gebhart/patrepeval huggingface dataset:
Personal interface mechanism on digital library (2002)

A digital library is very useful to retrieve and refer to appropriate information directly online, and many projects have expanded progressively. However, a digital library with an operational interface or personal/private manipulation facility is not always sufficiently investigated with a view to constructing an environment in which users can apply the retrieved/referred information to their ordinary works directly or their original requests effectively. This paper addresses personal working environments. A personal interface for a digital library is proposed, with respect to a working environment of a personal data library, constructed on existing digital libraries. The main idea is to introduce the concept of a notebook as user-specific data storage.
JSON Web Algorithms (JWA) (2015)

This specification registers cryptographic algorithms and identifiers
to be used with the JSON Web Signature (JWS), JSON Web Encryption
(JWE), and JSON Web Key (JWK) specifications. It defines several IANA
registries for these identifiers.
Modeling semantic containment and exclusion in natural language inference (2008)

We propose an approach to natural language inference based on a model of natural logic, which identifies valid inferences by their lexical and syntactic features, without full semantic interpretation. We greatly extend past work in natural logic, which has focused solely on semantic containment and monotonicity, to incorporate both semantic exclusion and implicativity. Our system decomposes an inference problem into a sequence of atomic edits linking premise to hypothesis; predicts a lexical entailment relation for each edit using a statistical classifier; propagates these relations upward through a syntax tree according to semantic properties of intermediate nodes; and composes the resulting entailment relations across the edit sequence. We evaluate our system on the FraCaS test suite, and achieve a 27% reduction in error from previous work. We also show that hybridizing an existing RTE system with our natural logic system yields significant gains on the RTE3 test suite.
Large-scale privacy protection in Google Street View (2009)

The last two years have witnessed the introduction and rapid expansion of products based upon large, systematically-gathered, street-level image collections, such as Google Street View, EveryScape, and Mapjack. In the process of gathering images of public spaces, these projects also capture license plates, faces, and other information considered sensitive from a privacy standpoint. In this work, we present a system that addresses the challenge of automatically detecting and blurring faces and license plates for the purpose of privacy protection in Google Street View. Though some in the field would claim face detection is “solved”, we show that state-of-the-art face detectors alone are not sufficient to achieve the recall desired for large-scale privacy protection. In this paper we present a system that combines a standard sliding-window detector tuned for a high recall, low-precision operating point with a fast post-processing stage that is able to remove additional false positives by incorporating domain-specific information not available to the sliding-window detector. Using a completely automatic system, we are able to sufficiently blur more than 89% of faces and 94 - 96% of license plates in evaluation sets sampled from Google Street View imagery.
Protection of human endothelial cells from oxidant injury by adenovirus-mediated transfer of the human catalase cDNA (1993)

In a variety of disorders, endothelial cells are exposed to high levels of oxidants, generated within the cells and/or consequent to local inflammation. In the context of the sensitivity of endothelial cells to oxidant stress, particularly related to H2O2, we have designed a replication deficient recombinant adenovirus containing the human catalase cDNA (AdCL) to transfer the catalase cDNA to the endothelial cells, in order to augment intracellular anti-H2O2 protection. Human umbilical vein endothelial cells that were not infected or infected with control adenovirus maintained low levels of catalase mRNA. Endothelial cells infected with AdCL expressed AdCL-driven exogenous catalase mRNA, as early as 24 hr and at least for 7 days. Catalase protein levels were increased significantly over controls in cells infected with AdCL, as were catalase activity levels, with catalase activity correlated closely with levels of catalase protein. Importantly, when the endothelial cells were exposed to 500 microM H2O2, all the AdCL infected endothelial cells survived, compared to only 37% of the control cells. Thus, a recombinant adenovirus containing the human catalase cDNA is able to infect human endothelial cells in vitro and express high levels of functional intracellular catalase, protecting the cells against H2O2-mediated oxidant stress. These observations support the feasibility of the transfer of catalase cDNA to human endothelium to protect against oxidant injury.
Standardized evaluation methodology and reference database for evaluating coronary artery centerline extraction algorithms (2020)

Efficiently obtaining a reliable coronary artery centerline from computed tomography angiography data is relevant in clinical practice. Whereas numerous methods have been presented for this purpose, up to now no standardized evaluation methodology has been published to reliably evaluate and compare the performance of the existing or newly developed coronary artery centerline extraction algorithms. This paper describes a standardized evaluation methodology and reference database for the quantitative evaluation of coronary artery centerline extraction algorithms. The contribution of this work is fourfold: 1) a method is described to create a consensus centerline with multiple observers, 2) well-defined measures are presented for the evaluation of coronary artery centerline extraction algorithms, 3) a database containing thirty-two cardiac CTA datasets with corresponding reference standard is described and made available, and 4) thirteen coronary artery centerline extraction algorithms, implemented by different research groups, are quantitatively evaluated and compared. The presented evaluation framework is made available to the medical imaging community for benchmarking existing or newly developed coronary centerline extraction algorithms.
MRI‐guided thermal therapy of transplanted tumors in the canine prostate using a directional transurethral ultrasound applicator (2002)

The use of multiplanar MRTI with a transurethral ultrasound applicator shows significant potential for selective thermal ablation of prostate tumor and tissue.
Organic vertical-channel transistors structured using excimer laser (2004)

Low-cost, large-area patterning of organic field-effect transistors with high-resolution is a subject of ongoing investigations. Here, we present a concept of patterning vertical-channels organic transistors using excimer laser. The channel length is controlled by the thickness of the dielectric polymer layer between the drain and source electrodes. We demonstrate that, by using this method, patterning of transistors with either metal or polymer contacts with resolutions as high as 2μm is possible. Experimental data of vertical-channel pentacene transistors with either gold or poly (3,4-ethylenedioxythiophene) as drain-source contacts are reported. Field effect mobilities of 1×10−3 and 3×10−4cm2∕Vs, respectively, have been measured in these devices.
A modified fuzzy C-means algorithm for feature selection (2002)

In this paper we propose a novel method for feature selection based on a modified fuzzy C-means algorithm with supervision (MFCMS). MFCMS adopts an appropriately modified version of the objective function used by the classic fuzzy C-means. We applied MFCMS to some real-world pattern classification benchmarks. To test the effectiveness of MFCMS as feature selector, we used the well-known k-nearest neighbor as learning algorithm. In our experiments we found that the classification performance using the set of features selected by MFCMS is better than that using all the original features. Furthermore, our approach proved to be less time consuming than other feature selection methods.
Semantic Chunk Annotation for questions using Maximum Entropy (2008)

we present a ME (Maximum Entropy) model for Semantic Chunk Annotation in a Chinese Question and Answer (Q&A) system. The model was derived from a corpus of real world questions, which are collected from some discussion groups on the Internet. The questions are supposed to be answered by other people, so the questions are very complex. The semantic chunks were introduced. Feature for the model was described and MI (Mutual Information) was adopted for feature selection. The training data consists of 14000 sentences and the test data consists of 4000 sentences. The result: F-score is 90.68%.
Regulation of nitric oxide synthesis by dimethylarginine dimethylaminohydrolase (1996)

1. Dimethylarginine dimethylaminohydrolase (DDAH), an enzyme that metabolizes the endogenous nitric oxide synthase inhibitors NG-monomethyl-arginine and NG,NG-dimethy-L-arginine to citrulline, was identified by Western blotting in rat and human tissue homogenates. 2. S-2-amino-4(3-methylguanidino)butanoic acid (4124W) inhibited the metabolism of [14C]-NG-monomethyl-L-arginine to [14C]-citrulline by rat liver homogenates (IC50 416 +/- 66 microM; n = 9), human cultured endothelial cells (IC50 250 +/- 34 microM; n = 9) and isolated purified dimethylarginine dimethylaminohydrolase. 3. Addition of 4124W to culture medium increased the accumulation of endogenously-generated NG,NG-dimethy-L-arginine in the supernatant of human cultured endothelial cells from 3.1 +/- 0.3 to 5 +/- 0.7 microM (n = 15; P < 0.005). 4. 4124W (1 microM - 1 mM) had no direct effect on endothelial nitric oxide synthase activity but caused endothelium-dependent contraction of rat aortic rings (1 mM 4124W increased tone by 81.5 +/- 9.6% of that caused by phenylephrine 100 nM). This effect was reversed by L-arginine (100 microM). 4124W reversed endothelium-dependent relaxation of human saphenous vein (19.2 +/- 6.7% reversal of bradykinin-induced relaxation at 1 mM 4124W). 5. These data suggest that inhibition of dimethylarginine dimethylaminohydrolase increases the intracellular contraction of NG,NG-dimethyl-L-arginine sufficiently to inhibit nitric oxide synthesis. Inhibiting the activity of DDAH may provide an alternative mechanism for inhibition of nitric oxide synthases and changes in the activity of DDAH could contribute to pathophysiological alterations in NO generation.
A Conceptual Framework for Enterprise Risk Management performance measure through Economic Value Added (2015)

Enterprise Risk Management (ERM) is an essential technique used to manage a myriad of risks in a holistic manner. The purpose of this study is to propose a conceptual framework for investigating the impact of ERM on the firm’s value through Economic Value Added (EVA) performance measure. The research design for our study incorporates conclusive research. It covers the descriptive and cross sectional design. It focuses specifically on the objective performance measures of ERM through EVA measure approach. The study adopts an ERM implementation framework comprising three dimensions namely, structure, governance, and process which will be translated into fourteen implementation elements. The study estimates the positive effect of ERM using EVA as a measuring proxy for firm value. EVA computes company profit by incorporating cost of capital.
Pacemaker lead tip heating in abandoned and pacemaker‐attached leads at 1.5 tesla MRI (2011)

Current recommendations for MRI pacemaker safety should highlight the possible increased risk for patients with abandoned leads as compared to pacemaker-attached leads.
Dependence of Optical and Microstructure Properties of Thiol-Capped Silver Nanoparticles Embedded in Polymeric Matrix (2011)

Thiol-capped silver nanoparticles were prepared by in situ thermal decomposition of different silver(I)-thiolates precursors in a polymeric matrix. Depending on the structure of the organic coating, contact-free distribution of metal nanoparticles or nanoparticles aggregates were achieved. The structure and morphology of nanocomposites was analyzed by Transmission Electron Microscopy (TEM), and X-Ray Diffraction (XRD). Nanoparticles’ interaction was investigated by differential scanning calorimetry (DSC), and UV-Visible spectroscopy. In particular, only silver nanoparticles coated by n-alkyl thiols aggregated, while a contact-free dispersion was obtained by cyclohexyl thiol-capped silver nanoparticles.
Differential Expression of Two 1-Aminocyclopropane-1-Carboxylic Acid Oxidase Genes in Broccoli after Harvest (1995)

Broccoli (Brassica oleracea L.) floral tissues rapidly differentiate and grow before harvest and then senesce rapidly after harvest. Associated with this postharvest deterioration is an increase in ethylene production by florets. Two cDNA clones having high nucleotide identity to sequences encoding 1-amino-cyclopropane-1-carboxylic acid (ACC) oxidase were isolated from senescing florets. The cDNAs, ACC Ox1 and ACC Ox2, apparently encode mRNAs from different genes. ACC Ox1 transcripts were found at low levels in whole florets at the time of harvest and increased markedly in abundance after harvest. ACC Ox1 transcript abundance also increased in sepals after harvest and in excised yellowing leaves. Transcripts corresponding to ACC Ox2 were found exclusively within the reproductive structures. These ACC Ox2 transcripts were absent at harvest but started to increase in abundance within 2 h of harvest and then accumulated to high levels. Hormone treatment did not alter the abundance of ACC Ox1 transcripts, whereas ACC Ox2 transcripts increased in abundance after treatment with abscisic acid and propylene. Wounding did not affect the levels of ACC Ox1 or Ox2 transcripts after harvest. At harvest, individual broccoli florets were closed and remained unpollinated. We propose a model whereby the rapid increase in ACC Ox1 and Ox2 transcript abundance after harvest contributes to increased ethylene production by florets. This ethylene may regulate aspects of postharvest senescence, in particular chlorophyll loss.
Targeting of natural killer cells to mammary carcinoma via naturally occurring tumor cell-bound iC3b and beta-glucan-primed CR3 (CD11b/CD18) (1997)

Previous reports have suggested that malignant cells frequently generate a humoral immune response that is ineffective in tumor destruction. Despite coating tumors with IgM and IgG that activate the C system via the classical pathway, normal membrane regulators of C (e.g., membrane cofactor protein and CD59) prevent cytotoxicity. Moreover, C3 deposition on tumors does not result in cytotoxic recognition by phagocytes or NK cells bearing C3 receptors capable of mediating destruction of C3-opsonized bacteria or yeast. The current investigation showed that freshly excised mammary tumors bore IgM, IgG, and C3 detectable by flow cytometry. Normal sera contained natural IgM and IgG Abs reactive with breast tumor cell lines, and IgG Ab titers were increased in patients with breast cancer. Breast tumor cell lines incubated in normal serum from AB+ individuals activated the classical, but not the alternative, pathway of C and became coated with C3. Despite exhibiting membrane-bound C3, serum-opsonized breast tumor cell lines were not killed by CR3 (CD11b/CD18)-bearing NK cells. Priming of NK cell CR3 with small soluble yeast beta-glucan polysaccharides enabled CR3-dependent killing of these same C3-bearing tumor cell lines. Tests of mammary carcinoma cells from freshly excised tumors demonstrated that they also bore sufficient amounts of opsonic C3 for cytotoxic recognition by NK cells bearing polysaccharide-primed CR3, whereas they were largely resistant to NK cells bearing unprimed CR3. This study demonstrates the potential utility of using naturally occurring opsonic C3 on tumor cells for specific immunotherapeutic targeting by NK cells and phagocytes bearing polysaccharide-primed CR3.
Tartrate-resistant acid phosphatase gene expression as a facile reporter gene for screening transfection efficiency in mammalian cell cultures. (1993)

The efficiency of DNA transfection into mammalian cell cultures has been monitored using a variety of reporter assays. However, the common procedures are expensive, time-consuming and usually cannot identify the transfected cell population directly. In the present communication we describe a simple, inexpensive and efficient method to directly identify DNA transfection in mammalian cells using tartrate-resistant acid phosphatase (TRAP) gene expression. The method involves the transfection of a plasmid (pCT3), which contains TRAP cDNA driven by a CMV promoter, into mammalian cells. The cells can then be stained for TRAP activity, and the transfection efficiency can be determined by simply counting the positively transfected cells in a defined area with a microscope. This method permits screening of mammalian cells for transfection efficiency in multi-well plates. After waiting 30-40 minutes to allow the TRAP assay to saturate, wells can be scored in 1-2 minutes with little difficulty in detecting the transfected cells.
Ovarian cancer: comparison of findings with perfluorocarbon-enhanced MR imaging, In-111-CYT-103 immunoscintigraphy, and CT. (1995)

MR imaging and immunoscintigraphy show promise for the evaluation of patients with ovarian cancer.
Promiscuous Binding of Synthetic Copolymer 1 to Purified HLA-DR Molecules (1998)

Copolymer 1 (Cop 1) is a random synthetic amino acid copolymer of L-alanine, L-glutamic acid, L-lysine, and L-tyrosine, effective both in suppression of experimental allergic encephalomyelitis and in the treatment of relapsing forms of multiple sclerosis. Cop 1 binds promiscuously and very efficiently to living APCs of various HLA haplotypes. In the present study, a substantial part of the whole mixture of random polypeptides that compose Cop 1 was shown to bind to purified human HLA-DR1, DR2, and DR4 with high affinity in a temperature- and time (and, in the case of DR4, pH)-dependent manner, and was competitively inhibited by DR-restricted peptides, but not by peptide derivatives that bind with low affinity. Bacterial superantigens inhibited Cop 1 binding only at very high concentrations. The formation of the Cop 1-DR1 complex was also shown by SDS-PAGE. These findings represent the first direct evidence for interactions of Cop 1 with purified DR molecules, and suggest that its effectiveness in experimental allergic encephalomyelitis and multiple sclerosis may be directly related to its binding in the groove of HLA-DR proteins.
Absolute SILAC for Accurate Quantitation of Proteins in Complex Mixtures Down to the Attomole Level (2008)

Mass spectrometry based proteomics can routinely identify hundreds of proteins in a single LC-MS run, and methods have been developed for relative quantitation between differentially treated samples using stable isotopes. However, absolute quantitation has so far required addition of a labeled standard late in the experimental workflow, introducing variability due to sample preparation. Here we present a new variant of the stable isotope labeling by amino acids in cell culture (SILAC) technique termed "Absolute SILAC" that allows accurate quantitation of selected proteins in complex mixtures. SILAC-labeled recombinant proteins produced in vivo or in vitro are used as internal standards, which are directly mixed into lysates of cells or tissues. This minimizes differences in sample processing between the isotope-labeled standard and its endogenous counterpart. We show that it is possible to quantify over several orders of magnitude, even in the background of a whole cell lysate. We furthermore devise a strategy to quantify peptides at or below their signal-to-noise level on hybrid ion trap instruments, shown here for the LTQ-Orbitrap. The data system triggers on peptides of the SILAC-labeled protein, initiating ion collection in a narrow mass range including the endogenous and labeled peptide. This strategy extends the regular detection limit of an LTQ-Orbitrap by at least an order of magnitude and accurately quantifies down to 150 attomole of protein in a cell lysate without any fractionation prior to LC-MS. We use Absolute SILAC to determine the copy number per cell of growth factor receptor-bound protein 2 (Grb2) in HeLa, HepG2, and C2C12 cells to 5.5 x 10(5), 8.8 x 10(5), and 5.7 x 10(5), respectively, in the exponential growth phase.
Studies on the mechanism of destruction of the toxic action of wheat gluten in coeliac disease by crude papain (1964)

The toxic action of wheat gluten on two patients was eliminated after predigestion of gluten by crude papain. This change is thought to be due to an enzyme which liberates ammonia from gluten. It is not thought that this particular mechanism operates in the normal intestinal cell but it is envisaged that one of the peptide bonds of the coeliac active constituent (possibly a N-glutaminyl peptide) is normally split by a specific intestinal peptidase which is defective in coeliac patients.
Interleukin-1 Receptor-associated Kinase 2 Is Critical for Lipopolysaccharide-mediated Post-transcriptional Control (2009)

IRAK2, a member of the interleukin-1 receptor-associated kinase (IRAK) family, has been implicated in Toll-like receptor (TLR)-mediated signaling. We generated IRAK2-deficient mice to examine its function in detail. These mice are resistant to lipopolysaccharide-induced septic shock, because of impaired TLR4-mediated induction of pro-inflammatory cytokines and chemokines. Although IRAK2 deficiency did not affect TLR4-mediated NFkappaB activation, a reduction of lipopolysaccharide (LPS)-mediated mRNA stabilization contributed to the reduced cytokine and chemokine production observed in bone marrow-derived macrophages from IRAK2-deficient mice. Furthermore, the ratios of LPS-induced cytokine and chemokine mRNAs in translation-active (polysomal) versus translation-inactive (free ribosomes) pools were reduced in IRAK2-deficient macrophages compared with wild type macrophages. Importantly, LPS-induced phosphorylation of MKK3/6, MNK1, and eIF4E was significantly reduced in IRAK2-deficient macrophages compared with wild type macrophages. Moreover, LPS stimulation induced an interaction of IRAK2 with TRAF6, MKK3/6, and MK2, implicating a critical role for mitogen-activated protein kinase signaling in LPS-induced IRAK2-mediated post-transcriptional control. These results reveal that IRAK2 is required for LPS-mediated post-transcriptional control of cytokine and chemokine expression, which plays an essential role in TLR4-induced septic shock.
Muscle atrophy in cachexia: can dietary protein tip the balance? (2009)

To elucidate the role of dietary protein supplementation in attenuating muscle atrophy in cachectic patients, randomized clinical trials are needed in adequately phenotyped patients using sensitive measures of muscle mass and function.