gebhart/patrepeval huggingface dataset:
Statistical Analysis of Nearest Neighbor Methods for Anomaly Detection (2019)

Nearest-neighbor (NN) procedures are well studied and widely used in both supervised and unsupervised learning problems. In this paper we are concerned with investigating the performance of NN-based methods for anomaly detection. We first show through extensive simulations that NN methods compare favorably to some of the other state-of-the-art algorithms for anomaly detection based on a set of benchmark synthetic datasets. We further consider the performance of NN methods on real datasets, and relate it to the dimensionality of the problem. Next, we analyze the theoretical properties of NN-methods for anomaly detection by studying a more general quantity called distance-to-measure (DTM), originally developed in the literature on robust geometric and topological inference. We provide finite-sample uniform guarantees for the empirical DTM and use them to derive misclassification rates for anomalous observations under various settings. In our analysis we rely on Huber's contamination model and formulate mild geometric regularity assumptions on the underlying distribution of the data.
A mixed cluster ion beam to enhance the ionization efficiency in molecular secondary ion mass spectrometry (2013)

Tuning of the chemistry of mixed clusters is suggested as a general approach to enhancing the ionization probability of sputtered molecules.
Mutations of ESPN cause autosomal recessive deafness and vestibular dysfunction (2004)

We mapped a human deafness locus DFNB36 to chromosome 1p36.3 in two consanguineous families segregating recessively inherited deafness and vestibular areflexia. This phenotype co-segregates with either of two frameshift mutations, 1988delAGAG and 2469delGTCA, in ESPN, which encodes a calcium-insensitive actin-bundling protein called espin. A recessive mutation of ESPN is known to cause hearing loss and vestibular dysfunction in the jerker mouse. Our results establish espin as an essential protein for hearing and vestibular function in humans. The abnormal vestibular phenotype associated with ESPN mutations will be a useful clinical marker for refining the differential diagnosis of non-syndromic deafness.
A bicistronic therapeutic retroviral vector enables sorting of transduced CD34+ cells and corrects the enzyme deficiency in cells from Gaucher patients (1996)

Corrective gene transfer for therapeutic intervention in metabolic and hematopoietic disorders has been hampered by the relatively inefficient transduction of human hematopoietic stem cells. To overcome this, a bicistronic recombinant retrovirus has been generated that delivers both a therapeutic glucocerebrosidase (GC) cDNA for the treatment of Gaucher disease, and a small murine cell surface antigen (heat-stable antigen [HSA]) as a selectable marker. An amphotropic retroviral- producing cell clone was created, and filtered supernatant was used to transduce NIH 3T3 cells. Sorting of transduced cells by flow cytometry enabled separation into populations based on cell surface fluorescence intensity derived from the expressed HSA. Significant increases in GC enzyme activity were seen for the transduced and especially the transduced and sorted cells. Similarly, increases in GC specific activity were seen in transduced and sorted skin fibroblasts from a patient with Gaucher disease. To streamline future transfer and sorting protocols for hematopoietic cells, transformed B-cell lines from Gaucher patients were created. Type I B cells were transduced and sorted, and large increases in GC specific activity occurred with concomitant increases in integrated retroviral copy numbers. In addition, toward the goal of using this selectable approach for corrective gene transfer to bone marrow stem cells, CD34+ cells were isolated from normal BM donors, transduced, and sorted based on cell surface expression of HSA. Proviral DNA was detected in approximately 40% of clonogenic progenitor colonies derived from unsorted, transduced CD34+ cells, demonstrating the high titer of the vector. However, after sorting, 100% of the colonies had the corrective GC cDNA, demonstrating the efficiency of this selective system for human hematopoietic progenitors. It is expected that strategies based on this approach will allow sorting of transduced cells of many types before implantation of transduced cells to animals or patients. This vector system may also be used to simplify manipulations and studies on retroviral-mediated gene delivery in vitro and for in vivo models.
Glycobiology of ocular angiogenesis (2014)

Ocular neovascularization can affect almost all the tissues of the eye: the cornea, the iris, the retina, and the choroid. Pathological neovascularization is the underlying cause of vision loss in common ocular conditions such as diabetic retinopathy, retinopathy of prematurity and age-related macular neovascularization. Glycosylation is the most common covalent posttranslational modification of proteins in mammalian cells. A growing body of evidence demonstrates that glycosylation influences the process of angiogenesis and impacts activation, proliferation, and migration of endothelial cells as well as the interaction of angiogenic endothelial cells with other cell types necessary to form blood vessels. Recent studies have provided evidence that members of the galectin class of β-galactoside-binding proteins modulate angiogenesis by novel carbohydrate-based recognition systems involving interactions between glycans of angiogenic cell surface receptors and galectins. This review discusses the significance of glycosylation and the role of galectins in the pathogenesis of ocular neovascularization.
Antigenic analysis of Japanese encephalitis virus by using monoclonal antibodies (1984)

Hybridoma cells were produced by fusing P3X63Ag8.653 mouse myeloma cells with spleen cells from BALB/c mice immunized with Japanese encephalitis (JE) virus, Nakayama-RFVL strain. The resulting 26 clones produced hemagglutination inhibition antibodies against the homologous strain. The hemagglutination inhibition reactivity of each clone was tested against six flaviviruses: JE, Murray Valley encephalitis (MVE), Egypt 101 strain of West Nile (WN), St. Louis encephalitis (SLE), Russian spring summer encephalitis, and dengue type 1. The 26 monoclonal antibodies fell into four groups: 14 JE species-specific antibodies, 6 antibodies reactive to JE and MVE viruses, 3 antibodies to three or four viruses in the JE-MVE-WN-SLE subgroup, and 3 antibodies to all six flaviviruses. Furthermore, antigenic comparison of 27 strains of JE virus was carried out by using five JE species-specific monoclonal antibodies. Of these, 24 strains were isolated in various parts of Japan, and 3 strains came from Southeast Asia. In reactivity, the 27 strains were classified into at least four antigenic groups. The results showed that the Nakayama-Yakken strain is a mutant strain which lacks the Nakayama strain-specific antigen and that the recently isolated strains are immunologically different from Nakayama and JaGAr 01 strains. One clone (NARMA 13) produced a JE species-specific antibody which showed almost the same titer against 26 JE virus strains, whereas one clone (NARMA 5) produced a Nakayama strain-specific antibody which reacted only to the Nakayama-RFVL and Nakayama-Yoken strains.
Melt-textured thick films of Bi1.7Pb0.3Sr2CaCu2Oyprepared by electrophoretic deposition (1991)

Thick films of Bi1.7Pb0.3Sr2CaCu2Oy on Ag substrate have been prepared by electrophoretic deposition followed by a melt-quench-anneal process to promote grain growth and alignment. Magnetization measurements at 4.2 K yield a critical current density of 6*104-0.8*104 A cm-2 at 2-50 kOe based on film thickness.
T cell metabolism drives immunity (2015)

Lymphocytes must adapt to a wide array of environmental stressors as part of their normal development, during which they undergo a dramatic metabolic remodeling process. Research in this area has yielded surprising findings on the roles of diverse metabolic pathways and metabolites, which have been found to regulate lymphocyte signaling and influence differentiation, function and fate. In this review, we integrate the latest findings in the field to provide an up-to-date resource on lymphocyte metabolism.
High-Resolution Structure of an Engineered Biologically Potent Insulin Monomer, B16 Tyr .fwdarw. His, As Determined by Nuclear Magnetic Resonance Spectroscopy (1994)

Site-directed mutagenesis is used in conjunction with 1H nuclear magnetic resonance (NMR) and circular dichroism (CD) spectroscopy in order to find an insulin species amenable for structure determination in aqueous solution by NMR spectroscopy. A successful candidate in this respect, i.e., B16 Tyr-->His mutant insulin, is identified and selected for detailed characterization by two-dimensional 1H NMR. This mutant species retains 43% biological potency and native folding stability, but in contrast to human insulin it remains monomeric at millimolar concentration in aqueous solution at pH 2.4. The resulting homogeneous sample allows high-quality 2D NMR spectra to be recorded. The NMR studies result in an almost complete assignment of the 1H resonance signals as well as identification of NOE cross peaks. NOE-derived distance restraints in conjunction with torsion restraints based on measured coupling constants, 3JHNH alpha, are used for structure calculations using the hybrid method of distance geometry and simulated annealing. The calculated structures show that the major part of the insulin monomer is structurally well-defined with an average rms deviation between the 20 calculated structures and the mean coordinates of 0.89 A for all backbone atoms, 0.46 A for backbone atoms (A2-A19 and B4-B28), and 1.30 A for all heavy atoms. The structure of the A-chain is composed of two helices from A2 to A7 and from A12 to A19 connected by a short extended strand. The B-chain consists of a loop, B1-B8, an alpha-helix, B9-B19, a beta-turn, B20-B23, and an extended strand from B24 to B30.(ABSTRACT TRUNCATED AT 250 WORDS)
Effect of hyperandrogenism and menstrual cycle abnormalities on bone mass and bone turnover in young women (1998)

The results of this study suggest that in patients with polycystic ovary syndrome the deleterious effect on bone of amenorrhoea is balanced by androgen overproduction.
Studies on the Structure of Genes Expressed during Development (1978)

During cellular differentiation, the temporal and quantitative expression of specific genes is precisely controlled. By isolating the genes which code for proteins involved in a particular developmental pathway, the mechanism of differential gene activity could be studied at the molecular level. For example, the chromosomal arrangement of coordinately and/or sequentially expressed genes and of their putative regulatory sequences, as well as the timing and rates of synthesis and turnover of specific mRNA species, could be determined. However, the complexity of the eukaryotic genome is a major obstacle to the isolation of specific structural genes.
Selection of optimum projection angles in three dimensional myocardial SPECT (2002)

The purpose of our research is to develop a new data acquisition scheme for myocardial single photon emission CT with a semiconductor detector. The gamma camera system with a semiconductor detector enables us to measure projection data with arbitrary angles because the detector is smaller than those of the ordinary gamma cameras with a scintillation detector. The proposed data acquisition scheme is to measure projection data with angles where the signal to noise ratio in projection data is relatively high. We assumed that we could measure twenty projections to the heart, i.e., in the x-y plane the positions of the detector were 0, 30, 60 and 90 deg. (anterior to LAO 90 deg.) and in the y-z plane they were 60, 30, 0, -30 and -60 deg. to the x-y plane. Then to reduce the number of projections required for an acceptable quality of images, we carefully decided the minimum number of projections and selected optimum projection angles. The criterion for selecting the projection angle was an integral value of power spectra for each projection. We listed projection angles in descending order according to this integral value and made four projection subsets.
Tat-Vaccinated Macaques Do Not Control Simian Immunodeficiency Virus SIVmac239 Replication (2002)

The regulatory proteins of human immunodeficiency virus may represent important vaccine targets. Here we assessed the role of Tat-specific cytotoxic T lymphocytes (CTL) in controlling pathogenic simian immunodeficiency virus SIVmac239 replication after using a DNA-prime, vaccinia virus Ankara-boost vaccine regimen. Despite the induction of Tat-specific CTL, there was no significant reduction in either peak or viral set point compared to that of controls.
Precomputing interactive dynamic deformable scenes (2003)

We present an approach for precomputing data-driven models of interactive physically based deformable scenes. The method permits real-time hardware synthesis of nonlinear deformation dynamics, including self-contact and global illumination effects, and supports real-time user interaction. We use data-driven tabulation of the system's deterministic state space dynamics, and model reduction to build efficient low-rank parameterizations of the deformed shapes. To support runtime interaction, we also tabulate impulse response functions for a palette of external excitations. Although our approach simulates particular systems under very particular interaction conditions, it has several advantages. First, parameterizing all possible scene deformations enables us to precompute novel reduced coparameterizations of global scene illumination for low-frequency lighting conditions. Second, because the deformation dynamics are precomputed and parameterized as a whole, collisions are resolved within the scene during precomputation so that runtime self-collision handling is implicit. Optionally, the data-driven models can be synthesized on programmable graphics hardware, leaving only the low-dimensional state space dynamics and appearance data models to be computed by the main CPU.
New Principles of Ion-Exchange Techniques Suitable to Sample Preparation and Group Separation of Natural Products Prior to Liquid Chromatography (1984)

Abstract A Gentle method of group separation of low molecular weight hydrophilic natural products is reported. The method is based on separation of the compounds according to their net charge at different pH values using different types of ion-exchange columns connected in series. Precolumns retaining interfering compounds are used in some cases. Elution of the compounds retained on the columns is performed by use of volatile eluents. The elution principle for two of the ion-exchangers in question is removal of the charges on the column materials while for the third column the positive net charge on the compounds retained is removed. Thereby, the total amount of ions retained on the different columns is released and eluted into small volumes, which after evaporation leaves the ions as well defined salts. The method is experimentally simple and efficient to separation of natural products into groups suitable to direct use in sensitive methods of analysis as e.g. high-performance liquid chromatography and gas chromatography. Combinations of these column chromatographic methods have been adpated for micro or semimicro determinations of naturally occurring compounds, e.g., aromatic choline esters, amines, amino acids and esters of phenolic carboxylic acids. The methods seem to be general practicable for group separation of low molecular weight hydrophilic compounds.
Synthesis of B-vinylpentamethylborazine (1968)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis of B-vinylpentamethylborazineAndrew J. Klanica and John P. FaustCite this: Inorg. Chem. 1968, 7, 5, 1037–1038Publication Date (Print):May 1, 1968Publication History Published online1 May 2002Published inissue 1 May 1968https://pubs.acs.org/doi/10.1021/ic50063a044https://doi.org/10.1021/ic50063a044research-articleACS PublicationsRequest reuse permissionsArticle Views33Altmetric-Citations6LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
A performance comparison of hierarchical ring- and mesh-connected multiprocessor networks (2002)

This paper compares the performance of hierarchical ring- and mesh-connected wormhole routed shared memory multiprocessor networks in a simulation study. Hierarchical rings are interesting alternatives to meshes since (i) they can be clocked at faster rates, (ii) they can have wider data paths and hence shorter message sates, (iii) they allow addition and removal of processing nodes at arbitrary locations, (iv) their topology allows natural exploitation in the spatial locality of application memory access patterns, and (v) their topology allows efficient implementation of broadcasts. Our study shows that for workloads with little locality, meshes scale better than ring networks because ring-based systems have limited bisection bandwidth. However, for workloads with some memory access locality hierarchical rings outperform meshes by 20-40% for system sizes of up to 128 processors. Even with poor access locality, hierarchical rings will outperform meshes for these system sizes if the mesh router buffers are only 1-flit large, and they will outperform meshes an systems with less than 36 processors regardless of mesh router buffer size.
Æthereal Network on Chip:Concepts, Architectures, and Implementations (2005)

Many SoC applications require guaranteed levels of service and performance. Can networks on chips (NoCs) enable such guarantees? Here, the authors demonstrate that the Æthereal network can. This particular NoC, developed at Philips Research Laboratories, encompasses hardware, a programming model, and a design flow. Read on to find out about the details. © 2005 IEEE. U7 - Cited By (since 1996): 159 U7 - Export Date: 5 February 2010 U7 - Source: Scopus
Manifold Alignment for Person Independent Appearance-Based Gaze Estimation (2014)

We show that dually supervised manifold embedding can improve the performance of machine learning based person-independent and thus calibration-free gaze estimation. For this purpose, we perform a manifold embedding for each person in the training dataset and then learn a linear transformation that aligns the individual, person-dependent manifolds. We evaluate the effect of manifold alignment on the recently presented Columbia dataset, where we analyze the influence on 6 regression methods and 8 feature variants. Using manifold alignment, we are able to improve the person-independent gaze estimation performance by up to 31.2 % compared to the best approach without manifold alignment.
The Top 10 fungal pathogens in molecular plant pathology (2012)

The aim of this review was to survey all fungal pathologists with an association with the journal Molecular Plant Pathology and ask them to nominate which fungal pathogens they would place in a 'Top 10' based on scientific/economic importance. The survey generated 495 votes from the international community, and resulted in the generation of a Top 10 fungal plant pathogen list for Molecular Plant Pathology. The Top 10 list includes, in rank order, (1) Magnaporthe oryzae; (2) Botrytis cinerea; (3) Puccinia spp.; (4) Fusarium graminearum; (5) Fusarium oxysporum; (6) Blumeria graminis; (7) Mycosphaerella graminicola; (8) Colletotrichum spp.; (9) Ustilago maydis; (10) Melampsora lini, with honourable mentions for fungi just missing out on the Top 10, including Phakopsora pachyrhizi and Rhizoctonia solani. This article presents a short resumé of each fungus in the Top 10 list and its importance, with the intent of initiating discussion and debate amongst the plant mycology community, as well as laying down a bench-mark. It will be interesting to see in future years how perceptions change and what fungi will comprise any future Top 10.
Spatially Resolved Quantification of Gadolinium(III)‐Based Magnetic Resonance Agents in Tissue by MALDI Imaging Mass Spectrometry after In Vivo MRI (2015)

Gadolinium(III)-based contrast agents improve the sensitivity and specificity of magnetic resonance imaging (MRI), especially when targeted contrast agents are applied. Because of nonlinear correlation between the contrast agent concentration in tissue and the MRI signal obtained in vivo, quantification of certain biological or pathophysiological processes by MRI remains a challenge. Up to now, no technology has been able to provide a spatially resolved quantification of MRI agents directly within the tissue, which would allow a more precise verification of in vivo imaging results. MALDI imaging mass spectrometry for spatially resolved in situ quantification of gadolinium(III) agents, in correlation to in vivo MRI, were evaluated. Enhanced kinetics of Gadofluorine M were determined dynamically over time in a mouse model of myocardial infarction. MALDI imaging was able to corroborate the in vivo imaging MRI signals and enabled in situ quantification of the gadolinium probe with high spatial resolution.
The role of CD4+CD25+ immunoregulatory T cells in the induction of autoimmune gastritis (2002)

A number of experimental models of organ-specific autoimmunity involve a period of peripheral lymphopenia prior to disease onset. There is now considerable evidence that the development of autoimmune disease in these models is due to the absence of CD4+CD25+ regulatory T cells. However, the role of CD4+CD25+ regulatory T cells in the prevention of autoimmune disease in normal individuals has not been defined. Here we have assessed the affect of depletion of CD4+CD25+ regulatory T cells in BALB/c mice on the induction of autoimmune gastritis. The CD4+CD25+ T cell population was reduced to 95% of the original population in adult thymectomized mice by treatment with anti-CD25 mAb. By 48 days after the anti-CD25 treatment, the CD4+CD25+ regulatory T cell population had returned to a normal level. Treatment of thymectomized adult mice for up to 4 weeks with anti-CD25 mAb did not result in the development of autoimmune gastritis. Furthermore, we have demonstrated that depletion of CD4+CD25+ regulatory T cells, together with transient CD4+ T lymphopenia, also did not result in the development of autoimmune gastritis, indicating that peripheral expansion of the CD4+ T cell population, per se, does not result in autoimmunity in adult mice. On the other hand, depletion of CD4+CD25+ T cells in 10-day-old euthymic mice resulted in a 30% incidence of autoimmune gastritis. These data suggest that CD4+CD25+ regulatory T cells may be important in protection against autoimmunity while the immune system is being established in young animals, but subsequently other factors are required to initiate autoimmunity.