gebhart/patrepeval huggingface dataset:
Efficiency of Onco-Retroviral and Lentiviral Gene Transfer into Primary Mouse and Human B-Lymphocytes Is Pseudotype Dependent (2003)

B lymphocytes are attractive targets for gene therapy of genetic diseases associated with B-cell dysfunction and for immunotherapy. Transduction of B lymphocytes was evaluated using green fluorescent protein (GFP)-encoding onco-retroviral and HIV-derived lentiviral vectors which were pseudotyped with ecotropic, amphotropic or vesicular stomatitis virus (VSV-G) envelopes. Transduction of mouse B lymphocytes activated with lipopolysaccharides (LPS) or by cross-linking CD40 in conjunction with interleukin-4 (IL-4) was significantly more efficient (p < 0.003) with ecotropic (11%) than with VSV-G pseudotyped onco-retroviral vectors (1%). Using high-titer cell-free ecotropic viral supernatant or by coculture with ecotropic onco-retroviral vector-producing cells, transduction efficiency increased significantly (p < 0.001) to approximately 50%, whereas transduction efficiency by coculture with VSV-G pseudotyped vector-producing cells remained low (< 2%). Similarly, transduction of mouse B lymphocytes was significantly more efficient (twofold, p < 0.01) with the ecotropic (7%) than with the VSV-G pseudotyped lentiviral vectors although gene transfer efficiency remained low because of dose-limiting toxicity of the concentrated vector preparations on the LPS-activated murine B cells. Consistent with murine B-cell transduction, human B cells activated with CD40L and IL-4 were also found to be relatively refractory to VSV-G pseudotyped onco-retroviral vectors (< 1%). However, higher transduction efficiencies could be achieved in activated primary human B lymphocytes using VSV-G pseudotyped lentiviral vectors instead (5%-6%). Contrary to the significant increase in mouse B-cell transduction efficiency with ecotropic vectors, the use of amphotropic onco-retroviral or lentiviral vectors did not increase transduction efficiency in primary human B cells. The present study shows that the transduction efficiency of onco-retroviral and lentiviral vectors in human and mouse B lymphocytes is pseudotype-dependent and challenges the widely held assumption that VSV-G pseudotyping facilitates gene transfer into all cell types.
Evidence for neuronal degeneration and dendritic plasticity in cortical pyramidal neurons of Huntington's disease (1993)

Aided by a computer microscope, the Eutectic Neuron Tracing System, we performed a quantitative analysis of 59 rapid Golgi-impregnated pyramidal neurons from the third and fifth prefrontal cortical layers (P III and P V neurons) in tissue sections obtained from seven autopsied Huntington's disease (HD) patients (grades 2 through 4) and 59 corresponding cells from eight age-matched control cases. Relative to controls, P III HD neurons had a significant increase in the number of primary dendritic segments arising from soma, total dendritic length, and total surface area. The HD cells also had significantly more dendritic branches at three intervals of measurement in a Sholl diagram (100 microns, 200 microns, and 400 microns from the soma) and a significant increase in the number of dendritic branching points. The dendritic spine density in P III HD neurons was comparable to that of control subjects and significantly lower than that in P V HD cells. The total number and the total density of dendritic swellings were significantly increased in both P III and P V neurons, being most numerous in grades 2 and 3 cases. Rare withered cells with shrunken dendritic trees, harboring few spines and numerous varicosities on their dendritic shafts, were present in HD but not in control cases. Thus, while a small fraction of prefrontal cortical pyramidals degenerates in HD, the plasticity of the remaining pyramidal neurons, evidenced as an orderly augmentation of the dendritic tree, may represent a compensatory response sufficient to maintain relatively normal metabolic function of the cortex in most adult-onset cases.
Diagnosing a priori unknown faultsby modified supervised-unsupervised learning algorithm (2001)

Experts should analyse systems in order to define would-be faults in systems. As a result of this analysis, there will be a set of priori known faults supporting off-line teaching of neural networks. Unfortunately, it is impossible to define all faults in the design phase. As a result, a priori unknown faults may appear in systems. A priori unknown faults modify the distribution of the input patterns and the homogeneity of assignments of input patterns to the output space. The change in distribution of input patterns may modify clusters. It may either rearrange existing clusters moving their borders or add a new cluster to the existing clusters and re-arrange clusters around the new cluster. The change in homogeneity of assignment may affect the class-cluster assignment. It may either re-assign clusters to the existing classes or may add new class and reassigns clusters to the existing classes and the new class. To identify changes in distribution of input patterns and in assignment of features and classes the average proximity and the class homogeneity is used, respectively. After appearing a priori unknown faults the RBF neural network was upgraded using a modified supervised-unsupervised learning algorithm taking into account the distribution and homogeneity values.
Top-level activity-driven clock tree synthesis with clock skew variation considered (2016)

Clock gating is recognized as one of the most effective techniques to reduce the dynamic power consumption. Many research efforts have been paid to build activity-driven clock trees for low power designs. On the other hand, as the feature size continues to shrink, the on-chip-variation (OCV) effect has become a serious concern, especially for the clock skew of the top-level clock tree. Based on this observation, in this paper, we present the first work for the synthesis of OCV-aware top-level activity-driven clock trees. In our approach, the clock skew variation is considered during the top-level activity-driven clock tree synthesis. Our objective is to minimize the weighted sum of the worst timing slack and the power consumption. Compared with previous works, benchmark data consistently show that our approach can greatly increase the worst timing slack with a small overhead on the power consumption.
Recent Advances in Self-Emulsifying Drug Delivery Systems (SEDDS) (2014)

One of the biggest challenges confronting the contemporary drug delivery science today is to improve on the oral bioavailability of a vast number of drugs exhibiting poor and inconsistent gastrointestinal absorption. Self-emulsifying drug delivery systems (SEDDS) have been proved as highly useful technological innovations to surmount such bioavailability hiccups by virtue of their diminutive globule size, higher solubilization tendency for hydro-phobic drugs, robust formulation advantages, and easier scalability in the industrial milieu. Besides, these systems are also known to inhibit the P-glycoprotein (P-gp) efflux, reduce metabolism by gut Cytochrome P-450 enzymes, and circumnavigate the hepatic first-pass effect, facilitating absorption of drugs via intestinal lymphatic pathways. In the last two decades, the phenomenal success of SEDDS as a potential tool for oral delivery of drugs has extrapolated their applications to non-oral delivery also. Various innovative approaches and patented techniques have been reported on formulation of diverse oral and non-oral self-emulsifying (SE) systems not only of various synthetic and semisynthetic drugs, but also of several phytopharmaceuticals, nutraceuticals, and biological macromolecules. Of late, an escalating number of reports have been pouring in on special types of SE systems, mostly nanosized, employing functional excipients such as polar lipids, phospholipids, cellulosic polymer, diblock polymers, etc. This review paper provides an updated bird's-eye view account on the publications and patents of such novel SE approaches for use in both oral and non-oral therapeutics. Providing a relatively pithy overview, this paper thus endeavors to act as a repertoire of knowledge and know-how to guide the product development scientist in formulating variegated SE systems.
The Immunobiology of Immunoglobulin G4 (2016)

Human immunoglobulin G4 (IgG4) antibodies are in many ways unusual. In this review, an overview is given of the structural and functional aspects of IgG4 antibodies, the consequences of IgG4 antibody formation in various disease settings, and the factors involved in the regulation of IgG4 responses. Unlike most IgG antibodies, IgG4 antibodies exist in a dynamic equilibrium with other IgG4 antibodies, continuously exchanging half-molecules resulting in effectively monovalent antibodies that cannot cross-link. Together with the low affinities to C1q and most Fc receptors, and a generally high affinity for antigen, IgG4 antibodies appear to be nature's way of producing "blocking antibodies." On the one hand, IgG4 may contribute to tolerance to allergens, presumably via competition with IgE. Also, IgG4 immune responses to filarial parasites might prevent excessive immune reactions during such infections. On the other hand, IgG4 autoantibodies may be pathogenic, simply because they inhibit the function of their target molecules. Furthermore, IgG4 antibodies to biologicals may result in secondary loss of response. In addition, IgG4 has been implicated to impair humoral immunity to tumors. The role of high IgG4 serum levels in IgG4-related disease has not yet been established. Regulation of IgG4 responses is most likely a multifactorial process, which in vivo requires prolonged or repeated challenge with antigen, and is associated with regulatory T cells, T helper 2 cells, interleukin- (IL-) 4, and IL-10. In vitro, cytokines like IL-4, IL-13, IL-10, and IL-21 have been shown to differentially influence IgG4 production. The properties of IgG4 B cells have now started to be elucidated, and may provide additional clues to explain the unusual dynamics of IgG4-antibody responses.
Biochemical Approaches to Herbicide Discovery: Advances in Enzyme Target Identification and Inhibitor Design (1996)

This paper focuses primarily on the means by which biochemical information can be used to identify enzymes which, upon inhibition, produce lethal phenotypes and the enzyme inhibitor design strategies that have the highest probability of not only inhibiting the enzyme but also translating that inhibition into herbicidal efficacy. The identification of an exquisitely lethal target site is the key initial component to this approach and has often been one of the most difficult steps because the attributes of a lethal site have, at best, been ill-defined. An examination of the characteristics of known targets provides some insight as to the definition of a lethal target. Recently, antisense RNA suppression of enzyme translation has been used to determine the extent of inhibition required for toxicity and offers potential as a strategy for identifying lethal target sites. After identification of a lethal target, detailed knowledge of the enzyme's chemical and kinetic mechanism as well as the protein's structure may be used to design potent inhibitors. Various types of inhibitors may be designed for a given enzyme. The advantages and disadvantages of a given type with respect to in vivo efficacy as well as the probability of herbicide resistance development will be discussed.
Switchable constraints for robust pose graph SLAM (2012)

Current SLAM back-ends are based on least squares optimization and thus are not robust against outliers like data association errors and false positive loop closure detections. Our paper presents and evaluates a robust back-end formulation for SLAM using switchable constraints. Instead of proposing yet another appearance-based data association technique, our system is able to recognize and reject outliers during the optimization. This is achieved by making the topology of the underlying factor graph representation subject to the optimization instead of keeping it fixed. The evaluation shows that the approach can deal with up to 1000 false positive loop closure constraints on various datasets. This largely increases the robustness of the overall SLAM system and closes a gap between the sensor-driven front-end and the back-end optimizers.
Simulating the three-dimensional distribution of sediment units in braided-stream deposits (1994)

Full hydrogeological characterization of a sediment body must include a detailed description of its three-dimensional internal geometry. Where either direct methods or remote sensing are inadequate, computer simulations can be used to approximate the internal structure. A computer code, BCS-3D, was developed that simulates the three-dimensional internal geometry of sediment units for braided-stream deposits. Code development was based on the assumption that (1) a certain part of the surface (geomorphological) system is captured and preserved in the sedimentological record, and (2) characteristics of sediment units are a function of the localized flow energy as expressed by the Froude number. BCS-3D uses a random-walk approach to describe the formation of braided-channel networks. The concept of hydraulic geometry is incorporated to translate a two-dimensional topological network to a three-dimensional topographic surface. A series of these surfaces is stacked vertically with some offset, to produce a three-dimensional description of the internal architecture. Individual elements in the architecture are associated with specific sediment units based on a description of flow energy in the form of the Froude number. No comprehensive data set is available to validate this approach fully. However, the model was compared with and adequately matched a composite set of measurements from two studies in systems with similar physical characteristics, the Ohau River in New Zealand and the Squamish River in British Columbia, Canada.
Metalation <i>vs </i>Nucleophilic Addition in the Reactions of <i>N</i>-Phenethylimides with Organolithium Reagents. Ready Access to Isoquinoline Derivatives <i>via</i> <i>N</i>-Acyliminium Ions and Parham-Type Cyclizations (1997)

Sequential carbophilic addition of organolithium reagents and N-acyliminium ion cyclization of N-phenethylimides 1 affords the substituted isoquinolones 3 in high yields, with the possibility of varying the substituent at the C-1 position of the isoquinoline ring by changing the organolithium reagent. Ready access to the isoquinoline nucleus via Parham-type cyclization of imides 2 is also described. We have shown that iodinated imides 2 tolerate the metal-halogen exchange in the presence of the imide group, and the intramolecular cyclization of the so-obtained aromatic organometallic derivatives leads to the corresponding enamides 4. Both approaches have allowed the efficient preparation of various types of the isoquinoline class of alkaloids, just by changing the substitution pattern on the readily available starting imides. Thus, we have developed convenient alternative routes for the synthesis of benzo[a]quinolizidones and their 2-oxa analogs, isoindoloisoquinolones, dibenzo[a,h]quinolizidones, and thiazolo- and oxazolo[4,3-a]isoquinolones.
Fe2O3-Modified Porous BiVO4 Nanoplates with Enhanced Photocatalytic Activity (2015)

As BiVO4 is one of the most popular visible-light-responding photocatalysts, it has been widely used for visible-light-driven water splitting and environmental purification. However, the typical photocatalytic activity of unmodified BiVO4 for the degradation of organic pollutants is still not impressive. To address this limitation, we studied Fe2O3-modified porous BiVO4 nanoplates. Compared with unmodified BiVO4, the Fe2O3-modified porous BiVO4 nanoplates showed significantly enhanced photocatalytic activities in decomposing both dye and colorless pollutant models, such as rhodamine B (RhB) and phenol, respectively. The pseudo-first-order reaction rate constants for the degradation of RhB and phenol on Fe2O3-modified BiVO4 porous nanoplates are 27 and 31 times larger than that of pristine BiVO4, respectively. We also found that the Fe2O3 may act as an efficient non-precious metal co-catalyst, which is responsible for the excellent photocatalytic activity of Fe2O3/BiVO4. Fe2O3, as a cheap and efficient co-catalyst, could greatly enhance the photocatalytic activity of BiVO4 porous nanoplates in decomposing organic pollutants.
Towards a Framework for Assuring Cyber Physical System Security (2015)

Today, cyber physical systems (CPS) are becoming popular in power networks, healthcare devices, transportation networks, industrial process and infrastructures. As cyber physical systems are used more and more extensively and thoroughly, security of cyber physical systems has become the utmost important concern in system design, implementation and research. Many kinds of attacks arise (e.g. the Stuxnet worm), causing heavy losses and serious potential security risks. For the past few years, researchers are focusing their researches on different aspects of security of cyber physical systems. In this paper, we propose a security framework assuring the security of cyber physical systems and analyze main universities and institutes studying CPS security and their relations in three levels: CPS security objectives, CPS security approaches and security in specific CPS applications. Finally, a conclusion of this article is given.
A scalable federation of web caches (2001)

Web caches are traditionally organised in a simple tree like hierarchy. In this paper, a new architecture is proposed, where federations of caches are distributed globally, caching data partially. The advantages of the proposed system are that contention on global caches is reduced, while at the same time improving the scalability of the system since extra cache resources can be added on the fly. Among other topics discussed in this papers, is the scalability of the proposed system, the algorithms used to control the federation of Web caches and the approach used to identify the potential Web cache partners. In order to obtain a successful collaborative Web caching system, the formation of federations must be controlled by an algorithm that takes the dynamics of the Internet traffic into consideration. We use the history of Web cache access in order to determine how federations should be formed. Initial performance results of a simulation of a number of nodes are promising.
Evaluation of acoustic rhinometry in a nasal provocation test with allergen (1999)

In an allergen provocation test, AR appears to be as specific and sensitive as peak nasal inspiratory flow, with the advantage of being independent of the patient's active cooperation. Discrepancies between both methods emphasize the role of nasal cavity anatomy in measuring nasal congestion by AR.
Induction of p57 is required for cell survival when exposed to green tea polyphenols. (2003)

Green tea polyphenols (catechins) are known to induce cell death in many types of tumor cells, but how normal epithelial cells survive in the presence of polyphenols is unknown. We recently reported that green tea polyphenols potently induced a cyclin-dependent kinase inhibitor, p57/(KIP2), only in normal human epithelial cells. In this study, we investigated the correlation between p57 expression and survival/apoptosis by Western blot analysis, caspase 3 assays and morphological analysis. It was demonstrated that, in the cells that lack p57 induction, green tea polyphenols induced Apaf-1 expression along with caspase 3 activation, leading to apoptosis. In contrast, cells with polyphenol-inducible p57 maintained constant levels of Apaf-1 and proliferating cell nuclear antigen (PCNA), with basal caspase 3 activity. Retroviral-transfected, p57-expressing oral carcinoma cells showed significant resistance to green tea polyphenol-induced apoptosis. Our results suggest that p57/KIP2 is a determinant pro-survival factor for cell protection from green tea polyphenol-induced apoptosis.
The Early Results of Penicillin Treatment in G.P.I. (1946)

The favourable results obtained in the treatment of early and late syphilis by penicillin fostered the hope that it would also be of benefit in cases of G.P.I. Accordingly, this method of treatment was instituted in a psychiatric hospital in M.E.F. (No. 78), and the results obtained in six cases are here recorded.
Derivation of Flip Ambiguity Probabilities to Facilitate Robust Sensor Network Localization (2009)

Erroneous local geometric realizations in some parts of the network due to their sensitivity to certain distance measurement errors is a major problem in wireless sensor network localization. This may in turn affect the localization of either the entire network or a large portion of it. This phenomenon is well-described using the notion of "flip ambiguity" in rigid graph theory. In this paper we analytically derive an expression for the flip ambiguity probabilities of arbitrary neighborhoods in two dimensional sensor networks. This probability can be used to mitigate flip ambiguities in two ways: 1) If an unknown sensor finds the probability of flip ambiguity on its location estimate larger than a predefined threshold, it may choose not to localize itself 2) Every known neighbor can be assigned with a confidence factor to its estimated location, reflecting the probability of flip ambiguity; a sensor with an initially unknown location can then choose only those known neighbors with a confidence factor greater than a predefined threshold. A recent study by co-authors have shown that the performance of sequential and cluster based localization schemes in the literature can be significantly improved by correctly identifying and removing neighborhoods with possible flip ambiguities from the localization process. One motivation of this paper is to enhance the performance of the robustness criterion presented in that study by accurately identifying the flip ambiguity probabilities of arbitrary neighborhoods. The various simulations done in this study show that our analytical calculations of the probability of flip ambiguity matches with the simulated detection of the probability very accurately.
Statistical Approaches to Texture Classification (2004)

This thesis investigates the problem of classifying textures from their imaged appearance without imposing any constraints on, or requiring any a priori knowledge of, the viewing or illumination conditions under which the images were obtained. Classification algorithms based on the statistical distribution of texton primitives are developed to categorise single, uncalibrated images into a set of pre-learnt material classes. The thesis starts by introducing a filter bank based approach to the problem of texture classification. We design low dimensional, rotation and scale invariant filter sets which are nevertheless capable of extracting rich features at multiple orientations and scales. Textures are modelled by the frequency distribution of exemplar filter response features. Characterising a texture by multiple models allows the classification of single images without requiring any knowledge of the imaging conditions. Using this framework, it is demonstrated that the new filter sets achieve superior performance as compared