gebhart/patrepeval huggingface dataset:
Enough Is Enough (2014)

Coinciding with the 50th anniversary of the first Surgeon General report on smoking and health (U.S. Department of Health, Education and Welfare, 1964) was the release of the 2014 Surgeon General report The Health Consequences of Smoking-50 Years of Progress (U.S. Department of Health and Human Services, 2014). During a press conference announcing the report in January 2014, Acting Surgeon General Rear Admiral Boris Lushniak, MD, MPH, repeated the refrain "Enough is enough" in frustration with the continuing burden of death and misery caused by tobacco use as he urged action to be taken. That challenge gives us an opportunity to ask ourselves whether, as nurses (particularly as oncology nurses), we have done enough to help patients who are still struggling with nicotine addiction.
Conjugation to antifibrin Fab' enhances fibrinolytic potency of single-chain urokinase plasminogen activator. (1990)

Single-chain urokinase plasminogen activator (scu-PA) that had been modified with N-succinimidyl-3-(2-pyridyldithio)propionate was covalently linked by disulfide bonds to the Fab' of a monoclonal antibody specific for the beta-chain of fibrin (antibody 59D8). scu-PA-59D8 Fab' conjugate was separated from free scu-PA and two-chain urokinase coupled to 59D8 Fab' by two-step affinity chromatography. First, the reaction mixture was chromatographed on a column containing Sepharose linked to the peptide that had been used as immunogen for antibody 59D8; scu-PA-59D8 Fab' conjugate and unconjugated 59D8 Fab' were retained but not unconjugated scu-PA. Then, the eluate from the peptide-Sepharose column was chromatographed on a column containing Sepharose linked to benzamidine, which acts as a ligand for two-chain urokinase. The molecular weight of the scu-PA-59D8 Fab' conjugate was approximately 100 kDa when electrophoresed on a nonreducing sodium dodecylsulfate-polyacrylamide gel. Enzymatic assay after purification revealed that more than 97% of the scu-PA present in the conjugate retained the single-chain form. The Fab' portion of the conjugate functioned in a manner indistinguishable from that of native antibody 59D8. In an in vitro assay for lysis of fibrin monomer, the fibrinolytic potency of scu-PA-59D8 Fab' was 33-fold more than that of tissue plasminogen activator (p less than 0.001), 230-fold more than that of unconjugated scu-PA (p less than 0.0001), and 420-fold more than that of urokinase (p less than 0.0001).(ABSTRACT TRUNCATED AT 250 WORDS)
Characterization of cDNAs encoding human leukosialin and localization of the leukosialin gene to chromosome 16. (1989)

We describe the isolation and characterization of cDNA clones encoding human leukosialin, a major sialoglycoprotein of human leukocytes. Leukosialin is very closely related or identical to the sialophorin molecule, which is involved in T-cell proliferation and whose expression is altered in Wiskott-Aldrich syndrome (WAS), an X chromosome-linked immunodeficiency disease. Using a rabbit anti-serum to leukosialin, a cDNA clone was isolated from a lambda gt11 cDNA library constructed from human peripheral blood cells. This lambda gt11 clone was used to isolate longer cDNA clones that correspond to the entire coding sequence of leukosialin. DNA sequence analysis reveals three domains in the predicted mature protein. The extracellular domain is enriched for Ser, Thr, and Pro and contains four contiguous 18-amino acid repeats. The transmembrane and intracellular domains of the human leukosialin molecule are highly homologous to the rat W3/13 molecule. RNA gel blot analysis reveals two polyadenylylated species of 2.3 and 8 kilobases. Southern blot analysis suggests that human leukosialin is a single-copy gene. Analysis of monochromosomal cell hybrids indicates that the leukosialin gene is not X chromosome linked and in situ hybridization shows leukosialin is located on chromosome 16. These findings demonstrate that the primary mutation in WAS is not a defect in the structural gene for leukosialin.
A Virtual Screening Approach for Thymidine Monophosphate Kinase Inhibitors as Antitubercular Agents Based on Docking and Pharmacophore Models (2005)

Docking and pharmacophore screening tools were used to examine the binding of ligands in the active site of thymidine monophosphate kinase of Mycobacterium tuberculosis. Docking analysis of deoxythymidine monophosphate (dTMP) analogues suggests the role of hydrogen bonding and other weak interactions in enzyme selectivity. Water-mediated hydrogen-bond networks and a halogen-bond interaction seem to stabilize the molecular recognition. A pharmacophore model was developed using 20 dTMP analogues. The pharmacophoric features were complementary to the active site residues involved in the ligand recognition. On the basis of these studies, a composite screening model that combines the features from both the docking analysis and the pharmacophore model was developed. The composite model was validated by screening a database spiked with 47 known inhibitors. The model picked up 42 of these, giving an enrichment factor of 17. The validated model was used to successfully screen an in-house database of about 500,000 compounds. Subsequent screening with other filters gave 186 hit molecules.
A 16-kbit nonvolatile charge addressed memory (1976)

A 16-kbit nonvolatile charge addressed memory (NOVCAM) is described. A unique cell design allows a high-density memory array layout without reduced line widths or spacings. A cell size of 0.5 square mils is produced by a seven mask process with 6-/spl mu/m polysilicon gates, 10-/spl mu/m aluminum gates, and 10-/spl mu/m minimum spacing on all mask levels. Charge addressed write and read operations are implemented with a very simple interface between the memory array and a two-phase dynamic shift register. The memory is organized as 256 columns by 64 rows. Two 64-bit shift registers provide data access to the memory array via a 2:1 column decoder. With single polysilicon processing the memory array is 50/spl times/161 mils; the 16-kbit chip is 131/spl times/200 mils.
Speed binning with path delay test in 150-nm technology (2003)

What would it take to reduce speed binning's dependency on functional testing? One answer is a structural at-speed test approach that can achieve the same effectiveness as functional testing. The authors of this article offer a formula to relate structural critical-path testing frequency to system operation frequency. They demonstrate that there can be a high correlation between frequencies resulting from structural testing and those resulting from functional testing.
Ultralong photonic nanojet formed by a two-layer dielectric microsphere (2014)

A photonic nanojet is a highly focused optical beam with a subwavelength waist on the shadow side of the sphere. Successful far-field applications require long nanojets that extend afar. Using the exact Mie theory, we show that ultralong nanojets can be generated using a simple two-layer microsphere structure, using conventional optical materials that are readily available. In particular, we show that for a glass-based two-layer microsphere, the nanojet has an extension of 22 wavelengths. We also show that long nanojets can be formed using semiconductors at infrared frequencies in free space.
Current approches of Wifi Positioning (2012)

WiFi positioning plays an increasingly important role in improving performance because good positioning can improve performance in indoor environments without additional devices. It will make use of existing WiFi infrastructure, although this was never designed to do so. Methods that were used for other positioning technologies can be adopted for WiFi. Whether or not these other methods work with WiFi will be explained and examined. This paper also discusses the accuracy of the methods and the optimal area of application. Index Terms—Wifi, WLAN, Positioning, Location, Position determination, localization, Fingerprinting
Formation of Nitric Oxide–Derived Oxidants by Myeloperoxidase in Monocytes (1999)

Protein nitration and lipid peroxidation are implicated in the pathogenesis of atherosclerosis; however, neither the cellular mediators nor the reaction pathways for these events in vivo are established. In the present study, we examined the chemical pathways available to monocytes for generating reactive nitrogen species and explored their potential contribution to the protein nitration and lipid peroxidation of biological targets. Isolated human monocytes activated in media containing physiologically relevant levels of nitrite (NO(2)(-)), a major end product of nitric oxide ((*)NO) metabolism, nitrate apolipoprotein B-100 tyrosine residues and initiate LDL lipid peroxidation. LDL nitration (assessed by gas chromatography-mass spectrometry quantification of nitrotyrosine) and lipid peroxidation (assessed by high-performance liquid chromatography with online tandem mass spectrometric quantification of distinct products) required cell activation and NO(2)(-); occurred in the presence of metal chelators, superoxide dismutase (SOD), and scavengers of hypohalous acids; and was blocked by myeloperoxidase (MPO) inhibitors and catalase. Monocytes activated in the presence of the exogenous (*)NO generator PAPA NONOate (Z-[N-(3-aminopropyl)-N-(n-propyl)amino]diazen-1-ium-1,2- diolate) promoted LDL protein nitration and lipid peroxidation by a combination of pathways. At low rates of (*)NO flux, both protein nitration and lipid peroxidation were inhibited by catalase and peroxidase inhibitors but not SOD, suggesting a role for MPO. As rates of (*)NO flux increased, both nitrotyrosine formation and 9-hydroxy-10,12-octadecadienoate/9-hydroperoxy-10,12-octadecadieno ic acid production by monocytes became insensitive to the presence of catalase or peroxidase inhibitors, but they were increasingly inhibited by SOD and methionine, suggesting a role for peroxynitrite. Collectively, these results demonstrate that monocytes use distinct mechanisms for generating (*)NO-derived oxidants, and they identify MPO as a source of nitrating intermediates in monocytes.
Global Analysis of Protein Activities Using Proteome Chips (2001)

To facilitate studies of the yeast proteome, we cloned 5800 open reading frames and overexpressed and purified their corresponding proteins. The proteins were printed onto slides at high spatial density to form a yeast proteome microarray and screened for their ability to interact with proteins and phospholipids. We identified many new calmodulin- and phospholipid-interacting proteins; a common potential binding motif was identified for many of the calmodulin-binding proteins. Thus, microarrays of an entire eukaryotic proteome can be prepared and screened for diverse biochemical activities. The microarrays can also be used to screen protein-drug interactions and to detect posttranslational modifications.
Optical correlation: influence of the coding of the input image (1994)

We analyze the influence of different optical coding methods of the input image in optical correlators. The noise robustness and the optical efficiency of the correlator are investigated. We show in particular that the signal-to-noise ratio is greatly dependent on the coding method. It decreases drastically for large phase modulation.
NPP1, a Phytophthora ‐associated trigger of plant defense in parsley and Arabidopsis (2002)

Activation of non-cultivar-specific plant defense against attempted microbial infection is mediated through the recognition of pathogen-derived elicitors. Previously, we have identified a peptide fragment (Pep-13) within a 42-kDa cell wall transglutaminase from various Phytophthora species that triggers a multifacetted defense response in parsley cells. Many of these oomycete species have now been shown to possess another cell wall protein (24 kDa), that evoked the same pattern of responses in parsley as Pep-13. Unlike Pep-13, necrosis-inducing Phytophthora protein 1 (NPP1) purified from P. parasitica also induced hypersensitive cell death-like lesions in parsley. NPP1 structural homologs were found in oomycetes, fungi, and bacteria, but not in plants. Structure-activity relationship studies revealed the intact protein as well as two cysteine residues to be essential for elicitor activity. NPP1-mediated activation of pathogen defense in parsley does not employ the Pep-13 receptor. However, early induced cellular responses implicated in elicitor signal transmission (increased levels of cytoplasmic calcium, production of reactive oxygen species, MAP kinase activation) were stimulated by either elicitor, suggesting the existence of converging signaling pathways in parsley. Infiltration of NPP1 into leaves of Arabidopsis thaliana Col-0 plants resulted in transcript accumulation of pathogenesis-related (PR) genes, production of ROS and ethylene, callose apposition, and HR-like cell death. NPP1-mediated induction of the PR1 gene is salicylic acid-dependent, and, unlike the P. syringae pv. tomato DC3000(avrRpm1)-induced PR1 gene expression, requires both functional NDR1 and PAD4. In summary, Arabidopsis plants infiltrated with NPP1 constitute an experimental system that is amenable to forward genetic approaches aiming at the dissection of signaling pathways implicated in the activation of non-cultivar-specific plant defense.
On the Bioactive Conformation of the Rhodopsin Chromophore: Absolute Sense of Twist around the 6-s-cis Bond (2001)

Incubation of opsin with synthetic 6-s-locked retinoids 2a and 2b only led to pigment formation from the alpha-locked 2a, the CD spectrum of which was similar to that of native rhodopsin (Rh). This establishes that the 6-s-bond of the chromophore in rhodopsin is cis, and that its helicity is negative. Earlier cross-linking studies showed that the 11-cis to all-trans photoisomerization occurring in the batho-Rh to lumi-Rh conversion induces a flip over of the side carrying the ring moiety. The GTP-binding assay of pigment Rh-(2a), incorporating retinal analogue 2a, has shown that its activity is 80% that of the native pigment. That is, the overall conformation around the 6-s bond is retained in the steps leading to G-protein activation.
Characterization of the Sialic Acid-binding Site in Sialoadhesin by Site-directed Mutagenesis (1996)

The sialoadhesins are a distinct subgroup of the immunoglobulin superfamily, comprising sialoadhesin, CD22, the myelin-associated glycoprotein, and CD33. They can all mediate sialic acid-dependent binding to cells with distinct specificities. Sialoadhesin is a murine macrophage-restricted cell-surface molecule with 17 extracellular immunoglobulin-like domains that recognizes NeuAc alpha 2-3Gal in N- and O-glycans and interacts preferentially with cells of the granulocytic lineage. Its sialic acid-binding site is located within the NH2-terminal (membrane-distal) V-set domain. Here we have carried out site-directed mutagenesis in an attempt to identify the binding site of sialoadhesin. A subset of nonconservative mutations disrupted sialic acid-dependent binding without affecting binding of three monoclonal antibodies directed to two distinct epitopes of sialoadhesin. A CD8 alpha-based molecular model predicts that these residues form a contiguous binding site on the GFCC'C" beta-sheet of the V-set domain centered around an arginine in the F strand. A conservative mutation of this arginine to lysine also abolished binding. This amino acid is conserved among all members of the sialoadhesin family and is therefore likely to be a key residue in mediating sialic acid-dependent binding of sialoadhesins to cells.
Improvement of Psoriasis of the Scalp With Ketoconazole (1982)

<h3>To the Editor.—</h3> We have recently proposed that psoriasis is ordinarily the result of the interaction of various microbial products with an abnormally responsive alternative complement pathway.<sup>1</sup> Among the microbial products we suggested might play a role in psoriasis was the yeast<i>Malassezia ovalis (Pityrosporum ovale)</i>, which is normally present in the scalp and is a potent activator of the alternative complement pathway. The recent availability of ketoconazole has provided us with an opportunity to test our hypothesis. If<i>M ovalis</i>were indeed evoking the development of psoriatic disease of the scalp, it should be possible to treat psoriasis of the scalp successfully with nothing but oral ketoconazole. Ketoconazole has been reported to be effective in the treatment of Pityrosporum folliculitis,<sup>2</sup>tinea versicolor,<sup>3</sup>and<i>P canis</i>-induced dermatitis in two dogs.<sup>4</sup>Topical econazole nitrate, a related imidazole antibiotic, was reported to be effective in the treatment
Issues related to in vitro operation of potentially implantable enzyme electrode glucose sensors. (1988)

The operation of enzyme electrode glucose sensors based on oxygen, hydrogen peroxide, and electron carrier molecules is reviewed. Issues that are most effectively addressed by in vitro experimentation are identified. An understanding of these issues is prerequisite for unequivocal interpretation of in vivo results.
[A comparison of clinical characteristics between 2 pedigrees of multiple endocrine neoplasia type 2A with different RET mutations]. (2018)

Multiple endocrine neoplasia type 2A (MEN2A) is a hereditary syndrome. Here, two different RET proto-oncogen mutation were identified from family members of two MEN2A pedigrees by genetic screening. One RET mutations were found at codons 1893 and 1895 in exon 11 (1893-1895delCGA) from pedigree 1, which is a novel mutation, the other occurs at codon 634 (Cys634Arg) in exon 11 from pedigree 2. However, the clinical characteristics were similar in the patients of the two pedigrees. All the patients were in middle-age at onset. Most of them were firstly diagnosed with bilateral adrenal pheochromocytoma with different degrees of thyroid abnormalities (elevated serum calcitonin with or without thyroid mass, or had been diagnosed with medullary thyroid carcinoma). Some family members were with elevated serum parathyroid hormone but with no other evidences for hyperparathyroidism.
Purification and antibacterial activity of antimicrobial peptides of rabbit granulocytes (1984)

Six antimicrobial peptides, corresponding to the family of "lysosomal cationic proteins" described previously by Zeya and Spitznagel (H. I. Zeya and J. K. Spitznagel, J. Bacteriol. 91:750-754, 1966; H. I. Zeya and J. K. Spitznagel, J. Bacteriol. 91:755-762, 1966), were purified from rabbit peritoneal granulocytes by preparative acrylamide gel electrophoresis and reversed-phase high-pressure liquid chromatography. Each of the peptides was of low molecular weight (ca. 4,000) as determined by sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The two most cationic peptides, NP-1 and NP-2, were active against a broad spectrum of gram-positive and gram-negative bacteria. The remaining four peptides, NP-3A, NP-3B, NP-4, and NP-5, had more selective antibacterial activity. None of the peptides was active against Bordetella bronchiseptica, a common pathogen of domestic rabbits. Antibacterial activity was best expressed at near neutral pH under conditions of low ionic strength.
Multiple roles for activated LEF/TCF transcription complexes during hair follicle development and differentiation (1999)

LEF/TCF DNA-binding proteins act in concert with activated beta -catenin, the product of Wnt signaling, to transactivate downstream target genes. To probe the role of activated LEF/TCF transcription factor complexes in hair follicle morphogenesis and differentiation, we engineered mice harboring TOPGAL, a beta -galactosidase gene under the control of a LEF/TCF and beta -catenin inducible promoter. In mice, TOPGAL expression was directly stimulated by a stabilized form of beta -catenin, but was also dependent upon LEF1/TCF3 in skin. During embryogenesis, TOPGAL activation occurred transiently in a subset of LEF1-positive cells of pluripotent ectoderm and underlying mesenchyme. Downgrowth of initiated follicles proceeded in the absence of detectable TOPGAL expression, even though LEF1 was still expressed. While proliferative matrix cells expressed the highest levels of Lef1 mRNAs, LEF1 concentrated in the precursor cells to the hair shaft, where TOPGAL expression was co-induced with hair-specific keratin genes containing LEF/TCF-binding motifs. LEF1 and TOPGAL expression ceased during catagen and telogen, but reappeared at the start of the postnatal hair cycle, concomitant with precortex formation. In contrast to hair shaft precursor cells, postnatal outer root sheath expressed TCF3, but not TOPGAL. TCF3 was also expressed in the putative follicle stem cells, and while TOPGAL was generally silent in this compartment, it was stimulated at the start of the hair cycle in a fashion that appeared to be dependent upon stabilization of beta -catenin. Taken together, our findings demonstrate that LEF1/TCF3 is necessary but not sufficient for TOPGAL activation, revealing the existence of positive and negative regulators of these factors in the skin. Furthermore, our findings unveil the importance of activated LEF/TCF complexes at distinct times in hair development and cycling when changes in cell fate and differentiation commitments take place.
Graph Layouts by t‐SNE (2017)

Abstract We propose a new graph layout method based on a modification of the t‐distributed Stochastic Neighbor Embedding (t‐SNE) dimensionality reduction technique. Although t‐SNE is one of the best techniques for visualizing high‐dimensional data as 2D scatterplots, t‐SNE has not been used in the context of classical graph layout. We propose a new graph layout method, tsNET, based on representing a graph with a distance matrix, which together with a modified t‐SNE cost function results in desirable layouts. We evaluate our method by a formal comparison with state‐of‐the‐art methods, both visually and via established quality metrics on a comprehensive benchmark, containing real‐world and synthetic graphs. As evidenced by the quality metrics and visual inspection, tsNET produces excellent layouts.
Hybrid Fiber Fabrication Using an AC Electric Field and Capillary Action (2007)

We present a novel hybrid fiber fabrication method for nanostructured hybrid-materials, using an AC electric field and capillary action. Through this fabrication process, hybrid fibers composed of single walled carbon nanotubes (SWCNTs) and silicon carbide (SiC) nanowires were systematically manufactured. It was demonstrated that both diameter and length of hybrid nanofibers could be controlled by manipulating parameters, such as the mixing ratio of SWCNTs to SiC nanowires, concentration of solution, immersion time, volume of solution, and withdrawal rate. In the fabricated hybrid fibers, the SiC nanowires functioned as a structural frame (host filler materials), while SWCNTs were employed for their extraordinary mechanical and electrical properties as a binder or net. Using this method, the fabrication speed of the hybrid fiber was increased by 20 fold compared to the existing method[1]. According to the simulation and modeling results, the fibers are formed by the following three steps; (1) nanowire bridge formation by dielectrophoresis in solution (2) nanowire fiber formation by compression due to capillary action (3) alignment by the torque due to the capillary action. The proposed processing technology may provide an ample opportunity for fabricating a long hybrid-nanofiber.