gebhart/patrepeval huggingface dataset:
Brd2/RING3 Interacts with a Chromatin-Binding Domain in the Kaposi's Sarcoma-Associated Herpesvirus Latency-Associated Nuclear Antigen 1 (LANA-1) That Is Required for Multiple Functions of LANA-1 (2005)

Latency-associated nuclear antigen 1 (LANA-1) of Kaposi's sarcoma-associated herpesvirus (KSHV) mediates the episomal replication of the KSHV genome, as well as transcriptional regulation, in latently infected cells. Interaction of LANA-1 with cellular chromatin is required for both these functions. An N-terminal heterochromatin-binding site in LANA-1 is essential for the replication and maintenance of latent episomes, as well as transcriptional regulation. We have recently described a C-terminal domain in LANA-1 that modulates the interaction with cellular interphase chromatin or elements of the nuclear matrix. Here, we used a series of LANA-1 deletion mutants to investigate the relationship between the different functions of LANA-1 and its interaction with the host chromatin-binding protein Brd2/RING3. Our findings suggest that the C-terminal chromatin-binding domain in LANA-1 is required for multiple LANA-1 functions, including the ability to bind to and replicate viral episomal DNA, to modulate transcription, and to interact with Brd2/RING3. Similar to the recently described tethering of bovine papillomavirus E2 protein to host chromatin via Brd4/MCAP, Brd2/RING3, another member of the Brd family of chromatin-binding proteins, therefore interacts with a chromatin-binding region of another viral latent nuclear protein and could play a role in its multiple functions.
Localization and Object-Tracking in an Ultrawideband Sensor Network (2004)

Geometric information is essential for sensor networks. We study two kinds of geometric information. One is the positions of the nodes. The estimation of the positions of the nodes is called the localization problem. The other is the positions of objects in the sensor network. For the localization problem, We will study the Cramer Rao lower bound on it. For the anchor-free localization problem where no nodes have known positions, we propose a new bound on the variance of the estimation error, because the Fisher In-formation Matrix is singular. For the anchored localization problem using only local information, we derive a lower bound to the Cramer Rao bound on the position estima-tion. We find that the Cramer Rao bounds in both cases are invariant under zooming of the whole sensor network. We will also propose a novel two-step localization scheme. In the first step, we estimate an anchor-free coordinate system around every node. In the second step, we combine all the anchor-free coordinate systems together. Then using the anchored position information of some nodes, we transfer the anchor-free coordinate system into an anchored coordinate system. For the object position estimation problem, we study it in different scenarios in terms of number of nodes. There are three scenarios: single transmitter and sin-gle receiver, multiple transmitter (receiver) and single receiver (transmitter), multiple transmitter and multiple receiver. For each scenario, we give a position estimation scheme and analyze the performance of our scheme. The Cramer Rao bound for each scenario is also computed. We are particularly interested in the behavior of the Cramer Rao bound when the number of sensors in the network grows to infinity. We find that ii the Cramer Rao bound on object tracking is proportional to the reciprocal of the total received SNR. iii To my parents.
The network formation assay: a spatially standardized neurite outgrowth analytical display for neurotoxicity screening (2010)

We present a rapid, reproducible and sensitive neurotoxicity testing platform that combines the benefits of neurite outgrowth analysis with cell patterning. This approach involves patterning neuronal cells within a hexagonal array to standardize the distance between neighbouring cellular nodes, and thereby standardize the length of the neurite interconnections. This feature coupled with defined assay coordinates provides a streamlined display for rapid and sensitive analysis. We have termed this the network formation assay (NFA). To demonstrate the assay we have used a novel cell patterning technique involving thin film poly(dimethylsiloxane) (PDMS) microcontact printing. Differentiated human SH-SY5Y neuroblastoma cells colonized the array with high efficiency, reliably producing pattern occupancies above 70%. The neuronal array surface supported neurite outgrowth, resulting in the formation of an interconnected neuronal network. Exposure to acrylamide, a neurotoxic reference compound, inhibited network formation. A dose-response curve from the NFA was used to determine a 20% network inhibition (NI(20)) value of 260 microM. This concentration was approximately 10-fold lower than the value produced by a routine cell viability assay, and demonstrates that the NFA can distinguish network formation inhibitory effects from gross cytotoxic effects. Inhibition of the mitogen-activated protein kinase (MAPK) ERK1/2 and phosphoinositide-3-kinase (PI-3K) signaling pathways also produced a dose-dependent reduction in network formation at non-cytotoxic concentrations. To further refine the assay a simulation was developed to manage the impact of pattern occupancy variations on network formation probability. Together these developments and demonstrations highlight the potential of the NFA to meet the demands of high-throughput applications in neurotoxicology and neurodevelopmental biology.
Ohmic Contact Properties of Photo-Chemically Etched Nonpolar A-Plane GaN Films (2017)

Nonpolar a-plane GaN (a-GaN) was photo-chemically etched under ultraviolet illumination using alkali KOH solution, and the Ohmic contact properties on the etched a-GaN epitaxial layer were investigated. After photo-chemical etching, the striated surface morphology along the c-axis [0001] direction was obtained having triangular prisms consisting of m-plane facets. The properties of Ti/Al/Ni/Au Ohmic contact on surface-textured a-GaN films were studied with transmission line method patterns aligned along the specific crystal orientations. The minimum specific contact resistance of 9.97 × 10−5 Ω·cm2 was achieved along the c-axis on the etched GaN surface at the annealing temperature of 750°C. The etched a-GaN showed higher electrical conductivity along the c-axis than along m-axis. This anisotropic behavior is in contrast to that of the unetched a-GaN where carrier scattering by basal plane stacking faults in the direction perpendicular to the c-axis is a major factor in determining opposite anisotropic conductivity. The higher conductivity along the c-axis of the etched a-GaN film could be explained by more dominant effect of surface roughness scattering.
Detection of SNPs in Fish DNA: Application of the Fluorogenic Ribonuclease Protection (FRIP) Assay for the Authentication of Food Contents (2008)

The fluorogenic ribonuclease protection (FRIP) assay was used to detect single nucleotide polymorphisms (SNPs) in commercially produced fish products. By using fluorescence resonance energy transfer (FRET) between fluorophore and quencher labeled probes, the species-specific cleavage of sample RNA was detected by measuring the fluorescence intensity during the FRIP assay. We were able to discriminate raw and thermally processed eel and tuna species using the FRIP-based SNP detection method. Furthermore, the intensity of fluorescence was correlated with the mutant/wild-type ratio. These results suggest that the FRIP assay is a useful method for the in situ confirmation of labels of fishery foods during food production.
Characterization of Individual Filaments in a Multifilamentary YBCO Coated Conductor (2007)

Striation of wide YBCO coated conductor tapes is necessary to reduce the hysteresis losses. However, the processes used to striate the films may adversely affect the overall critical current of the tape not only by simple removal of superconducting material, but by introducing additional defects. We studied the transport properties of individual filaments of a filamentary YBCO tape on Hastelloy substrate striated by laser ablation. The tape consisted of 24 parallel filaments 0.5 mm wide, covered by thin Ag layer. I-V curves on 9 cm long filament sections as well as the changes of the critical current along the filament were measured at 77 K in magnetic fields up to 70 mT. 8 of 24 filaments were experimentally characterized by the mean value of the critical current and the associated n-value. The best filament had a critical current of ~7 A at 1 microvolt/cm and B = 0.
Curve linearization using digital to analogue technique in winterhardiness measurements of plants† (1968)

The winterhardiness or plant cell impedance versus frequency curve at the output of a telemetry data acquisition system follows a non-linear relationship, where the measure of winterhartlinosa is inversely proportional to the signal frequency. At the output of the acquisition system a fixed frequency (F) appears which represents the impedance of a fixed resistor limiting the current to the plant cell, A digital subtracter is used to eliminate F. The binary output of the subtracter is converted to analogue form by a resistive weighing system connected to an operational amplifier, connected as a summer. The output of the summer represents the digital output within acceptable limits.
Immune Dysfunction in Periparturient Dairy Cows: Evidence, Causes, and Ramifications (2014)

This information was presented at the 2014 Cornell Nutrition Conference for Feed Manufacturers, organized by the Department of Animal Science In the College of Agriculture and Life Sciences at Cornell University. Softcover copies of the entire conference proceedings may be purchased at http://ansci.cals.cornell.edu/extension-outreach/adult-extension/dairy-management/order-proceedings-resources or by calling (607)255-4285.
Motion-induced depth effect using a multiple-view dual-energy x-ray camera (2002)

A novel 3D X-ray imaging technique to enhance the visual interpretation of complex X-ray images routinely encountered in aviation security applications has been developed. The 3D information is visualised as a smooth object rotation on a video display monitor. Further work enabled motion parallax to be combined with binocular parallax to produce a dynamic stereoscopic display. This imaging technique is equally applicable to both standard monochrome X-ray imaging and dual-energy X-ray imaging. The latter exploits the difference in magnitude between a high energy X-ray signal and a low energy X-ray signal to compute materials discrimination information made available to the human observer by colour encoding the resultant images. To produce the required image data an integrated dual-energy X-ray camera incorporating a novel castellated dual-energy scintillator arrangement has been developed.
Comparative genomics of the genus Bifidobacterium (2010)

Whole-genome sequencing efforts have revolutionized the study of bifidobacterial genetics and physiology. Unfortunately, the sequence of a single genome does not provide information on bifidobacterial genetic diversity and on how genetic variability supports improved adaptation of these bacteria to the environment of the human gastrointestinal tract (GIT). Analysis of nine genomes from bifidobacterial species showed that such genomes display an open pan-genome structure. Mathematical extrapolation of the data indicates that the genome reservoir available to the bifidobacterial pan-genome consists of more than 5000 genes, many of which are uncharacterized, but which are probably important to provide adaptive abilities pertinent to the human GIT. We also define a core bifidobacterial gene set which will undoubtedly provide a new baseline from which one can examine the evolution of bifidobacteria. Phylogenetic investigation performed on a total of 506 orthologues that are common to nine complete bifidobacterial genomes allowed the construction of a Bifidobacterium supertree which is largely concordant with the phylogenetic tree obtained using 16S rRNA genes. Moreover, this supertree provided a more robust phylogenetic resolution than the 16S rRNA gene-based analysis. This comparative study of the genus Bifidobacterium thus presents a foundation for future functional analyses of this important group of GIT bacteria.
Anti-IFN-γ Autoantibodies in Disseminated Nontuberculous Mycobacterial Infections (2005)

Although many patients with disseminated nontuberculous mycobacterial disease have molecular defects in the IFN-gamma/IL-12 axis, recent case reports have shown autoantibodies against IFN-gamma associated with severe nontuberculous mycobacterial infections. To check this finding in an independent population, we screened 35 patients with either disseminated or pulmonary nontuberculous mycobacterial infections for whom no molecular defect was known. We identified high-titer-neutralizing anti-IFN-gamma IgG in the plasma of six patients. All six patients were female, parous, of East Asian descent, and had disseminated infection, predominantly with rapidly growing mycobacteria. The anti-IFN-gamma IgG had in vitro biological activity on the IFN-gamma-dependent phosphorylation of STAT-1 as well as on the IFN-gamma-dependent up-regulation of TNF-alpha and IL-12. In contrast, this anti-IFN-gamma Ab had no effect on IFN-alpha-dependent STAT-1 phosphorylation. These patients confirm a novel syndrome linking autoimmunity and immunodeficiency.
[Hepato-portal circulatory changes after splenorenal anastomosis]. (1980)

Hepatoportal circulation changes after the shunt were examined angiographically in 5 patients subjected to splenoportal anastomosis and splenectomy. Arterioportography was employed in all cases. Catheterisation of the anastomosis was carried out in 1 patient and suprahepatic phlebography in another. The anastomosis was found to be patent in all cases. A hepatopetal portal flow was noted solely in the two patients examined six days after surgery. Disappearance of hepatic portal perfusion was observed in one of these patients on the 15th postoperative day. Controls carried out one month, one year, and five years after the operation showed that the mesenteric-portal flow was fully deviated through the shunt towards the vena cava in all patients. Selective hepatic arteriography showed an inverted portal flow in 3 patients. An increase in the calibre of the trunk of the hepatic artery and the entire intrahepatic artery network was always present.
Evaluation of potential modifiers of the cardiac phenotype in the 22q11.2 deletion syndrome (2008)

Variation in the cardiac phenotype observed between individuals with a 22q11.2 deletion does not appear to be related to sex, race, or five sequence variants in four folate-related genes that are located outside of the 22q11.2 region.
New Expression for the Magnetic Properties of an Oriented Electrical Steel Sheet under Alternating Flux (Two-Dimensional Magnetic Properties). (1995)

This paper describes a new expression for the magnetic properties of an oriented silicon steel sheet under alternating flux. The expression is obtained by using a twodimensional magneitc measurement method with twodimensional excitation techniques. The conventional measurement method cannot express the magnetic properties of an oriented steel sheet correctly, and cannot be used for numerical field analysis, because the magnetic field strength H is not parallel to the magnetic flux density B in this type of steel. Magnetic properties have the nonlinearity of not only the magnitude but also the phase difference as vector relations between H and B . Magnetic properties based on the new expression were measured directly as a vector relation beween the H and B vectors.
Antihepatotoxic Effects of chlorogenic acid from <i>Anthocephalus cadamba</i> (1995)

Abstract In the present study, chlorogenic acid (CGA) isolated from Anthocephalus cadamba was screened for hepatoprotective activity by in vitro and in vivo assay methods using carbon tetrachloride (CCl 4 ) as a model of liver injury. Intraperitoneal administration of CGA to mice at a dose of 100 mg/kg body weight for 8 days caused significant reversal in lipid peroxidation, enzymatic leakage, cytochrome P450 (Cyt P450) inactivation and produced enhancement of cellular antioxidant defence in CCl 4 ‐intoxicated mice, revealing that the antioxidative action of CGA is responsible for its liver protective activity. CGA exhibited a better therapeutic protective action than silymarin (SM), in CCl 4 ‐administered mice.
Nucleation and Microalloying for Control of Nano-Structure Refinement (2009)

Abstract : Kinetic transformation studies in rapidly-quenched Al88Y7Fe5 alloys, under previous AFOSR support raised concern that they were not amorphous. The substitution of 0.5-2.0 at.% of the Al by Ti, Zr, and V produced glasses with improved stability against crystallization. Under funding from this grant we demonstrated that the Al88Y7Fe5 alloys are amorphous, but this is masked in devitrification studies because of the extremely high nucleation rates and low growth rates of alpha-Al. We have explored further the influence of microalloying by systematically adding small additions of each element in the 3d transition metal series. Primary crystallization is to alpha-Al for the early (Ti, V, Cr) and late (Co, Ni, Cu) 3d transition metals. For Mn and Fe, an intermetallic phase forms first, which is closer in composition to the original glass. Kinetic calorimetric and microstructural studies of devitrification show that the microadditions raise the nucleation barrier of the crystal phase and decrease the rate of diffusion-limited growth. Scanning probe fluctuation microscopy studies show that the microadditions change the medium-range order. Complementary atom probe tomography studies, supported by our NSF grant (DMR-0606065), show that the Ti microaddition suppresses a nanoscale phase separation in the Al88Y7Fe5 glass.
Microsomal epoxide hydrolase of rat liver. Purification and characterization of enzyme fractions with different chromatographic characteristics (1986)

Microsomal epoxide hydrolase was purified from rat liver, and different fractions of the purified enzyme, which varied in their contents of phospholipid, were obtained by ion-exchange chromatography. One fraction (A), which did not bind to CM-cellulose, had a high phospholipid content, and a second fraction (B), which was eluted from CM-cellulose at high ionic strength, had a low phospholipid content. Removal of most of the phospholipid from fraction A altered its chromatographic behaviour. When the delipidated material was re-applied to CM-cellulose, most of the enzyme bound to the cation-exchanger. The specific activities of all the fractions described (with styrene epoxide [(1,2-epoxyethyl)benzene] as substrate) were altered by adding the non-ionic detergent Lubrol PX or phospholipid. Lubrol PX inhibited enzyme activity, and phospholipid reversed this inhibition. The various enzyme fractions isolated appeared to be different forms of the same protein, as judged by their minimum Mr values and immunochemical properties. These results indicate that different fractions of epoxide hydrolase isolated by ion-exchange chromatography probably are not different isoenzyme forms.
Effect of Zymogen Domains and Active Site Occupation on Activation of Prothrombin by von Willebrand Factor-binding Protein (2012)

Prothrombin is conformationally activated by von Willebrand factor-binding protein (vWbp) from Staphylococcus aureus through insertion of the NH(2)-terminal residues of vWbp into the prothrombin catalytic domain. The rate of prothrombin activation by vWbp(1-263) is controlled by a hysteretic kinetic mechanism initiated by substrate binding. The present study evaluates activation of prothrombin by full-length vWbp(1-474) through activity progress curve analysis. Additional interactions from the COOH-terminal half of vWbp(1-474) strengthened the initial binding of vWbp to prothrombin, resulting in higher activity and an ∼100-fold enhancement in affinity. The affinities of vWbp(1-263) or vWbp(1-474) were compared by equilibrium binding to the prothrombin derivatives prethrombin 1, prethrombin 2, thrombin, meizothrombin, and meizothrombin(des-fragment 1) and their corresponding active site-blocked analogs. Loss of fragment 1 in prethrombin 1 enhanced affinity for both vWbp(1-263) and vWbp(1-474), with a 30-45% increase in Gibbs free energy, implicating a regulatory role for fragment 1 in the activation mechanism. Active site labeling of all prothrombin derivatives with D-Phe-Pro-Arg-chloromethyl ketone, analogous to irreversible binding of a substrate, decreased their K(D) values for vWbp into the subnanomolar range, reflecting the dependence of the activating conformational change on substrate binding. The results suggest a role for prothrombin domains in the pathophysiological activation of prothrombin by vWbp, and may reveal a function for autocatalysis of the vWbp·prothrombin complexes during initiation of blood coagulation.
Aberrant secondary antibody responses to sheep erythrocytes in rabbits with experimental syphilis (1979)

Rabbits infected with Treponema pallidum have strikingly depressed in vivo immunoglobulin G responses to sheep erythrocytes. To gain further insight into the nature of this suppression, the immune responses of splenic and peripheral blood lymphocytes from infected rabbits to sheep erythrocytes were studied in vitro. Spleen cells from rabbits that had been sensitized with sheep erythrocytes during active syphilis had greatly decreased immunoglobulin M and G responses after in vitro incubation with sheep erythrocytes, when compared to the results obtained with cells from sensitized uninfected animals. Suppressor cells could be demonstrated in peripheral blood lymphocytes of control rabbits 6 months after sensitization with sheep erythrocytes; these cells could be removed by nylon wool filtration. When primary sensitization with sheep erythrocytes was carried out during active syphilis, these suppressor cells were not detectable in peripheral blood lymphocytes 6 to 9 months later. These findings provide further evidence that induction of immune responses may be abnormal early in treponemal infection and may help to explain the failure of the host to produce antibodies which eradicate the organism during the first 2 to 3 months of infection.
Effect of Cleaning Parameters on Cleaning Effectiveness in an SEM Equipped with an RF Plasma Anti-Contamination Device (2007)

Extract Extended abstract of a paper presented at Microscopy and Microanalysis 2007 in Ft. Lauderdale, Florida, USA, August 5 – August 9, 2007
Les Lieux de Vidéo : International Video Art Exhibition (1993)

In essays discussing themes of video art through specific works, Fargier aligns video with television rather than film, presenting it as a medium of the voice; Steininger explores the precarious status of the documentary gesture in video; Gagnon discusses irony and the distinction between fiction and feint; and Turim examines the presentation of works of non-video art in video. Includes a statement on United Medium Arts Studies (UMAS). 19 bibl. ref.