gebhart/patrepeval huggingface dataset:
Architecture of the WHOIS++ service (1995)

This document describes WHOIS++, an extension to the trivial WHOIS service described in RFC 954 to permit WHOIS-like servers to make available more structured information to the Internet. We describe an extension to the simple WHOIS data model and query protocol and a companion extensible, distributed indexing service. A number of options have also been added such as the use of multiple languages and character sets, more advanced search expressions, structured data and a number of other useful features. An optional authentication mechanism for protecting all or part of the associated WHOIS++ information database from unauthorized access is also described.
vUML: a tool for verifying UML models (2003)

The Unified Modelling Language (UML) is a standardised notation for describing object oriented software designs. We present vUML, a tool that automatically verifies UML models where the behaviour of the objects is described using UML Statecharts diagrams. The tool uses the SPIN model checker to perform the verification, but the user does not have to know how to use SPIN or the PROMELA language. If an error is found during the verification, the tool creates a UML sequence diagram showing how to reproduce the error in the model.
Comparison of solid media for cultivation of anaerobes. (1990)

Two commercial agar media for the cultivation of anaerobes were compared with four other media for their ability to support the growth of a wide range of anaerobes from clinical specimens of subgingival plaque. Fastidious anaerobe agar (FAA, Lab M) and anaerobe agar (GAA, Gibco) allowed better growth of the pure cultures than the other media. FAA recovered the highest numbers of bacteria from subgingival plaque specimens which were composed predominantly of anaerobes. GAA performed poorly with these samples. It is concluded that FAA seemed to be superior to the other media tested for the cultivation and recovery of anaerobes.
Three-Dimensional Radiative Effects in the Compression of Ultra-Short Electron Micro-Bunches (2021)

Micro-bunched current profiles have recently gained traction as an alternative to bulk compression in certain free-electron laser applications. The attraction of the micro-bunched structure is owed in part to its promise to minimize deleterious effects associated with coherent synchrotron radiation during compression. Simultaneously, these profiles push the boundaries of traditional one-dimensional CSR simulation models which assume the bunch length to far exceed the transverse beam size in the bunch rest frame - an assumption which may be violated by the sub-micron length micro-bunches. Here we present simulation studies of the impact of three-dimensional CSR effects on micro-bunching based compression schemes using the General Particle Tracer code.
Small Animal Imaging in Development of New Generation Diagnostic and Therapeutic Agents (2012)

Imaging technologies form an inseparable part of molecular medicine and is a major research focus globally. Imaging of potential therapeutic or diagnostic agents in animal models in the early stage of research is an important step towards pre-clinical and clinical trials in humans. The resent achievements in molecular biology, virology and nanotechnology provide a totally new approaches to deliver therapeutic agents to the patient starting from conventional small molecules to virus based gene therapy. This creates a need for better tools for the pharmaceutical research. Small animal imaging provides excellent method for development of new generation diagnostic and therapeutic agents.
Cotton fabric surface modification for improved UV radiation protection using sol–gel process (2007)

Abstract In this study, lightweight 100% cotton fabric was successfully modified by the sol–gel process to impart high ultraviolet radiation (UVR) scattering property to the fabric surface. Active ingredients were tetraethyl orthotitanate [Ti(OCH 2 CH 3 ) 4 ] and tetraethyl orthosilicate [Si(OCH 2 CH 3 ) 4 ]. The cotton fabric was padded with the nanosol solution, dried at 60°C, and cured at 150°C. Scanning electron microscopy showed continuous and uniform film on the fiber surface. Excellent UVR scattering was obtained with all treated fabrics. Increasing titania content in the nanosol solution leads to increased UVR protection. This is attributed to the increase of the refractive index of the film formed on the fabric surface. Excellent durability of the treatment was obtained, which indicates a good adhesion between the coating and the fabric surface. © 2007 Wiley Periodicals, Inc. J Appl Polym Sci 104: 111–117, 2007.
Commentary on the statistical properties of noise and its implication on general linear models in functional near-infrared spectroscopy (2016)

Functional near-infrared spectroscopy (fNIRS) is a noninvasive neuroimaging technique that uses low levels of light to measure changes in cerebral blood oxygenation levels. In the majority of NIRS functional brain studies, analysis of this data is based on a statistical comparison of hemodynamic levels between a baseline and task or between multiple task conditions by means of a linear regression model: the so-called general linear model. Although these methods are similar to their implementation in other fields, particularly for functional magnetic resonance imaging, the specific application of these methods in fNIRS research differs in several key ways related to the sources of noise and artifacts unique to fNIRS. In this brief communication, we discuss the application of linear regression models in fNIRS and the modifications needed to generalize these models in order to deal with structured (colored) noise due to systemic physiology and noise heteroscedasticity due to motion artifacts. The objective of this work is to present an overview of these noise properties in the context of the linear model as it applies to fNIRS data. This work is aimed at explaining these mathematical issues to the general fNIRS experimental researcher but is not intended to be a complete mathematical treatment of these concepts.
Thromboprophylaxis for children hospitalized with COVID‐19 and MIS‐C (2022)

Our experience of using clinically directed thromboprophylaxis with tailored intensity approach for children hospitalized with COVID-19 and MIS-C favors its inclusion in current standard of care. The role of D-dimer in directing thromboprophylaxis management deserves further evaluation.
Interaction of peptides with graphene oxide and its application for real-time monitoring of protease activity (2010)

We have developed a novel graphene-based biosensing platform using peptides as probe biomolecules, and demonstrated its feasibility in the application of real-time monitoring of protease activity based on FRET between GO and dye-labeled peptides. This assay allows the rapid and accurate determination of enzyme kinetic parameters as well as inhibition constants.
Microcantilever-based current balance for precise measurement of the photon force (2023)

We present a method for the quantitative determination of the photon force (PF)-the force generated by the radiation pressure of photons reflected from the surface. We propose an experimental setup integrating innovative microelectromechanical system (MEMS) optimized for the detection of photon force (pfMEMS). An active microcantilever was used as the force detector, while the measurement was conducted in a closed-loop setup with electromagnetic force compensation. In opposition to our previous works, this measurement method provides quantitative not qualitative assessment of PF interaction. Final current-balance setup is suitable for light sources from tens of microwatts to few watts. In our article, we present the results of the performed experiments, in which we measured the PF interactions in the range up to 67.5 pN with resolution of 30 fN in the static measurement.
An Overview of Horizontal Well Completions in the Haynesville Shale (2010)

Abstract A steep learning curve has evolved in drilling and completing horizontal wells in the Haynesville shale. The challenge is to understand the production mechanism of the Haynesville and how completion practices in relation to lateral lengths, stages, and stimulation treatments relate with production. This paper gives an overview of the Haynesville horizontal well production, the dominant factors which effect production, and a detailed analysis of the completions. Dominant factors which effect production in the Haynesville shale can be broken into four categories: geology/petrophysics/geomechanics, landing and placement of the lateral, completions, and production control. Integrating all four categories together is critical to characterize well performance and optimize future production; however, this paper focuses primarily on the completions. Self-organizing maps (SOMs) of 49 wells in the Strait area of the Haynesville shale reveal that high producing wells have been treated primarily with slickwater, high fluid and proppant volumes, moderate amounts of 100-mesh sand, and moderate pump rates per perforation. These wells are typically located in cluster spacing of about 75 ft and have stage lengths of about 300 ft. Most show lower post-fracture instantaneous shut-in pressure (ISIP) than lower-producing wells. These observations and characteristics of high producing wells along with best completion practices can help design optimal completions and stimulation treatments in the Haynesville.
Test scheduling using test subsession partitioning (2002)

The tester time is expensive, which should be reduced as much as possible. Considering the fact that test response observation and test application only use a fraction of the whole testing time, a test subsession partitioning scheme is offered. Therefore, some further sources of the test scheduling problem are used. Subcircuits in conflict according to the definition are only partially in conflict now. A new test scheduling algorithm is given after the test subsession partitioning scheme is combined. This algorithm has learning ability by recording the previous conflict information, which prunes the searching space of the test scheduling problem effectively.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Distinct Coordination Chemistry of Fe(III)-Based MRI Probes (2022)

Contrast agents are used in approximately 40% of all magnetic resonance imaging (MRI) procedures to improve the quality of the images based on the distribution and dynamic clearance of the agent. To date, all clinically approved contrast agents are Gd(III) coordination complexes that serve to shorten the longitudinal (T<sub>1</sub>) and transverse (T<sub>2</sub>) proton relaxation times of water. Recent interest in replacing Gd with biologically relevant metal ions such as Mn or Fe has led to increased interest in the aqueous coordination chemistry of their complexes. In this Account, we focus on high-spin Fe(III) complexes that have been recently reported as MRI contrast agents or probes in our laboratory.The highly Lewis acidic Fe(III) center has distinct coordination chemistry in aqueous solutions, facilitating alternative strategies in the design of MRI probes. To illustrate this, we describe different classes of Fe(III) MRI probes with a focus on macrocyclic complexes and multinuclear complexes such as self-assembled metal organic polyhedra (MOP). Our initial efforts focused on macrocyclic complexes of Fe(III) in order to tune spin and oxidation states with the goal of stabilizing high-spin Fe(III) in reducing biological environments. Our probes feature six-coordinate Fe(III) complexes of 1,4,7-triazacyclononane with hydroxypropyl, phosphonate, or carboxylate pendant groups to produce Fe(III) complexes that shorten proton T<sub>1</sub> times predominantly from second-sphere or outer-sphere interactions at neutral pH. Analogues with pentadentate macrocyclic ligands have an inner-sphere water that does not exchange rapidly on the NMR time scale, yet these complexes are effective relaxation agents. Fe(III) macrocyclic complexes in this class can be modified to modulate their biodistribution and pharmacokinetic clearance in mice. The goal of these studies is for the Fe(III) agents to clear as extracellular fluid agents and produce profiles similar to those of Gd agents. Finally, studies of multimeric Fe(III) complexes are of interest to produce probes that give large proton relaxivity. In this approach the two Fe(III) centers are connected through aryl linkers as demonstrated for several macrocyclic complexes. Even more tightly connected Fe(III) centers are produced in a Fe(III) self-assembled cage with relaxivity of 21 mM<sup>-1</sup> s<sup>-1</sup> at 4.7 T, 37 °C in the presence of serum albumin to which it is tightly bound. This cage enhances contrast of the vasculature as a blood pool agent and accumulates in tumors. Finally, we present our perspectives on the further development of Fe(III) complexes for various applications in MRI.
Data from <i>BRAF</i> Mutation Testing in Cell-Free DNA from the Plasma of Patients with Advanced Cancers Using a Rapid, Automated Molecular Diagnostics System (2023)

&lt;div&gt;Abstract&lt;p&gt;Cell-free (cf) DNA from plasma offers an easily obtainable material for &lt;i&gt;BRAF&lt;/i&gt; mutation analysis for diagnostics and response monitoring. In this study, plasma-derived cfDNA samples from patients with progressing advanced cancers or malignant histiocytosis with known &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; status from formalin-fixed paraffin-embedded (FFPE) tumors were tested using a prototype version of the Idylla &lt;i&gt;BRAF&lt;/i&gt; Mutation Test, a fully integrated real-time PCR-based test with turnaround time about 90 minutes. Of 160 patients, &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; mutations were detected in 62 (39%) archival FFPE tumor samples and 47 (29%) plasma cfDNA samples. The two methods had overall agreement in 141 patients [88%; κ, 0.74; SE, 0.06; 95% confidence interval (CI), 0.63–0.85]. Idylla had a sensitivity of 73% (95% CI, 0.60–0.83) and specificity of 98% (95% CI, 0.93–1.00). A higher percentage, but not concentration, of &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; cfDNA in the wild-type background (&gt;2% vs. ≤ 2%) was associated with shorter overall survival (OS; &lt;i&gt;P&lt;/i&gt; = 0.005) and in patients with &lt;i&gt;BRAF&lt;/i&gt; mutations in the tissue, who were receiving BRAF/MEK inhibitors, shorter time to treatment failure (TTF; &lt;i&gt;P&lt;/i&gt; = 0.001). Longitudinal monitoring demonstrated that decreasing levels of &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; cfDNA were associated with longer TTF (&lt;i&gt;P&lt;/i&gt; = 0.045). In conclusion, testing for &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; mutations in plasma cfDNA using the Idylla &lt;i&gt;BRAF&lt;/i&gt; Mutation Test has acceptable concordance with standard testing of tumor tissue. A higher percentage of mutant &lt;i&gt;BRAF&lt;/i&gt;&lt;sup&gt;V600&lt;/sup&gt; in cfDNA corresponded with shorter OS and in patients receiving BRAF/MEK inhibitors also with shorter TTF. &lt;i&gt;Mol Cancer Ther; 15(6); 1397–404. ©2016 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Molecular cloning and functional expression of geranylgeranyl pyrophosphate synthase from Coleus forskohliiBriq (2004)

This investigation proposed that forskolin was synthesised via a non-mevalonate pathway. GGPP synthase is thought to be involved in the biosynthesis of forskolin, which is primarily synthesised in the leaves and subsequently accumulates in the stems and roots.
Self-similar pattern formation and continuous mechanics of self-similar systems (2007)

Abstract. In many cases, the critical state of systems that reached the threshold is characterised by self-similar pattern formation. We produce an example of pattern formation of this kind – formation of self-similar distribution of interacting fractures. Their formation starts with the crack growth due to the action of stress fluctuations. It is shown that even when the fluctuations have zero average the cracks generated by them could grow far beyond the scale of stress fluctuations. Further development of the fracture system is controlled by crack interaction leading to the emergence of self-similar crack distributions. As a result, the medium with fractures becomes discontinuous at any scale. We develop a continuum fractal mechanics to model its physical behaviour. We introduce a continuous sequence of continua of increasing scales covering this range of scales. The continuum of each scale is specified by the representative averaging volume elements of the corresponding size. These elements determine the resolution of the continuum. Each continuum hides the cracks of scales smaller than the volume element size while larger fractures are modelled explicitly. Using the developed formalism we investigate the stability of self-similar crack distributions with respect to crack growth and show that while the self-similar distribution of isotropically oriented cracks is stable, the distribution of parallel cracks is not. For the isotropically oriented cracks scaling of permeability is determined. For permeable materials (rocks) with self-similar crack distributions permeability scales as cube of crack radius. This property could be used for detecting this specific mechanism of formation of self-similar crack distributions.
The synthesis of polystyrene with a new chemical approach (2015)

The bulk room-temperature polymerization of styrene initiated by environmentally friendly catalysts Maghnite-Na + is investigated. The catalyst removed from the reaction mixture simply by filtration could be regenerated and reused. The effect of the Maghnite-Na + catalyst loading on degree of polymerization had been studied and state their inverse relation. The catalyst was characterized by X-ray diffraction and FTIR spectroscopy.
Synthesis of 1,2,3-Triazole Derivatives and in Vitro Antifungal Evaluation on Candida Strains (2012)

1,2,3-Triazoles have been extensively studied as compounds possessing important biological activities. In this work, we describe the synthesis of ten 2-(1-aryl-1H-1,2,3-triazol-4-yl)propan-2-ols via copper catalyzed azide alkyne cycloaddition (CuAAc or click chemistry). Next the in vitro antifungal activity of these ten compounds was evaluated using the microdilution broth method against 42 isolates of four different Candida species. Among all tested compounds, the halogen substituted triazole 2-[1-(4-chlorophenyl)-1H-(1,2,3)triazol-4-yl]propan-2-ol, revealed the best antifungal profile, showing that further modifications could be done in the structure to obtain a better drug candidate in the future.
Foreign Object Debris (FOD) Detection Research (2008)

Foreign Object Debris (FOD) describes small items, particles, or debris that have fallen onto airport runways and taxiways and are capable of damaging aircraft passing by. Research to develop performance standard for detecting FOD is currently being conducted at major United States airports through a technology evaluation program developed by the Federal Aviation Administration (FAA). The FAA research program, which began in June 2007, is assessing the performance of FOD detection technologies under various weather and operational conditions. Four different detection systems are being evaluated, including: 1) QinetiQ system (trade name Tarsier Radar), which uses tower-mounted radar units that continuously scan airport pavement for FOD; 2) Xsight System (trade name FODetect), which uses small Surface Detection Units (SDU) comprised of radar and camera units -- mounted adjacent to the runway edge lights -- to give the operator the precise location of any FOD found; 3) Trex Enterprises system (trade name FODFinder), a mobile detection system which uses an enclosed millimeter wave radar that is mounted to the vehicle’s roof; 4) Stratech intelligent vision system (trade name iFerret FOD Detection system), which scans the runway system using a high resolution camera. U.S. airports participating in the FAA research program include: T F Green Airport (Warwick, RI), Boston-Logan Airport, Midway International Airport (Chicago, IL), O’Hare International Airport (Chicago, IL).
Electrostatic basis of structure-function correlation in proteins (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleElectrostatic basis of structure-function correlation in proteinsArieh WarshelCite this: Acc. Chem. Res. 1981, 14, 9, 284–290Publication Date (Print):September 1, 1981Publication History Published online1 May 2002Published inissue 1 September 1981https://pubs.acs.org/doi/10.1021/ar00069a004https://doi.org/10.1021/ar00069a004research-articleACS PublicationsRequest reuse permissionsArticle Views1206Altmetric-Citations289LEARN 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
Tomatidine acts in synergy with aminoglycoside antibiotics against multiresistant Staphylococcus aureus and prevents virulence gene expression (2011)

These results show that tomatidine is an aminoglycoside potentiator that also acts as an anti-virulence agent targeting both antibiotic-susceptible and antibiotic-resistant S. aureus.