gebhart/patrepeval huggingface dataset:
Boron Nitride–Graphene Nanocapacitor and the Origins of Anomalous Size-Dependent Increase of Capacitance (2014)

Conventional wisdom suggests that decreasing dimensions of dielectric materials (e.g., thickness of a film) should yield increasing capacitance. However, the quantum capacitance and the so-called "dead-layer" effect often conspire to decrease the capacitance of extremely small nanostructures, which is in sharp contrast to what is expected from classical electrostatics. Very recently, first-principles studies have predicted that a nanocapacitor made of graphene and hexagonal boron nitride (h-BN) films can achieve superior capacitor properties. In this work, we fabricate the thinnest possible nanocapacitor system, essentially consisting of only monolayer materials: h-BN with graphene electrodes. We experimentally demonstrate an increase of the h-BN films' permittivity in different stack structures combined with graphene. We find a significant increase in capacitance below a thickness of ∼5 nm, more than 100% of what is predicted by classical electrostatics. Detailed quantum mechanical calculations suggest that this anomalous increase in capacitance is due to the negative quantum capacitance that this particular materials system exhibits.
Gene therapy-mediated delivery of targeted cytotoxins for glioma therapeutics (2010)

Restricting the cytotoxicity of anticancer agents by targeting receptors exclusively expressed on tumor cells is critical when treating infiltrative brain tumors such as glioblastoma multiforme (GBM). GBMs express an IL-13 receptor (IL13Rα2) that differs from the physiological IL4R/IL13R receptor. We developed a regulatable adenoviral vector (Ad.mhIL-4.TRE.mhIL-13-PE) encoding a mutated human IL-13 fused to Pseudomonas exotoxin (mhIL-13-PE) that specifically binds to IL13Rα2 to provide sustained expression, effective anti-GBM cytotoxicity, and minimal neurotoxicity. The therapeutic Ad also encodes mutated human IL-4 that binds to the physiological IL4R/IL13R without interacting with IL13Rα2, thus inhibiting potential binding of mhIL-13-PE to normal brain cells. Using intracranial GBM xenografts and syngeneic mouse models, we tested the Ad.mhIL-4.TRE.mhIL-13-PE and two protein formulations, hIL-13-PE used in clinical trials (Cintredekin Besudotox) and a second-generation mhIL-13-PE. Cintredekin Besudotox doubled median survival without eliciting long-term survival and caused severe neurotoxicity; mhIL-13-PE led to ∼40% long-term survival, eliciting severe neurological toxicity at the high dose tested. In contrast, Ad-mediated delivery of mhIL-13-PE led to tumor regression and long-term survival in over 70% of the animals, without causing apparent neurotoxicity. Although Cintredekin Besudotox was originally developed to target GBM, when tested in a phase III trial it failed to achieve clinical endpoints and revealed neurotoxicity. Limitations of Cintredekin Besudotox include its short half-life, which demanded frequent or continued administration, and binding to IL4R/IL13R, present in normal brain cells. These shortcomings were overcome by our therapeutic Ad, thus representing a significant advance in the development of targeted therapeutics for GBM.
The Distributed Computing Paradigms: P2P, Grid, Cluster, Cloud, and Jungle (2013)

The distributed computing is done on many systems to solve a large scale problem. The growing of high-speed broadband networks in developed and developing countries, the continual increase in computing power, and the rapid growth of the Internet have changed the way. In it the society manages information and information services. Historically, the state of computing has gone through a series of platform and environmental changes. Distributed computing holds great assurance for using computer systems effectively. As a result, supercomputer sites and data centers have changed from providing high performance floating point computing capabilities to concurrently servicing huge number of requests from billions of users. The distributed computing system uses multiple computers to solve large-scale problems over the Internet. It becomes data-intensive and network-centric. The applications of distributed computing have become increasingly wide-spread. In distributed computing, the main stress is on the large scale resource sharing and always goes for the best performance. In this article, we have reviewed the work done in the area of distributed computing paradigms. The main stress is on the evolving area of cloud computing.
Solar-blind AlxGa1−xN/AlN/SiC photodiodes with a polarization-induced electron filter (2013)

Heterogeneous n-III-nitride/i-p silicon carbide (SiC) photodetectors have been demonstrated that enable the tailoring of the spectral response in the solar blind region below 280 nm. The negative polarization induced charge at the aluminum gallium nitride (AlxGa1−xN)/aluminum nitride (AlN) interface in conjunction with the positive polarization charge at the AlN/SiC interface creates a large barrier to carrier transport across the interface that results in the selective collection of electrons photoexcited to the Γ and L valleys of SiC while blocking the transport of electrons generated in the M valley. In addition, the AlxGa1−xN alloys act as transparent windows that enhance the collection of carriers generated by high energy photons in the fully depleted SiC absorption regions. These two factors combine to create a peak external quantum efficiency of 76% at 242 nm, along with a strong suppression of the long-wavelength response from 260 nm to 380 nm.
Genetic Targeting of Green Fluorescent Protein to Gonadotropin-Releasing Hormone Neurons: Characterization of Whole-Cell Electrophysiological Properties and Morphology1 (2000)

GnRH neurons form the final common pathway for central control of reproduction, with regulation achieved by changing the pattern of GnRH pulses. To help elucidate the neurobiological mechanisms underlying pulsatile GnRH release, we generated transgenic mice in which the green fluorescent protein (GFP) reporter was genetically targeted to GnRH neurons. The expression of GFP allowed identification of 84–94% of immunofluorescently-detected GnRH neurons. Conversely, over 99.5% of GFP-expressing neurons contained immunologically detectable GnRH peptide. In hypothalamic slices, GnRH neurons could be visualized with fluorescence, allowing for identification of individual GnRH neurons for patch-clamp recording and subsequent morphological analysis. Whole-cell current-clamp recordings revealed that all GnRH neurons studied (n = 23) fire spontaneous action potentials. Both spontaneous firing (n = 9) and action potentials induced by injection of depolarizing current (n = 17) were eliminated by tetrodotoxin, indicating that voltage-dependent sodium channels are involved in generating action potentials in these cells. Direct intracellular morphological assessment of GnRH dendritic morphology revealed GnRH neurons have slightly more extensive dendrites than previously reported. GnRH-GFP transgenic mice represent a new model for the study of GnRH neuron structure and function, and their use should greatly increase our understanding of this important neuroendocrine system.
Detection of Variations of Local Irregularity of Traffic under DDOS Flood Attack (2008)

The aim of distributed denial‐of‐service (DDOS) flood attacks is to overwhelm the attacked site or to make its service performance deterioration considerably by sending flood packets to the target from the machines distributed all over the world. This is a kind of local behavior of traffic at the protected site because the attacked site can be recovered to its normal service state sooner or later even though it is in reality overwhelmed during attack. From a view of mathematics, it can be taken as a kind of short‐range phenomenon in computer networks. In this paper, we use the Hurst parameter ( H ) to measure the local irregularity or self‐similarity of traffic under DDOS flood attack provided that fractional Gaussian noise (fGn) is used as the traffic model. As flood attack packets of DDOS make the H value of arrival traffic vary significantly away from that of traffic normally arriving at the protected site, we discuss a method to statistically detect signs of DDOS flood attacks with predetermined detection probability and false alarm probability.
Relaxed partitioning balance constraints in top-down placement (2002)

Recent work of Simon and Teng (1997) observes that the recursive bisection (i.e., bipartitioning with equal partition target areas, and minimum possible allowed deviation from targets) heuristic for k-way minimum-cut graph partitioning can have unbounded error, but that relaxing the balance constraints in each call to the bipartitioning engine can result in k-way net cuts within a small (O(logk)) factor of optimal. Motivated by this result, we experimentally determine whether relaxing the traditional exact bisection constraint in a top-down partitioning-based placement tool can improve the resulting cutsizes, and hence total wirelength, of the placement solution. We find that this simple change reduces total wirelength by up to several percent, with no change in placement uniformity and under 10% runtime penalty. Finally, we observe that the stability (predictability) of the placement process appears unimpaired by this modification: both wirelength stability, and stability of Rent parameter based wirelength and wireability estimates, appear to be preserved.
In Vitro Inhibitory Effects of 8-<i>O</i>-Demethylmaritidine and Undulatine on Acetylcholinesterase and Their Predicted Penetration across the Blood–Brain Barrier (2015)

Alzheimer's disease is the most common cause of dementia. Currently, acetylcholinesterase (AChE) inhibition is the most widely used therapeutic treatment. A large number of naturally occurring compounds have been found to inhibit AChE. In this report the mechanism of AChE inhibition of two Amaryllidaceae alkaloids, 8-O-demethylmaritidine (1) and undulatine (2), and their possible penetration across the blood-brain barrier have been studied. Both compounds act via a mixed inhibition mechanism. Based on the parallel artificial permeation assay (PAMPA) for the prediction of blood-brain barrier (BBB) penetration, only 2 should be able to cross the BBB by passive permeation.
GSM subscriber management on top of a generic TMN agent (2005)

Network management has become a vital feature for telecommunications service providers and equipment manufacturers. This paper presents a two-piece design and implementation of the telecommunications management network (TMN) recommendations of ITU utilized in the digital cellular mobile telecommunications system, global system for mobile communications (GSM). The subscriber administration of the network and switching sub-system (NSS) from the operations system (OS) was accomplished by utilizing the TMN concept on top of a general purpose TMN agent platform in the NSS. The design and implementation of the general purpose TMN agent platform was done to accomplish a well behaving and easily extendable environment to be used in wide variety of telecommunications applications.
Methods for Mass Rearing of Aedes aegypti (L.) (1963)

LABORATORY rearing of Aedes aegypti 1 (L.) has been a common procedure among entomologists and other scientists for about 50 years.Many improvements in equipment and techniques have been developed (1-3), and production by these methods has proved ade¬ quate for studies using as many as several thousand specimens.Experiments on dispersal (4) and on control by release of sexually sterile males (5, 6), however, require the sustained production of millions of specimens.This paper describes equipment and procedures de¬ veloped during 1955 and 1956 for rearing broods of as many as 1.3 million larvae. ProceduresMaintenance of adult colonies.The strain of A. aegypti used in the studies had been main¬ tained in the Technical Development Labora¬ tories of the Communicable Disease Center in Savannah, Ga., since 1944.Two laboratory rooms, each 10 by 13 by 10 feet and maintained at about 80°F.and 80 percent relative humi¬ dity, were required for the mass production of A. aegypti.One room was used for adult colonies, emergence cages, and egg storage.The second room contained the larval rearing trays.
Mutagenesis of essential functional residues in acetylcholinesterase. (1990)

The cholinesterases are serine hydrolases that show no global similarities in sequence with either the trypsin or the subtilisin family of serine proteases. The cholinesterase superfamily includes several esterases with distinct functions and other proteins devoid of the catalytic serine and known esterase activity. To identify the residues involved in catalysis and conferring specificity on the enzyme, we have expressed wild-type Torpedo acetylcholinesterase (EC 3.1.1.7) and several site-directed mutants in a heterologous system. Mutation of serine-200 to cysteine results in diminished activity, while its mutation to valine abolishes detectable activity. Two conserved histidines can be identified at positions 425 and 440 in the cholinesterase family; glutamine replacement at position 440 eliminates activity whereas the mutation at 425 reduces activity only slightly. The assignment of the catalytic histidine to position 440 defines a rank ordering of catalytic residues in cholinesterases distinct from trypsin and subtilisin and suggests a convergence of a catalytic triad to form a third, distinct family of serine hydrolases. Mutation of glutamate-199 to glutamine yields an enzyme with a higher Km and without the substrate-inhibition behavior characteristic of acetylcholinesterase. Hence, modification of the acidic amino acid adjacent to the serine influences substrate association and the capacity of a second substrate molecule to affect catalysis.
Construction of Self‐Reporting Specific Chemical Sensors with High Sensitivity (2007)

An imprinted photonic polymer constructed by colloidal crystal and molecular imprinting technologies shows specific and rapid recognition with high sensitivity to the protein template, as demonstrated by shifts in the photonic crystal stop band (see figure) when it is soaked in various concentrations of proteins. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2089/2007/c1084_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
A CRISPR Activation Screen Identifies a Pan-avian Influenza Virus Inhibitory Host Factor (2017)

Influenza A virus (IAV) is a pathogen that poses significant risks to human health. It is therefore critical to develop strategies to prevent influenza disease. Many loss-of-function screens have been performed to identify the host proteins required for viral infection. However, there has been no systematic screen to identify the host factors that, when overexpressed, are sufficient to prevent infection. In this study, we used CRISPR/dCas9 activation technology to perform a genome-wide overexpression screen to identify IAV restriction factors. The major hit from our screen, B4GALNT2, showed inhibitory activity against influenza viruses with an α2,3-linked sialic acid receptor preference. B4GALNT2 overexpression prevented the infection of every avian influenza virus strain tested, including the H5, H9, and H7 subtypes, which have previously caused disease in humans. Thus, we have used CRISPR/dCas9 activation technology to identify a factor that can abolish infection by avian influenza viruses.
Introduction of biocides into clinical practice and the impact on antibiotic-resistant bacteria (2002)

Biocides and other antimicrobial agents have been employed for centuries. Much later, iodine found use as a wound disinfectant, chlorine water in obstetrics, alcohol as a hand disinfectant and phenol as a wound dressing and in antiseptic surgery. In the early part of the twentieth century, other chlorine-releasing agents (CRAs), and acridine and other dyes were introduced, as were some quaternary ammonium compounds (QACs, although these were only used as biocides from the 1930s). Later still, various phenolics and alcohols, formaldehyde and hydrogen peroxide were introduced and subsequently (although some had actually been produced at an earlier date) biguanides, iodophors, bisphenols, aldehydes, diamidines, isocyanurates, isothiazolones and peracetic acid. Antibiotics were introduced clinically in the 1940s, although sulphonamides had been synthesized and used previously. After penicillin came streptomycin and other aminoglycosides-aminocyclitols, tetracyclines, chloramphenicol, macrolides, semi-synthetic beta-lactams, glycopeptides, lincosamides, 4-quinolones and diaminopyrimidines. Bacterial resistance to antibiotics is causing great concern. Mechanisms of such resistance include cell impermeability, target site mutation, drug inactivation and drug efflux. Bacterial resistance to biocides was described in the 1950s and 1960s and is also apparently increasing. Of the biocides listed above, cationic agents (QACs, chlorhexidine, diamidines, acridines) and triclosan have been implicated as possible causes for the selection and persistence of bacterial strains with low-level antibiotic resistance. It has been claimed that the chronological emergence of qacA and qacB determinants in clinical isolates of Staphylococcus aureus mirrors the introduction and usage of cationic biocides.
Quasi-atomistic Receptor Surrogates for the 5-HT2A Receptor: A 3D-QSAR Study on Hallucinogenic Substances (1999)

The 5-HT2A receptor is known to act as the biological target for a series of hallucinogenic substances including substituted phenylalkylamines, tryptamines and LSD. A prerequisite for a hallucinogenic effect is an agonistic binding mode to the high-affinity state of the receptor. Attempts to establish a quantitative structure-activity relationship for such compounds are typically based on homology models or 3D-QSAR. In this paper, we describe a surrogate for the 5-HT2A receptor derived by means of quasi-atomistic receptor modeling (software Quasar), a more recently developed 3D-QSAR technique. This approach allows for the simulation of local induced fit, H-bond flip-flop, and solvation phenomena. The QSARs are established based on a family of receptor-surface models, generated by a genetic algorithm combined with cross-validation. The surrogate for the 5-HT2A receptor yielded a cross-validated q2 of 0.954 for the 23 compounds defining the training set. A series of 7 test compounds was then used to validate the model, resulting in a RMS deviation of 0.40 kcal/mol between ΔG0prd. and ΔG0exp.. The largest individual deviation was 0.61 kcal/ mol, corresponding to an uncertainty of a factor 2.7 in the binding affinity. A scramble test with negative outcome (q2=0.144, slope=−0.019) demonstrates the sensitivity of the model with respect to the biological data. Subsequently, the surrogate was used to estimate the activity of a series of 53 hypothetical congeneric compounds, some of which are predicted to be close in activity to LSD.
High frequency modeling for 10 Gbps DFB laser diode module packaging (2002)

In packaging the laser diode several electrical requirements must be satisfied. The conventional packaging method which consists of transmission line, matching resistor and wire bonding interconnect showed good result for the modulation bandwidth requirement of greater than 10 GHz. However the return loss requirement was not content with less than -10 dB. To analyze the effects of package parasitics on return loss, we proposed a small signal circuit model of a laser diode module. From the small signal measurement data, we obtained the small signal circuit model of the laser diode for each bias current, which contains package parasitics and intrinsic laser diode characteristics. Considering both the intrinsic laser diode characteristics and total parasitic effects of the packaged module, the overall frequency response of the laser diode module was simulated and compared to the experimental results. The simulation results on the small signal modulation bandwidth and return loss showed a good agreement with measurements. However, the return loss does not meet the requirement for 10 Gbps laser diode module. Therefore, the wire bonding effect on the return loss was analyzed. The characteristics of wire bonding inductance which affect the return loss were simulated using an interconnect analysis program. As a result, shorter wire bonding length would be the best step to reduce the package induced inductance.
Processing of the lipocalin α1-microglobulin by hemoglobin induces heme-binding and heme-degradation properties (2002)

Alpha(1)-microglobulin is a 26-kd protein, widespread in plasma and tissues and well-conserved among vertebrates. Alpha(1)-microglobulin belongs to the lipocalins, a protein superfamily with highly conserved 3-dimensional structures, forming an internal ligand binding pocket. The protein, isolated from urine, has a heterogeneous yellow-brown chromophore bound covalently to amino acid side groups around the entrance of the lipocalin pocket. Alpha(1)-microglobulin is found in blood both in free form and complex-bound to immunoglobulin A (IgA) via a half-cystine residue at position 34. It is shown here that an alpha(1)-microglobulin species, which we name t-alpha(1)-microglobulin (t = truncated), with a free Cys34 thiol group, lacking its C-terminal tetrapeptide, LIPR, and with a more polar environment around the entrance of the lipocalin pocket, is released from IgA-alpha(1)-microglobulin as well as from free alpha(1)-microglobulin when exposed to the cytosolic side of erythrocyte membranes or to purified oxyhemoglobin. The processed t-alpha(1)-microglobulin binds heme and the alpha(1)-microglobulin-heme complex shows a time-dependent spectral rearrangement, suggestive of degradation of heme concomitantly with formation of a heterogeneous chromophore associated with the protein. The processed t-alpha(1)-microglobulin is found in normal and pathologic human urine, indicating that the cleavage process occurs in vivo. The results suggest that alpha(1)-microglobulin is involved in extracellular heme catabolism.
Small-volume multiparametric electrochemical detection at low cost polymeric devices featuring nanoelectrodes (2015)

The development of a low-cost multiparametric platform for enzymatic electrochemical biosensing that can be integrated in a disposable, energy autonomous analytical device is the target of the current work. We propose a technology to fabricate nano-electrodes and ultimately biosensors on flexible polymeric-based substrates (cyclo olefin polymer, and polyimide) using standard microfabrication (step and repeat lithography and lift-off) and rapid prototyping techniques (blade cutting). Our target is towards the fabrication of a miniaturized prototype that can work with small sample volumes in the range of 5-10μL without the need for external pumps for sample loading and handling. This device can be used for the simultaneous detection of metabolites such as glucose, cholesterol and triglycerides for the early diagnosis of diabetes.