by which sex hormones may modify the effects of hypertension on the cardiovascular system.
Electronic and Photonic Circuits and Devices (1998)

Electronic and Photonic Circuits and Devices brings you a valuable overview of both the current practice of circuits and devices as well as the latest design trend toward photonics technology. In one convenient source, these selected papers reprinted from the IEEE Circuits and Devices Magazine present the important concepts behind future devices and the likely direction of optoelectronics in the next twenty-five years. Organized around a key paper by Anthony DeMaria, Electronic and Photonic Circuits and Devices offers you a clear presentation of how research and design in this field is moving from the current use of wholly electronic circuits and devices toward a future of exclusively optical applications. You will also learn the fundamentals of new optical manufacturing and optical systems. Electronic and Photonic Circuits and Devices is essential reading for graduate students and engineers who want to gain a strong background for understanding future developments in this dynamic area
Strawberry cultivars for Oregon (2008)

Published March 2008. A more recent revision exists. Facts and recommendations in this publication may no longer be valid. Please look for up-to-date information in the OSU Extension Catalog: http://extension.oregonstate.edu/catalog
Computational approaches for improving the performance of path tracking controllers for mobile robots (2015)

Performance of path tracking controllers for mobile robots is usually constrained to the tuning of a set of gains within previously known boundaries. In industrial applications, controller tuning is a time consuming task, which is especially critical when the gain values have a considerable impact on the use of the robot's energy resources. In this paper, we propose a set of approaches to automatically improve the performance of well-known path tracking controllers used for agricultural applications of automated agricultural machinery. The effect of the proposed strategy can be better appreciated during the transient response of the robot when it has to maneuver along a non-kinematically compatible path. The results presented in this work show that the robot's path tracking performance is improved up to 15% using the proposed approaches.
Level-specific lithography optimization for 1-Gb DRAM (2000)

A general level-specific lithography optimization methodology is applied to the critical levels of a 1-Gb DRAM design at 175- and 150-nm ground rules. This three-step methodology-ruling out inapplicable approaches by physical principles, selecting promising techniques by simulation, and determining actual process window by experimentation-is based on process latitude quantification using the total window metric. The optimal lithography strategy is pattern specific, depending on the illumination configuration, pattern shape and size, mask technology, mask tone, and photoresist characteristics. These large numbers of lithography possibilities are efficiently evaluated by an accurate photoresist development bias model. Resolution enhancement techniques such as phase-shifting masks, annular illumination and optical proximity correction are essential in enlarging the inadequate process latitude of conventional lithography.