gebhart/patrepeval huggingface dataset:
Study of the SmC α * Phase in the Tokyo Mixture by Conoscopy Using Tilted Cell (2006)

We observed the existence of the SmCα* phase in the so-called Tokyo mixture, which has been used for studying V-shape switching by a number of research groups. Conoscopic observations, birefringence measurements using a set-up that employs a photo elastic modulator (PEM) and dielectric measurement were used for studying the behavior of the SmCα* phase. In particular, a conoscopic method using tilted cells was used to observe the conoscopy of the large tilt angle phase. We found that the tilted conoscopic method is very useful for analyzing large tilt smectic phases. The SmCα* phase was observed in a narrow temperature range from 63.0°C to 63.4°C. This is the first report of an observation of this phase in the Tokyo Mixture. It showed uniaxiality at low voltage but changed to biaxiality parallel to the electric field at high voltage in the conoscopic experiment. The absolute value of the biaxiality was quite high, up to 0.003, which means that the unwinding process of SmCα* is different from that of SmC*. This high parallel biaxiality implies the emergence of ferri-like structure, that is, co-existence of synclinic order and anticlinic order, during the field induced unwinding process. Keywords: SmCα* phaseV-shape mode switchingTokyo Mixture Acknowledgments We thank the Science Foundation of Ireland (SFI) grant (02/IN.1/I.031) for funding the research work in Dublin. Collaboration between Dublin and York is funded by the European SAMPA project. J.K.Song thanks Samsung Electronics Co., Ltd. for granting a leave of absence from Seoul.
PRO-Simat: Protein network simulation and design tool (2023)

PRO-Simat is a simulation tool for analysing protein interaction networks, their dynamic change and pathway engineering. It provides GO enrichment, KEGG pathway analyses, and network visualisation from an integrated database of more than 8 million protein-protein interactions across 32 model organisms and the human proteome. We integrated dynamical network simulation using the Jimena framework, which quickly and efficiently simulates Boolean genetic regulatory networks. It enables simulation outputs with in-depth analysis of the type, strength, duration and pathway of the protein interactions on the website. Furthermore, the user can efficiently edit and analyse the effect of network modifications and engineering experiments. In case studies, applications of PRO-Simat are demonstrated: (i) understanding mutually exclusive differentiation pathways in <i>Bacillus subtilis</i>, (ii) making Vaccinia virus oncolytic by switching on its viral replication mainly in cancer cells and triggering cancer cell apoptosis and (iii) optogenetic control of nucleotide processing protein networks to operate DNA storage. Multilevel communication between components is critical for efficient network switching, as demonstrated by a general census on prokaryotic and eukaryotic networks and comparing design with synthetic networks using PRO-Simat. The tool is available at https://prosimat.heinzelab.de/ as a web-based query server.
Synthesis of high-performance analog circuits in ASTRX/OBLX (1996)

We present a new synthesis strategy that can automate fully the path from an analog circuit topology and performance specifications to a sized circuit schematic. This strategy relies on asymptotic waveform evaluation to predict circuit performance and simulated annealing to solve a novel unconstrained optimization formulation of the circuit synthesis problem. We have implemented this strategy in a pair of tools called ASTRX and OBLX. To show the generality of our new approach, we have used this system to resynthesize essentially all the analog synthesis benchmarks published in the past decade; ASTRX/OBLX has resynthesized circuits in an afternoon that, for some prior approaches, had required months. To show the viability of the approach on difficult circuits, we have resynthesized a recently published (and patented), high-performance operational amplifier; ASTRX/OBLX achieved performance comparable to the expert manual design. And finally, to test the limits of the approach on industrial-sized problems, we have synthesized the component cells of a pipelined A/D converter; ASTRX/OBLX successfully generated cells 2-3/spl times/ more complex than those published previously.
Analysis of C5a-mediated chemotaxis by lentiviral delivery of small interfering RNA (2003)

Immune cells respond to chemotactic signals by means of G protein-coupled receptors. Attempts to elucidate the function of specific G protein family members in these responses is complicated by redundancy among the different G protein isoforms. We have used lentiviral-based RNA interference to eliminate expression of specific G protein subunits selectively in J774A.1 mouse macrophages. The chemotactic response to the complement factors C5a and C3a is ablated in cells lacking G beta(2) but is unaffected in cells lacking G beta(1), G alpha i(2), or G alpha i(3). Similarly, the C5a-mediated calcium response of single cells is either absent or significantly delayed and weakened by G beta(2) knockdown. Assessment of Akt1 phosphorylation levels in response to C5a shows rapid and sustained phosphorylation in both wild-type cells and cells lacking G beta(1). Cells lacking G beta(2) retain the rapid response but cannot sustain phospho-Akt1 levels. The phenotype of cells lacking G beta(2) can be reversed by overexpression of either human G beta(2) or mouse G beta(1). These data demonstrate the usefulness of lentiviral-based RNA interference in the systematic analysis of a signaling pathway, and they suggest that in J774A.1 cells, G beta(2)-derived G beta gamma is the most effective mediator of chemotaxis to C5a.
Effect of ring and side chain substituents on the binding of naphthothiopheneethanolamines to deoxyribonucleic acid. Spectrophotometric studies (1973)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEffect of ring and side chain substituents on the binding of naphthothiopheneethanolamines to deoxyribonucleic acid. Spectrophotometric studiesJames W. Panter, David W. Boykin Jr., and W. David WilsonCite this: J. Med. Chem. 1973, 16, 12, 1366–1369Publication Date (Print):December 1, 1973Publication History Published online1 May 2002Published inissue 1 December 1973https://doi.org/10.1021/jm00270a010RIGHTS & PERMISSIONSArticle Views69Altmetric-Citations13LEARN 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 InReddit PDF (511 KB) Get e-Alerts Get e-Alerts
Production of H5-Specific Monoclonal Antibodies and the Development of a Competitive Enzyme-Linked Immunosorbent Assay for Detection of H5 Antibodies in Multiple Species (2010)

The hemagglutinin gene of an avian influenza virus (AIV) A/duck/NC/674964/07 (H5N2) was cloned and expressed in a baculovirus system (H5-Bac). In parallel, a recombinant hemagglutinin of A/Vietnam/1203/04 (H5N1) was expressed in mammalian cells, purified, and used for generation of H5-specific monoclonal antibodies (MAb). The purified H5-Bac was used to develop a competitive enzyme-linked immunosorbent assay (cELISA) to detect H5 antibodies in a species-independent approach using one of the established H5-specific MAbs as the competitor antibody. The cELISA performed with influenza antibody-free sera or with sera of animals infected with other than H5-encoding AIV showed no significant inhibition of H5-MAb binding, indicating high test specificity. In contrast, sera of poultry (chickens, turkeys, ducks) experimentally infected with H5-encoding AIV were able to significantly inhibit the binding of the MAb in a species-independent approach. Comparison of the results of the cELISA with results obtained by a hemagglutination inhibition assay showed a gradient of the sensitivity (turkeys > ducks > chicken). The described results show that H5-specific antibodies in sera can be detected in a species-independent approach by using a recombinant protein.
Real-time characterization of uptake kinetics of glioblastomavs.astrocytes in 2D cell culture using microelectrode array (2018)

Extracellular measurement of uptake/release kinetics and associated concentration dependencies provides mechanistic insight into the underlying biochemical processes. Due to the recognized importance of preserving the natural diffusion processes within the local microenvironment, measurement approaches which provide uptake rate and local surface concentration of adherent cells in static media are needed. This paper reports a microelectrode array device and a methodology to measure uptake kinetics as a function of cell surface concentration in adherent 2D cell cultures in static fluids. The microelectrode array simultaneously measures local concentrations at five positions near the cell surface in order to map the time-dependent concentration profile which in turn enables determination of surface concentrations and uptake rates, via extrapolation to the cell plane. Hydrogen peroxide uptake by human astrocytes (normal) and glioblastoma multiforme (GBM43, cancer) was quantified for initial concentrations of 20 to 500 μM over time intervals of 4000 s. For both cell types, the overall uptake rate versus surface concentration relationships exhibited non-linear kinetics, well-described by a combination of linear and Michaelis-Menten mechanisms and in agreement with the literature. The GBM43 cells showed a higher uptake rate over the full range of concentrations, primarily due to a larger linear component. Diffusion-reaction models using the non-linear parameters and standard first-order relationships are compared. In comparison to results from typical volumetric measurements, the ability to extract both uptake rate and surface concentration in static media provides kinetic parameters that are better suited for developing reaction-diffusion models to adequately describe behavior in more complex culture/tissue geometries. The results also highlight the need for characterization of the uptake rate over a wider range of cell surface concentrations in order to evaluate the potential therapeutic role of hydrogen peroxide in cancerous cells.
Superconductivity in an Inorganic Electride 12CaO·7Al2O3:e- (2007)

An inorganic electride, 12CaO·7Al2O3:e-, synthesized by exclusively replacing oxygen ions in the sub-nanometer-sized cages of 12CaO·7Al2O3 crystal with electrons exhibits a superconducting transition at a temperature (Tc) of ∼0.4 K. Tc varies in the range of 0.14−0.4 K with the concentration of anionic electrons, which are primarily distributed over crystallographic spaces without occupying any particular framework ions. The precursor of electride is composed of representative metal oxides, which are electrical insulators. Thus, the exotic crystal structure of electrides provides an insight for a material platform to realize a new superconductor.
A Reliable Topology for Efficient Key Distribution in Ad-Hoc Networks (Invited Paper) (2008)

Data confidentiality is one of the most important concerns in security of ad-hoc networks which have been widelystudiedin recentyears. Inthis paper, we considerthe public-keycryptographywhich is one of the simplest and viable means to maintain data confidentiality. There are several ways to distribute a public key. Flooding is an intuitive approach to distribute each node’s public key. However, the normal flooding approach is costly, and can cause MAClevel contention in a dense region of nodes. Tree based topologyflooding can be appied to mitigate these problems. The construction algorithm should use ideally only local information. In this paper, we propose a completely localized algorithm called the Local Tree-based Reliable Topology (LTRT) algorithm, which achieves both reliability and efficiency. LTRT is a localized version of TRT that has 2edge connectivity. Each node can distribute its public key to all other nodes in the network by LTRT. Simulation results show the efficiency of LTRT and its superiority over other localized algorithms.
Colloidal Dispersion Stability of CuPc Aqueous Dispersions and Comparisons to Predictions of the DLVO Theory for Spheres and Parallel Face-to-Face Cubes (2010)

The dispersion stability and the zeta potentials of nonspherical crystalline (beta-form) copper phthalocyanine (CuPc) particles of hydrodynamic diameter d(h) approximately = 90 nm were investigated at 25 degrees C in water and in aqueous solutions of NaNO(3). The electrolyte concentrations c ranged from 1 to 500 mM and the particle concentrations ranged from 50 to 10,000 ppm (0.005 to 1 wt %). In each case, the Fuchs-Smoluchowski stability ratio W was determined from dynamic light scattering (DLS) data and the Rayleigh-Debye-Gans (RDG) scattering theory. The data suggest that electrostatic effects play a major role in the stability of CuPc-based dispersions. The calculated particle charge z per CuPc particle based on the zeta potential data and the area of the particles (assumed to be cubical) suggests that there is preferential adsorption of NO(3)(-) ions on the uncharged CuPc surface, and the surface charge increases with increasing electrolyte concentration. Furthermore, two new models of the DLVO theory, for spheres and for parallel face-to-face cubes, were reformulated in dimensionless form. The Hamaker constant of CuPc particles was calculated by the same authors on the basis of theoretical models in J. Chem. Theory Comput. (2010, in press). The key dimensionless group is the ratio N of the electrostatic double layer energy to the Hamaker constant. The two DLVO models were used to predict the value of a dimensionless maximum potential energy Phi(max), the conditions when it may exist, and then the value of W. In water, the DLVO model for spheres overpredicted the stability, while the model for cubes underpredicted the stability. At c = 1 mM, both models overpredicted the stability. At c = 10 mM, the model for spheres underpredicted the stability, whereas the model for cubes overpredicted the stability. Hence, there seems to be some significant shape effects on the electrostatic stabilization of CuPc particle dispersions. At c = 100 and 500 mM, both models underpredicted the stability substantially, suggesting the existence of additional short-range repulsive forces, which may primarily control the stability. Simple sensitivity analysis on the calculations supported these conclusions.
WELL-DEFINED GLYCOPOLYMER ARCHITECTURES AND GLYCONANOPARTICLES FOR BIOMOLECULAR INTERACTIONS (2011)

International audience
Design of Switchable Chimeric Antigen Receptor T Cells Targeting Breast Cancer (2016)

Chimeric antigen receptor T (CAR-T) cells have demonstrated promising results against hematological malignancies, but have encountered significant challenges in translation to solid tumors. To overcome these hurdles, we have developed a switchable CAR-T cell platform in which the activity of the engineered cell is controlled by dosage of an antibody-based switch. Herein, we apply this approach to Her2-expressing breast cancers by engineering switch molecules through site-specific incorporation of FITC or grafting of a peptide neo-epitope (PNE) into the anti-Her2 antibody trastuzumab (clone 4D5). We demonstrate that both switch formats can be readily optimized to redirect CAR-T cells (specific for the corresponding FITC or PNE) to Her2-expressing tumor cells, and afford dose-titratable activation of CAR-T cells ex vivo and complete clearance of the tumor in rodent xenograft models. This strategy may facilitate the application of immunotherapy to solid tumors by affording comparable efficacy with improved safety owing to switch-based control of the CAR-T response.
Heterogeneity of Proteoglycans from Adult Human Costal Cartilage (1978)

Conference Article| February 01 1978 Heterogeneity of Proteoglycans from Adult Human Costal Cartilage JEFFREY P. PEARSON; JEFFREY P. PEARSON 2 1Department of Biochemistry, Charing Cross Hospital Medical School, University of London, Fulham Palace Road, London W6 8RF, U.K. Search for other works by this author on: This Site PubMed Google Scholar ROGER M. MASON ROGER M. MASON 1Department of Biochemistry, Charing Cross Hospital Medical School, University of London, Fulham Palace Road, London W6 8RF, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1978) 6 (1): 244–246. https://doi.org/10.1042/bst0060244 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share MailTo Twitter LinkedIn Cite Icon Cite Get Permissions Citation JEFFREY P. PEARSON, ROGER M. MASON; Heterogeneity of Proteoglycans from Adult Human Costal Cartilage. Biochem Soc Trans 1 February 1978; 6 (1): 244–246. doi: https://doi.org/10.1042/bst0060244 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 ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1978 Biochemical Society1978 Article PDF first page preview Close Modal You do not currently have access to this content.
Blind rectification of radial distortion by line straightness (2016)

Lens distortion self-calibration estimates the distortion model using arbitrary images captured by a camera. The estimated model is then used to rectify images taken with the same camera. These methods generally use the fact that built environments are line dominated and these lines correspond to lines on the image when distortion is not present. The proposed method starts by detecting groups of lines whose real world correspondences are likely to be collinear. These line groups are rectified, then a novel error function is calculated to estimate the amount of remaining distortion. These steps are repeated iteratively until suitable distortion parameters are found. A feature selection method is used to eliminate the line groups that are not collinear in the real world. The method is demonstrated to successfully rectify real images of cluttered scenes in a fully automatic manner.
In-Band Full-Duplex Wireless: Challenges and Opportunities (2013)

In-band full-duplex (IBFD) operation has emerged as an attractive solution for increasing the throughput of wireless communication systems and networks. With IBFD, a wireless terminal is allowed to transmit and receive simultaneously in the same frequency band. This tutorial paper reviews the main concepts of IBFD wireless. Because one the biggest practical impediments to IBFD operation is the presence of self-interference, i.e., the interference caused by an IBFD node's own transmissions to its desired receptions, this tutorial surveys a wide range of IBFD self-interference mitigation techniques. Also discussed are numerous other research challenges and opportunities in the design and analysis of IBFD wireless systems.
PreMSat: Preventing Magnetic Saturation Attack on Hall Sensors (2022)

Spoofing a passive Hall sensor with fake magnetic fields can inject false data into the downstream of connected systems. Several works have tried to provide a defense against the intentional spoofing to different sensors over the last six years. However, they either only work on active sensors or against externally injected unwanted weak signals (e.g., EMIs, acoustics, ultrasound, etc.), which can only spoof sensor output in its linear region. However, they do not work against a strong magnetic spoofing attack that can drive the passive Hall sensor output in its saturation region. We name this as the saturation attack. In the saturation region, the output gets flattened, and no information can be retrieved, resulting in a denial-of-service attack on the sensor.Our work begins to fill this gap by providing a defense named PreMSat against the saturation attack on passive Hall sensors. The core idea behind PreMSat is that it cangenerate an internal magnetic field having the same strength but in opposite polarity to external magnetic fields injected by an attacker. Therefore, the generated internal magnetic field by PreMSat can nullify the injected external field while preventing: (i) intentional spoofing in the sensor’s linear region, and (ii) saturation attack in the saturation region. PreMSat integrates a low-resistance magnetic path to collect the injected external magnetic fields and utilizes a finely tuned PID controller to nullify the external fields in real-time. PreMSat can prevent the magnetic saturation attack having a strength up to ∼4200 A-t within a frequency range of 0 Hz–30 kHz with low cost (∼$14), whereas the existing works cannot prevent saturation attacks with any strength. Moreover, it works against saturation attacks originating from any type, such as constant, sinusoidal, and pulsating magnetic fields. We did over 300 experiments on ten different industry-used Hall sensors from four different manufacturers to prove the efficacy of PreMSat and found that the correlation coefficient between the signals before the attack and after the attack is greater than 0.94 in every test case. Moreover, we create a prototype of PreMSat and evaluate its performance in a practical system — a grid-tied solar inverter. We find that PreMSat can satisfactorily prevent the saturation attack on passive Hall sensors in real-time.
Electrochemical Lithium Intercalation in Monoclinic Nb12O29 (2011)

Monoclinic Nb12O29 with Wadsley shear structure shows interstitial sites for Li intercalation/extraction reversibly in the voltage windows of 2.5−1.0 V. In spite of its metallic characteristic, samples with carbon coating show an improved rate capability.
High Capacity, Stable Silicon/Carbon Anodes for Lithium-Ion Batteries Prepared Using Emulsion-Templated Directed Assembly (2014)

Silicon (Si) is a promising candidate for lithium ion battery anodes because of its high theoretical capacity. However, the large volume changes during lithiation/delithiation cycles result in pulverization of Si, leading to rapid fading of capacity. Here, we report a simple fabrication technique that is designed to overcome many of the limitations that deter more widespread adoption of Si based anodes. We confine Si nanoparticles in the oil phase of an oil-in-water emulsion stabilized by carbon black (CB). These CB nanoparticles are both oil- and water-wettable. The hydrophilic/hydrophobic balance for the CB nanoparticles also causes them to form a network in the continuous aqueous phase. Upon drying this emulsion on a current collector, the CB particles located at the surfaces of the emulsion droplets form mesoporous cages that loosely encapsulate the Si particles that were in the oil. The CB particles that were in the aqueous phase form a conducting network connected to the CB cages. The space within the cages allows for Si particle expansion without transmitting stresses to the surrounding carbon network. Half-cell experiments using this Si/CB anode architecture show a specific capacity of ∼1300 mAh/g Si + C and a Coulombic efficiency of 97.4% after 50 cycles. Emulsion-templating is a simple, inexpensive processing strategy that directs Si and conducts CB particles to desired spatial locations for superior performance of anodes in lithium ion batteries.