gebhart/patrepeval huggingface dataset:
Intramolecular Dynamics and Domain Crosstalk in C-terminal Src Kinase (Csk) (2014)

Organisms rely on complex forms of chemical, physical and structural sensors that wire their communication networks at the cellular and molecular levels. These signal transduction pathways were classically treated as binary switches that relay information along specific routes from origins to destinations; however, this view is insufficient to describe the scale and diversity of responses offered by a limited number of molecular actors and pathways. Therefore, a more nuanced examination of structural components is needed for deeper understanding of high specificity and diversity of generated signals in the cellular context. The studies presented herein aim to explore the special molecular features of a major signaling component, the C-terminal Src kinase (Csk). It is a master regulator of the Src family of tyrosine kinases (SFKs) whose members participate in almost all aspects of cellular regulation and functions. We first studied the importance of a site-specific divergence within Csk's regulatory Src Homology 2 (SH2) domain and examined its effects on kinase behavior and functions using extended biophysical and activity techniques coupled to molecular dynamics simulations. Induced flexibility in the distal loop position was sensed throughout the protein as it modulated kinase functional motions and activity; revealing intramolecular routes of long-range communications in Csk. Along with insights on intrinsic functions, the results may provide a general framework for identifying potential effector sites for specific targeting by design. And since the distal motif is within a common adaptor domain, we characterized the changes in Csk's interaction with its physiological, membrane- recruiting activator, the Csk Binding Protein (CBP). Our enzymatic activation assays and Nuclear Magnetic Resonance binding analysis indicate that while the magnitude of maximal p-CBP activation of the kinase is largely unaffected, the overall catalytic efficiency is hampered by the non-contacting loop and allows for simultaneous, tunable control of localization and intrinsic activity. Lastly, unlike many modular scaffolds that could routinely be captured in multiple functional states, Csk's intrinsically dynamic character precludes extensive analysis through traditional structural techniques. Therefore, we used computational tools to study full- length Csk aiming to predict molecular transitions and large-scale coupled motions. The theoretical results were corroborated experimentally using our established kinetic, mutational, and structural-dynamic techniques; and construct a clearer model of dynamic intramolecular regulation. The data suggest that previously undetected, directional-global motions of the modular domains about the kinase core are inherently linked to Csk's enzymatic tasks of binding its substrates and catalyzing the phosphotransferase reaction
Effects of Advertising on Product Risk Perception and Warning Effectiveness (2003)

Among the most consistent findings in the warnings literature is the so-called 'familiarity effect.' Research has shown that the more familiar an individual is with a product or situation the less likely he or she is to notice, read, recall, or comply with hazard communications. The effect has been found across numerous product types and situations using various operational definitions of familiarity and measures of warning effectiveness. However, research has also shown that subjective familiarity ratings are not highly correlated with actual product experience. Thus, individuals must be capable of developing a false or exaggerated sense of familiarity. One possible source of this exaggerated familiarity is exposure to product advertising.\n\nThree experiments were conducted to investigate whether the familiarity effect can be produced from exposure to product advertising. The relationships between advertising exposure and perceived familiarity and between perceived familiarity, perceived safety and warning effectiveness were examined. Experiment 1 explored participants' attitudes and beliefs about well-known and obscure brands of household, consumer products and sought to determine how past, direct product experience influences those attitudes and beliefs. Experiments 2 and 3 examined how the number of advertising exposures and the safety-related content of advertisements influence attitudes and beliefs about the advertised products and the effectiveness of on product warnings.\n\nResults of Experiment 1 revealed that past experience can not fully explain consumers' attitudes and beliefs about household, consumer products. Experiments 2 and 3 showed that advertising influences perceived product familiarity and knowledge. While there was a trend of greater perceived safety with increased ad exposures, the effect was not significant. No effects of advertising on warning recall were found. Implications for the design of product advertisements and product packaging as well as directions for future research are discussed.
Quinazolines and 1,4-benzodiazepines. LXX. v-Triazolo[1,5-a][1,4]benzodiazepines (1975)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTQuinazolines and 1,4-benzodiazepines. LXX. v-Triazolo[1,5-a][1,4]benzodiazepinesDavid L. Coffen, R. Ian Fryer, David A. Katonak, and Frederick WongCite this: J. Org. Chem. 1975, 40, 7, 894–897Publication Date (Print):April 1, 1975Publication History Published online1 May 2002Published inissue 1 April 1975https://pubs.acs.org/doi/10.1021/jo00895a018https://doi.org/10.1021/jo00895a018research-articleACS PublicationsRequest reuse permissionsArticle Views258Altmetric-Citations27LEARN 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
Monitoring of flux densities of bright radio sources in a narrow strip of sky at 1420 MHz (2009)

The flux densities of a uniform sample of extragalactic radio sources in a narrow strip of sky (1° wide in declination with a total area of about 0.1 sr) were monitored for 105 days at 1420 MHz using the 64-m Kalyazin radio telescope. In total, 32 bright sources with flux densities greater than 0.6 Jy have been studied. The statistical properties of the observed flux-density variations are discussed. We detected variability at the 95% confidence level according to the χ 2 test in 4C +27.15 (0516+2740). The flux density variations in this source show the pattern typical of extreme scattering events. There are reasons to classify this source as a blazar.
Lewis Acid-Promoted Reaction of β,β-Difluorinated N,O-Acetal with Silylated Nucleophiles (1992)

Abstract Lewis acid-promoted reaction of ethyl 3-ethoxy-2,2-difluoro-3-(dimethylamino)propionate (1) with some silylated nucleophiles afforded β,β-difluoroamines in good yields. The formation of iminium ion intermediate from 1 and BF3·OEt2 was confirmed by 19F and 13C NMR spectroscopy.
Exploring the Abnormal Modulation of the Autonomic Systems during Nasal Flow Limitation in Upper Airway Resistance Syndrome by Hilbert–Huang Transform (2017)

The proposed algorithm allows quantifying the temporal changes of specific mechanisms of the autonomic system on breath-by-breath basis. With no or very limited impact on oxygen saturation, the hyperactivation of parasympathetic system in associated with inspiratory flow limitation or increased respiratory efforts during stage 2 NREM sleep has been presented in this study.
A Continuum Theory of Smectic A Liquid Crystals (1982)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation Goodarz Ahmadi; A Continuum Theory of Smectic A Liquid Crystals. J. Rheol. 1 December 1982; 26 (6): 535–556. https://doi.org/10.1122/1.549676 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentThe Society of RheologyJournal of Rheology Search Advanced Search |Citation Search
Fabrication of more stable materials and devices in amorphous silicon (1994)

We discuss two approaches for improving the stability of a‐Si:H devices. The first approach relies on improving the stability of the material by controlling the growth chemistry. We show that when the film is subjected to a strong H atom flux during growth, its microstructure becomes very robust, with few polysilane‐type chains and its stability is significantly improved. The stability is further enhanced by sub‐ppm doping by diborane during growth. We speculate that diborane compensates the native oxygen donors, and changes the localized bonding environment, thereby improving stability. We have been able to obtain a very low mid‐gap defect density after prolonged illumination under 10× sun intensity using the combination of H etching and compensation. We have also made devices in these materials. The devices were made on standard textured tin oxide substrates and had simple Al back reflectors. We had to use high C buffer layers to block the diffusion of B from the p into the i layer at these temperatures. The best device efficiency to‐date for a device made at 375 C is 7.8%. The quantum efficiency data on the devices indicate very good μτ products for holes in our materials. Stability experiments on these devices are in progress.
The aperture capture illusion: Misperceived forms in dynamic occlusion displays. (2014)

Visual illusions can reveal unconscious representations and processes at work in perception. Here we report a robust illusion that involves the misperception of moving, partially occluded objects. When a dynamically occluded object is seen through 2 misaligned apertures, the object appears misaligned in the direction of the apertures, creating the Aperture Capture Illusion. Specifically, when part of a dynamically occluded object disappears behind an occluding surface and then another part of the object comes into view immediately afterward, the 2 parts appear misaligned in the direction of the offset of the apertures through which they were seen. This illusion can be nulled: Separating the 2 object parts to increase the time interval between their appearance produced the percept of alignment. The ability to null the illusion in this manner demonstrates that dynamically occluded regions of moving objects continue to persist in perceptual awareness but, we argue, are perceived to move at a slower velocity than visible regions. We report 7 experiments establishing the existence of the illusion and ruling out several classes of explanation for it. We interpret the illusion and the ability to nullify it within the context of Palmer, Kellman, and Shipley's (2006) theory of spatiotemporal object formation.
Applying Security Assurance Techniques to a Mobile Phone Application: An Initial Approach (2011)

As users download applications to their mobile phones, security is a critical issue. In this paper we present a process for the security assurance of applications. It uses existing vulnerability databases and application development guidelines to identify potential security issues. The identified issues are then validated using a variety of techniques including black-box testing, unit testing code inspection and static analysis. This process is illustrated using an application for the Android platform.
2H-benzimidazoles (isobenzimidazoles). Part 3. Thermal isomerisation of substituted 2H-benzimidazoles to 1H-benzimidazoles (1988)

2H-Benzimidazole-2-spirocyclohexanes (1) when heated undergo a 1,5-sigmatropic rearrangement to 2,3-disubstituted 1H-benzimidazoles. A decided effect on the direction of this Isomerisation was observed with substituents in the homodiene ring.
Announcement (1993)

Journal Article Announcement Get access P L Harris P L Harris Secretary Vascular Surgical Society of Great BritainVascular Surgical Society of Ireland Search for other works by this author on: Oxford Academic Google Scholar British Journal of Surgery, Volume 80, Issue 9, September 1993, Page 1120, https://doi.org/10.1002/bjs.1800800915 Published: 06 December 2005
Effect of Product Dimensions and Surface Browning Method on Salmonella Contamination in Frozen, Surface‐Browned, Breaded Chicken Products Treated with Antimicrobials (2015)

Not-ready-to-eat breaded chicken products formulated with antimicrobial ingredients were tested for the effect of sample dimensions, surface browning method and final internal sample temperature on inoculated Salmonella populations. Fresh chicken breast meat portions (5 × 5 × 5 cm), inoculated with Salmonella (7-strain mixture; 5 log CFU/g), were mixed with (5% v/w total moisture enhancement) (i) distilled water (control), (ii) caprylic acid (CAA; 0.0625%) and carvacrol (CAR; 0.075%), (iii) CAA (0.25%) and ε-polylysine (POL; 0.5%), (iv) CAR (0.15%) and POL (0.5%), or (v) CAA (0.0625%), CAR (0.075%) and POL (0.5%). Sodium chloride (1.2%) and sodium tripolyphosphate (0.3%) were added to all treatments. The mixtures were then ground and formed into 9 × 5 × 3 cm (150 g) or 9 × 2.5 × 2 cm (50 g) portions. The products were breaded, browned in (i) an oven (208 °C, 15 min) or (ii) deep fryer (190 °C, 15 s), packaged, and stored at -20 °C (8 d). Overall, maximum internal temperatures of 62.4 ± 4.0 °C (9 × 2.5 × 2 cm) and 46.0 ± 3.0 °C (9 × 5 × 3 cm) were reached in oven-browned samples, and 35.0 ± 1.1 °C (9 × 2.5 × 2 cm) and 31.7 ± 2.6 °C (9 × 5 × 3 cm) in fryer-browned samples. Irrespective of formulation treatment, total (after frozen storage) reductions of Salmonella were greater (P < 0.05) for 9 × 2.5 × 2 cm oven-browned samples (3.8 to at least 4.6 log CFU/g) than for 9 × 5 × 3 cm oven-browned samples (0.7 to 2.5 log CFU/g). Product dimensions did not (P ≥ 0.05) affect Salmonella reductions (0.6 to 2.8 log CFU/g) in fryer-browned samples. All antimicrobial treatments reduced Salmonella to undetectable levels (<0.3 log CFU/g) in oven-browned 9 × 2.5 × 2 cm samples. Overall, the data may be useful for the selection of antimicrobials, product dimensions, and surface browning methods for reducing Salmonella contamination.
Are Real Assets Priced Internationally? Evidence from the Art Market (1998)

This article investigates the relationships between the U.S. and Japanese stock market indices and the prices of modern and impressionist paintings sold at auction in New York by Christies and Sotheby. An art price index is constructed to adjust for heterogeneity of individual paintings. Time series properties of the art price index are examined in relation with the S&P500 and Topix stock market indices. The art-price index is heteroskedastic and autocorrelated. When the log-returns to art are compared to log-price returns to the S&P500 and TOPIX stock indices, a single common long-term stochastic trend in the three indices is found. In the short run, log-changes of art prices are related to current and lagged log-changes of the TOPIX index, only
Tuning the Rear Side Morphology of Crystalline Silicon Solar Cells by Plasma Chemical Etching at Atmospheric Pressure for Maximal Light Trapping Effect (2011)

Optical properties of textured monocrystalline silicon substrates after single side atmospheric pressure plasma chemical etching (APPCE) were studied in dependence on the treatment conditions in the SF6-O2 gas mixture. This treatment leads to the surface morphology modification, namely to the controlled change of top angles of random pyramids from original 70.5° to resulting 90-150°. Influence of the one side morphology modification of silicon wafers on the resulting optical spectra was calculated by Monte Carlo modeling as well as it was measured by combined T/R characterization. The same modeling approach has been applied to predict the light trapping behavior of solar cell structures with dielectric passivation of the rear side which confirms the increase of the internal reflectivity of c-Si solar cell structure from values of about 65-70% for standard screen-printed Al to well over 90%. Rear side morphology modification (by two various APPCE methods) was applied for the set of c-Si solar cells with Al screen-printed back contact. This process (replacing also the edge isolation step) leads to slight performance increase compared to standard solar cell structure.
Malignant melanoma metastasis in the gallbladder. A case report of an unusual metastatic site (2020)

In otherwise stable disease, palliative surgery for metastasis in the gallbladder is a possible option to prevent biliary complications. In a palliative setting always weigh up the risks and benefits while maintaining the quality of life.
Quantitative assessment of colorectal morphology: Implications for robotic colonoscopy (2016)

This paper presents a method of characterizing the distribution of colorectal morphometrics. It uses three-dimensional region growing and topological thinning algorithms to determine and visualize the luminal volume and centreline of the colon, respectively. Total and segmental lengths, diameters, volumes, and tortuosity angles were then quantified. The effects of body orientations on these parameters were also examined. Variations in total length were predominately due to differences in the transverse colon and sigmoid segments, and did not significantly differ between body orientations. The diameter of the proximal colon was significantly larger than the distal colon, with the largest value at the ascending and cecum segments. The volume of the transverse colon was significantly the largest, while those of the descending colon and rectum were the smallest. The prone position showed a higher frequency of high angles and consequently found to be more torturous than the supine position. This study yielded a method for complete segmental measurements of healthy colorectal anatomy and its tortuosity. The transverse and sigmoid colons were the major determinant in tortuosity and morphometrics between body orientations. Quantitative understanding of these parameters may potentially help to facilitate colonoscopy techniques, accuracy of polyp spatial distribution detection, and design of novel endoscopic devices.
Restricted Diffusion Effects in Saturation Estimates from 2D Diffusion-Relaxation NMR Maps (2010)

Abstract A new model is proposed for interpreting two-dimensional diffusion-relaxation nuclear magnetic resonance (2D NMR) maps by including the effects of restriction on the diffusion of water in a connected porous medium. The model's theoretical underpinnings are reviewed and a correlation derived between the diffusion and relaxation of restricted water molecules, i.e., the expected ‘water line’ where the water signal should appear on 2D NMR maps. The main application discussed in this paper is to improve the quantitative separation of different fluids in the formation, leading to better prediction of water and hydrocarbon saturations. In many carbonate formations, the effects of restriction may be quite pronounced making the standard fluid characterization with diffusion-relaxation maps questionable. The restricted-diffusion model is applied to laboratory measurements on carbonate core plugs and to an example log from a Middle East carbonate well where the saturations obtained with the new model are compared against other measures of saturation available in the dataset.
Mutation Analysis of Membrane Type-1 Matrix Metalloproteinase (MT1-MMP) (2001)

Membrane type-1 matrix metalloproteinase (MT1-MMP) is a key enzyme in the activation pathway of matrix prometalloproteinase-2 (pro-MMP-2). Both activation and autocatalytic maturation of pro-MMP-2 in trans suggest that MT1-MMP should exist as oligomers on the cell surface. To better understand the functions of MT1-MMP, we designed mutants with substitutions in the active site (E240A), the cytoplasmic tail (C574A), and the RRXR furin cleavage motifs (R89A, ARAA, and R89A/ARAA) of the enzyme. The mutants were expressed in MCF7 breast carcinoma cells that are deficient in both MMP-2 and MT1-MMP. Our results supported the existence of MT1-MMP oligomers and demonstrated that a disulfide bridge involving the Cys(574) of the enzyme's cytoplasmic tail covalently links MT1-MMP monomers on the MCF7 cell surface. The presence of MT1-MMP oligomers also was shown for the enzyme naturally expressed in HT1080 fibrosarcoma cells. The single (R89A and ARAA) and double (R89A/ARAA) furin cleavage site mutants of MT1-MMP were processed in MCF7 cells into the mature proteinase capable of activating pro-MMP-2 and stimulating cell locomotion. This suggested that furin cleavage is not a prerequisite for the conversion of pro-MT1-MMP into the functionally active enzyme. A hydroxamate class inhibitor (GM6001, or Ilomastat) blocked activation of MT1-MMP in MCF7 cells but not in HT1080 cells. This implied that a matrixin-like proteinase sensitive to hydroxamates could be involved in a furin-independent, alternative pathway of MT1-MMP activation in breast carcinoma cells. The expression of the wild type MT1-MMP enhanced cell invasion and migration, indicating a direct involvement of this enzyme in cell locomotion. In contrast, both the C574A and E240A mutations render MT1-MMP inefficient in stimulating cell migration and invasion. In addition, the C574A mutation negatively affected cell adhesion, thereby indicating critical interactions involving the cytosolic part of MT1-MMP and the intracellular milieu.
Towards Secure Approximate <inline-formula> <tex-math notation="LaTeX">${k}$ </tex-math> </inline-formula>-Nearest Neighbor Query Over Encrypted High-Dimensional Data (2018)

As many services have been subcontracted to the cloud, data in such services (i.e., management applications, signal processing, and so on) are stored on cloud in encrypted form for protecting user private information. In many emerging data and signal processing applications, approximate k-nearest neighbor (ANN) query is a prerequisite component for massive high-dimensional data (such as time series, biometric, signal, multimedia data, and so on). Unfortunately, existing secure ANN (SANN) methods encounter the limitation of dimensionality. To further resolve ANN query over high-dimensionally encrypted data, in this paper, we propose an effective SANN model in Euclidean space. In overview, a secure greedy partition method is carefully designed by applying locality sensitive hashing coding and an optimized linear order. Based on that, a novel partition-based SANN (SANNP) and a multi-division version mSANNP resolve SANN query by sequentially scanning a candidate set, which is produced by matching a cloak query with a map index. Our proposed solutions guarantee security and accuracy simultaneously, and reduce communication cost significantly. Meanwhile, the greedy partition method is proved to be indistinguishable secure under chosen-plaintext attack, which is the foundation of security for the proposed solutions. Through extensive experimental studies on four data sets, the proposed mechanisms outperform the state-of-the-art approaches and provide effective and tradeoff between result accuracy and communication cost.