gebhart/patrepeval huggingface dataset:
Acid-Functionalized Amphiphiles, Derived from Polystyrene-Poly(propylene imine) Dendrimers, with a pH-Dependent Aggregation (1995)

functionalized amphiphiles, derived from polystyrene-poly (propylene imine)
Dynamic Polygon Clouds: Representation and Compression for VR/AR (2016)

We introduce the {\em polygon cloud}, also known as a polygon set or {\em soup}, as a compressible representation of 3D geometry (including its attributes, such as color texture) intermediate between polygonal meshes and point clouds. Dynamic or time-varying polygon clouds, like dynamic polygonal meshes and dynamic point clouds, can take advantage of temporal redundancy for compression, if certain challenges are addressed. In this paper, we propose methods for compressing both static and dynamic polygon clouds, specifically triangle clouds. We compare triangle clouds to both triangle meshes and point clouds in terms of compression, for live captured dynamic colored geometry. We find that triangle clouds can be compressed nearly as well as triangle meshes, while being far more robust to noise and other structures typically found in live captures, which violate the assumption of a smooth surface manifold, such as lines, points, and ragged boundaries. We also find that triangle clouds can be used to compress point clouds with significantly better performance than previously demonstrated point cloud compression methods. In particular, for intra-frame coding of geometry, our method improves upon octree-based intra-frame coding by a factor of 5-10 in bit rate. Inter-frame coding improves this by another factor of 2-5. Overall, our dynamic triangle cloud compression improves over the previous state-of-the-art in dynamic point cloud compression by 33\% or more.
Synthesis of Triaryl Cyanurates Catalysed by Polyethylene Glycol in a Two‐Phase System: Phase Transfer Catalysis (1995)

Abstract The synthesis of triaryl cyanurates (2,4,6‐triaryloxy‐1,3,5‐triazines) was accomplished at room temperature in high yields in a two‐phase system using PEG‐400 as a phase transfer catalyst.
Intrachromosomal Probes for Mutagenesis by Alkylated DNA Bases Replicated in Mammalian Cells:  A Comparison of the Mutagenicities of O4-Methylthymine and O6-Methylguanine in Cells with Different DNA Repair Backgrounds (1996)

A shuttle vector was constructed in which a single O4-methylthymine (O4MeThy) or O6-methylguanine (O6MeGua) was positioned within a unique NheI restriction site. These lesions are among the many produced when alkylating agents interact with DNA and are the two most widely believed to account for the mutagenicity that follows the alkylation event. The shuttle vectors were transfected in parallel into Chinese hamster ovary cells that were either proficient (mex+) or deficient (mex-) in an endogenous alkyltransferase protein. The vectors integrated into the genome of the host, and the lesions were replicated along with the host chromosome. A portion of the integrated vector encompassing the originally adducted site was subsequently amplified by the polymerase chain reaction from the host genome to mediate analysis of mutation frequency and type. O4MeThy induced a high mutation frequency in both mex- and mex+ cells (28-50% in mex- and 22-42% in mex+). O6MeGua induced a significant but lower level of mutagenesis in the repair-deficient (mex-) cells (7-8.5%) and was not detectably mutagenic in mex+ cells. Mutations induced by the methylated thymine in both cell types were T-->C transitions; the guanine adduct in mex- cells induced G-->A transitions. These results indicate that the O4MeThy lesion is more highly mutagenic than O6MeGua in the same genetic background, and that the former adduct, unlike the latter, does not appear to be repaired to a significant extent by the alkyltransferase or any other mammalian repair enzyme.
Development of a prediction model on the acceptance of electronic laboratory notebooks in academic environments (2014)

Documentation of research data plays a key role in the biomedical engineering innovation processes. It makes an important contribution to the protection of intellectual property, the traceability of results and fulfilling the regulatory requirement. Because of the increasing digitalization in laboratories, an electronic alternative to the commonly-used paper-bound notebooks could contribute to the production of sophisticated documentation. However, compared to in an industrial environment, the use of electronic laboratory notebooks is not widespread in academic laboratories. Little is known about the acceptance of an electronic documentation system and the underlying reasons for this. Thus, this paper aims to establish a prediction model on the potential preference and acceptance of scientists either for paper-based or electronic documentation. The underlying data for the analysis originate from an online survey of 101 scientists in industrial, academic and clinical environments. Various parameters were analyzed to identify crucial factors for the system preference using binary logistic regression. The analysis showed significant dependency between the documentation system preference and the supposed workload associated with the documentation system (p<0.006; odds ratio=58.543) and an additional personal component. Because of the dependency of system choice on specific parameters it is possible to predict the acceptance of an electronic laboratory notebook before implementation.
Protective effects of valproic acid against airway hyperresponsiveness and airway remodeling in a mouse model of allergic airways disease (2011)

Airway remodeling and airway hyperresponsiveness are major aspects of asthma pathology that are not targeted optimally by existing anti-inflammatory drugs. Histone deacetylase inhibitors have a wide range of effects that may potentially abrogate aspects of remodeling. One such histone deacetylase inhibitor is valproic acid (2-propylvaleric acid). Valproic acid is used clinically as an anti-epileptic drug and is a potent inhibitor of class I histone deacetylases but also inhibits class II histone deacetylases. We used valproic acid as a molecular model of histone deacetylase inhibition in vivo in chronic allergic airways disease mice with airway remodeling and airway hyperresponsiveness. Wild-type Balb/c mice with allergic airways disease were treated with valproic acid or vehicle control. Airway inflammation was assessed by bronchoalveolar lavage fluid cell counts and examination of lung tissue sections. Remodeling was assessed by morphometric analysis of histochemically stained slides and lung function was assessed by invasive plethysmography measurement of airway resistance. Valproic acid treatment did not affect inflammation parameters; however, valproic acid treatment resulted in reduced epithelial thickness as compared to vehicle treated mice (p < 0.01), reduced subepithelial collagen deposition (p < 0.05) and attenuated airway hyperresponsiveness (p < 0.05 and p < 0.01 for the two highest doses of methacholine, respectively). These findings show that treatment with valproic acid can reduce structural airway remodeling changes and hyperresponsiveness, providing further evidence for the potential use of histone deacetylase inhibitors for the treatment of asthma.
Performance of Pumps (2013)

Liquid pipeline systems will generally require pumps to pressure the fluid to a level for overcoming pipe friction (due to pipe roughness), rise in elevation, and thermal losses that increase fluid viscosity and, hence, increase pressure loss. To design and select pumps for pipeline applications, a variety of standards are referred to.
Highly Selective SiGe Dry Etch Process for the Enablement of Stacked Nanosheet Gate-All-Around Transistors (2021)

Horizontally stacked nanosheet gate-all-around devices enable area scaling of transistor technology, while providing improved electrostatic control over FinFETs for a wide range of channel widths within a single chip for simultaneous low power applications and high-performance computing. Fabrication of inner spacers and Si channels is challenging, but essential to device performance, yield, and reliability. We elucidate these challenges and detail their impact to the device. We overcome these challenges with novel, highly selective, isotropic SiGe dry etch techniques which enable precise, robust inner spacer and channel formation. Finally, we demonstrate substantial improvements to relevant device parameters: resistance, drive current, transconductance, threshold voltage, breakdown voltage, bias temperature instability and overall variability.
Systems Level Dissection of Candida Recognition by Dectins: A Matter of Fungal Morphology and Site of Infection (2015)

Candida albicans is an ubiquitous fungal commensal of human skin and mucosal surfaces, and at the same time a major life-threatening human fungal pathogen in immunocompromised individuals. Host defense mechanisms rely on the capacity of professional phagocytes to recognize Candida cell wall antigens. During the past decade, the host immune response to Candida was dissected in depth, highlighting the essential role of C-type lectin receptors, especially regarding the power of the Dectins' family in discriminating between the tolerated yeast-like form of Candida and its invading counterpart, the hyphae. This review focuses on the immuno-modulatory properties of the Candida morphologies and their specific interactions with the host innate immune system in different body surfaces.
Dual isotope SPECT imaging of I-123 and I-125 (2013)

Peripheral amyloidosis is a debilitating and often fatal disease. SPECT imaging of amyloid in mice has been established using <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">125</sup> I-SAP. Current efforts are aimed at using <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">125</sup> I-labeled synthetic peptides such as p5, which are easier to translate into the clinic in the US since SAP is of human origin. It needs to be shown that the new peptide biomarkers correlate well with the gold standard, SAP. As both materials can be radioiodinated using facile chemistry, the challenge then becomes to develop a protocol that supports dual isotope SPECT imaging of <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">123</sup> I-labeled SAP and the <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">125</sup> I-labeled peptide. We address this challenge by first quantifying the amount of cross-talk between the two radio nuclides. We subsequently suggest a correction method.
Statistical control of VLSI fabrication processes (1991)

The authors propose a profit-based framework for an integrated CAD-CAM system for VLSI design and manufacturing. The inefficiencies of present-day CAM systems are due to the lack of appropriate methodologies for process monitoring and statistical techniques to analyze the in-process and end-of-process data. Methodologies for monitoring lots in fabrication lines using in situ measurements and controlling lots using the multivariate distribution of observable in-process parameters were developed. The software system which implements the algorithms has shown encouraging results when applied to industrial fabrication lines.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Molecular and macromolecular nonlinear optical materials. Probing architecture/electronic structure/frequency doubling relationships via an SCF-LCAO MECI .pi. electron formalism (1988)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMolecular and macromolecular nonlinear optical materials. Probing architecture/electronic structure/frequency doubling relationships via an SCF-LCAO MECI .pi. electron formalismDe Quan. Li, Mark A. Ratner, and Tobin J. MarksCite this: J. Am. Chem. Soc. 1988, 110, 6, 1707–1715Publication Date (Print):March 1, 1988Publication History Published online1 May 2002Published inissue 1 March 1988https://pubs.acs.org/doi/10.1021/ja00214a008https://doi.org/10.1021/ja00214a008research-articleACS PublicationsRequest reuse permissionsArticle Views385Altmetric-Citations172LEARN 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
Interactions Between High-Viscosity Droplets Deposited on a Surface: Experiments and Simulations (2012)

A combined numerical and experimental investigation of coalescence of droplets of highly viscous liquids dropped on a surface has been carried out. Droplets of 87 wt% glycerin-in-water solutions with viscosity 110 centistokes were deposited sequentially in straight lines onto a flat, solid steel plate and droplet impact photographed. Impacting droplets spread on the surface until liquid surface tension and viscosity overcame inertial forces and the droplets recoiled, eventually reaching equilibrium. Droplet center-to-center distance was varied and droplet line length was measured from photographs. As droplet spacing was increased there was less interaction between the droplets. A three dimensional parallel code has been developed to simulate fluid flow and free surface interaction by solving the continuity, momentum and volume-of-fluid (VOF) equations. The two-step projection method was employed to solve the governing equations for the whole domain including both liquid and air phases. The continuum-surface-force (CSF) scheme was applied to model surface tension and the piecewise-linear-interface-construction (PLIC) technique used to reconstruct the free surface. Computer generated images of impacting droplets modeled droplet shape evolution correctly and compared well with photographs taken during experiments. Accurate predictions were obtained for droplet line length during spreading and at equilibrium.
Supplementary Figure 5 from Universal Cancer Peptide-Based Therapeutic Vaccine Breaks Tolerance against Telomerase and Eradicates Established Tumor (2023)

&lt;p&gt;PDF file - 26K, UCP2 specific CD4 T cells recognize the mTERT-derived counterpart peptide p568&lt;/p&gt;
Copolymers with polar and non-polar olefin blocks (2014)

US Patent 8,796,403
Fibrin Clots Maintain the Viability and Proliferative Capacity of Human Mesenchymal Stem Cells: An In Vitro Study (2019)

Fresh human fibrin clots have been used clinically for more than 30 years to improve soft-tissue healing, albeit with scar tissue. Our results demonstrate that allogenic human MSCs, which reduce soft-tissue scarring, can be captured and remain active inside human fibrin clots, even in the absence a nutritive culture medium.
Impact of Jet Reynolds Number and Feed Channel Geometry on Heat Transfer in a Channel with Inclined Target Surface Cooled by Single Array of Centered Impinging Jets with Outflow in Both Directions (2011)

An experimental investigation has been carried out to study the heat transfer characteristics in a channel with heated target plate inclined at an angle cooled by single array of equally spaced centered impinging jets for three different jet Reynolds numbers (Re=9300, 14400 and 18800). Air ejected from an array of orifices impinges on the heated target surface The target plate forms the leading edge of a gas turbine blade cooled by jet impingement technique. The work includes the effect of jet Re and feed channel aspect ratios (H/d = 5, 7, 9 where H=2.5, 3.5, 4.5 cm and d=0.5 cm) on the heat transfer characteristics for a given orifice jet plate configuration with outflow exiting in both directions (with inclined heated target surface). In general, It has been observed that, H/d=9 gives the maximum heat transfer over the entire length of the target surface as compared to all feed channel aspect ratios. H/d=9 gives 3% more heat transfer from the target surface as compared to H/d=5 (for Re=14400). Also, it has been observed that the magnitude of the averaged local Nusselt number increases with an increase in the jet Re for all the feed channel aspect ratios studied.
Influence of Harvest Time and Malaxation Conditions on the Concentration of Individual Phenols in Extra Virgin Olive Oil Related to Its Healthy Properties (2020)

The phenolic fraction of the extra virgin olive oil (EVOO) has been studied over the past two decades because of its important health protective properties. Numerous studies have been performed in order to clarify the most crucial factors that affect the concentration of the EVOO’s phenolic fraction and many contradictory results have been reported. Having as target to maximize the phenolic content of EVOO and its healthy properties we investigated the impact of harvest time, malaxation temperature, and malaxation duration on the concentration of individual phenols in extra virgin olive oil. Olive oil was prepared in a lab-scale olive mill from different varieties in Greece. The extraction process for cultivar (cv) Koroneiki samples was performed at five different harvest periods from the same trees with three different malaxation temperatures and five different malaxation duration times (N = 75). Similar types of experiments were also performed for other varieties: cv Athenolia (N = 20), cv Olympia (N = 3), cv Kalamata (N = 3), and cv Throubolia Aegean (N=3) in order to compare the changes in the phenolic profile during malaxation. The quantitative analysis of the olive oil samples with NMR showed that the total phenolic content has a negative correlation with the ripening degree and the malaxation time. The NMR data we collected helped us to quantitate not only the total phenolic content but also the concentration of the major phenolic compounds such as oleocanthal, oleacein, oleokoronal, and oleomissional. We noticed different trends for the concentration of these phenols during malaxation process and for different malaxation temperatures. The different trends of the concentration of the individual phenols during malaxation and the completely different behavior of each variety revealed possible biosynthetic formation steps for oleocanthal and oleacein and may explain the discrepancies reported from previous studies.
The application of 3d-digitalization for the developmentof medical instruments (2002)

This paper gives a specific example of a new medical instrument that utilizes 3d-digitalization and rapid prototyping in its development. The basis for this development was to compliment a new tooth extraction – ZALEX – method with the necessary tools, in which a new pair of forseps were developed.
Vertically Aligned Peptide Nanostructures Using Plasma-Enhanced Chemical Vapor Deposition (2014)

In this study, we utilize plasma-enhanced chemical vapor deposition (PECVD) for the deposition of nanostructures composed of diphenylalanine. PECVD is a solvent-free approach and allows sublimation of the peptide to form dense, uniform arrays of peptide nanostructures on a variety of substrates. The PECVD deposited d-diphenylalanine nanostructures have a range of chemical and physical properties depending on the specific discharge parameters used during the deposition process.
Optical see-through calibration with vision-based trackers: propagation of projection matrices (2001)

Recently, M. Tuceryan and N. Navab (2000) introduced a method for calibrating an optical see-through system based on the alignment of a set of 2D markers on the display with a single point in the scene, while not restricting the user's head movements (the single point active alignment method or SPAAM). This method is applicable with any tracking system, provided that it gives the pose of the sensor attached to the see-through display. When cameras are used for tracking, one can avoid the computationally intensive and potentially unstable pose estimation process. A vision-based tracker usually consists of a camera attached to the optical see-through display, which observes a set of known features in the scene. From the observed locations of these features, the pose of the camera can be computed. Most pose computation methods are very involved and can be unstable at times. The authors propose to keep the projection matrix for the tracker camera without decomposing it into intrinsic and extrinsic parameters and use it within the SPAAM method directly. The propagation of the projection matrices from the tracker camera to the virtual camera, representing the eye and the optical see-through display combination as a pinhole camera model, allows us to skip the most time consuming and potentially unstable step of registration, namely, estimating the pose of the tracker camera.
Transient effects in diffusion‐controlled polymer cyclization (1989)

Abstract Fluorescence decay measurements were carried out to study the kinetics of intramolecular exciplex formation in two low‐molecular‐weight samples of polystyrene ( 1 ) with narrow molecular weight distribution capped on one end with a pyrene moiety and on the other with an N , N ‐di‐methylaminophenyl group. Monomer and excimer decay profiles, I M ( t ) and I E ( t ), resp., were inconsistent with the predictions of the simple two‐state (Birks) model, but could be well‐fitted by assuming that the diffusion‐controlled rate coefficient for exciplex formation, k 1 ( t ), is time dependent. Using a Smoluchowski formulation for this rate coefficient k 1 ( t ) = a (1 + bt −1/2 ), we could use the a and b parameters to calculate values for the chain‐end diffusion coefficient characterizing the reaction for samples of the polymers in cyclopentane and cyclohexane solutions.
Building Biological Relevance Into Integrative Modelling of Macromolecular Assemblies (2022)

Recent advances in structural biophysics and integrative modelling methods now allow us to decipher the structures of large macromolecular assemblies. Understanding the dynamics and mechanisms involved in their biological function requires rigorous integration of all available data. We have developed a complete modelling pipeline that includes analyses to extract biologically significant information by consistently combining automated and interactive human-guided steps. We illustrate this idea with two examples. First, we describe the ryanodine receptor, an ion channel that controls ion flux across the cell membrane through transitions between open and closed states. The conformational changes associated with the transitions are small compared to the considerable system size of the receptor; it is challenging to consistently track these states with the available cryo-EM structures. The second example involves homologous recombination, in which long filaments of a recombinase protein and DNA catalyse the exchange of homologous DNA strands to reliably repair DNA double-strand breaks. The nucleoprotein filament reaction intermediates in this process are short-lived and heterogeneous, making their structures particularly elusive. The pipeline we describe, which incorporates experimental and theoretical knowledge combined with state-of-the-art interactive and immersive modelling tools, can help overcome these challenges. In both examples, we point to new insights into biological processes that arise from such interdisciplinary approaches.