gebhart/patrepeval huggingface dataset:
Fighting cancer with oncolytic viruses (2006)

5-Hydroxytryptamine (5HT)1C and 5HT2 receptors display paradoxical down-regulation when exposed to receptor antagonists in vivo, a property that is unique to these two subtypes of serotonin (5HT) receptors. Because of the absence of cell culture model systems, the mechanisms involved in this paradoxical down-regulation have been difficult to explore. The present study focuses on the regulation of 5HT1C receptors in primary cultures of rat choroid plexus epithelial cells. Exposure of the epithelial cell cultures to 100 nM mianserin, a receptor antagonist, or (-)-1-(4-bromo-2,5-dimethoxyphenyl)-2-aminopropane, an agonist, for 72 hr caused a loss of 5HT1C receptor binding sites, as determined by [3H]mesulergine binding to crude membrane preparations. No significant changes in Kd values were observed. Neither the agonist nor antagonist caused a significant change in binding sites after 24 hr. A solution hybridization assay was used to determine whether the down-regulation by mianserin or (-)-1-(4-bromo-2,5-dimethoxyphenyl)-2-aminopropane was accompanied by a decrease in the steady state level of 5HT1C receptor mRNA. These studies showed that neither treatment caused an alteration in the levels of 5HT1C receptor mRNA. Thus, it is possible to reproduce the in vivo regulatory effects of drugs on 5HT1C receptors in choroid plexus epithelial cells in culture, including the atypical down-regulation by receptor antagonists. Using this cell culture model system, indirect transynaptic effects and decreases in receptor mRNA levels have been ruled out as mechanisms accounting for the down-regulation.
A new RNA-RNA crosslinking reagent and its application to ribosomal 5S RNA (1978)

The synthesis of a new RNA specific bifunctional crosslinking reagent, 1.4-phenyl-diglyoxal, is described which reacts exclusively with guanosines. The properties of the crosslinked products enabled us to develop a straightforward method for identifying the reacted nucleotides. Results obtained with ribosomal 5S RNA of Escherichia coli demonstrate the formation of an intramolecular crosslink between guanosine-2 and guanosine-112 in the stem region.
“Constructive Nanolithography”: Inert Monolayers as Patternable Templates for In-Situ Nanofabrication of Metal–Semiconductor–Organic Surface Structures—A Generic Approach (2000)

Tip-induced nanoelectrochemical oxidation is used to pattern methyl-terminated silane monolayers on silicon via oxidation of their top CH3 groups in the process known as constructive nanolithography. These authors report the utility of such “inert” monolayers as extremely versatile templates for constructing a rich variety of patterns such as the particulate cadmium sulfide features shown in the Figure.
Living Carbocationic Polymerization ofp-Methylstyrene and Sequential Block Copolymerization of Isobutylene withp-Methylstyrene (1994)

Abstract A novel scheme was developed for the synthesis of pure polyisobutylene-poly(p-methylstyrene) block copolymers by sequential monomer addition. The synthesis involves the living polymerization of isobutylene by the TiCl4/methyl chloride:methylcyclohexane or hexanes 40:60 v:v/ -80°C system in the presence of di-tert-butylpyridine. When the polymerization of isobutylene is complete, the living polyisobutylene chain end is transformed to the corresponding diphenyl alkyl end by capping with 1,1-diphenylethylene. Subsequently, titanium(IV) isopropoxide or titanium(IV) butoxide is added to decrease the Lewis acidity followed by the addition of p-methylstyrene. The success of the method was demonstrated by p-methylstyrene homopolymerization experiments initiated by 2-chloro-2,4,4-trimethylpentane that resulted in ∼ 100% initiator efficiencies when the TiCl4/titanium(IV) isopropoxide or -butoxide ratio was less than 25/7, as well as by the clean synthesis of polyisobutylenepoly(p-methylstyrene) diblock copolymers.
Costimulation of human natural killer cell proliferation: role of accessory cytokines and cell contact-dependent signals. (1998)

Despite the importance of natural killer (NK) cells in the immune response, the regulation of human NK cell growth has not been well characterized. We have hypothesized that, similar to the proliferation of T and B lymphocytes, optimal proliferation of NK cells requires costimulatory signals as well as a primary mitogenic stimulus. Evidence for costimulation by both soluble cytokines and cell contact-dependent factors is presented. Soluble IL-1 and TNF were found to augment NK cell proliferation in response to primary mitogenic cytokines, including IL-2, IL-4, IL-7, and IL-12. The costimulatory effect of IL-1 and TNF is strongly enhanced by the calcium ionophore ionomycin. Coculture of NK cells with irradiated K562 cells can largely substitute for the costimulatory signal provided by ionomycin. Costimulation by K562 requires intimate cell contact and is not reconstituted by cell-free supernatants. Activated T lymphocytes can also mediate contact-dependent costimulation of NK cells; resting PBMC, several NK-sensitive cell lines, and all NK-resistant cell lines tested were not found to be costimulatory. Engagement of CD16 did not augment NK cell proliferation. Thus, triggering of natural killing or antibody-dependent cell-mediated cytotoxicity (ADCC) does not consistently provide a costimulatory signal for NK cell proliferation. Cell contact-dependent costimulation of NK cells does not appear to involve known receptors that can costimulate T cells, including CD2, CD27, CD28, CD29, or LFA-1. The molecular nature of the putative NK cell costimulatory receptor remains to be elucidated. Nevertheless, human NK cells could be expanded in vitro using leukocyte-conditioned medium (LCM) as a source of IL-2 and accessory cytokines and ionomycin to bypass the putative receptor for cell contact-dependent costimulation. NK cells expanded in LCM and ionomycin express typical NK cell antigens and mediate natural killing and ADCC. Further characterization of the costimulatory signals for NK cell proliferation may elucidate the physiologic regulation of NK cell growth and may ultimately allow more effective manipulation of these lymphocytes in the immunotherapy of human diseases.
The effect of pore structure on fluid‐solid reactions: Application to the SO2‐lime reaction (1981)

Abstract The effect of varying pore structures on the kinetics of fluid‐solid reactions is investigated through the random pore model developed in prior papers (Bhatia and Perlmutter, 1980, 1981). By considering several idealized pore‐size distributions it is shown that a solid having a uniform pore size is intrinsically less reactive than one possessing a pore‐size distribution. For solids with bimodal pore size distributions optimal structures are shown to exist for which the reactivity is a maximum. Numerical solutions were obtained to the model equations for various values of the parameters characterizing the pore structure, the diffusion, and the chemical kinetics. The results show that the conversion‐time behavior and the expected ultimate conversion can be very sensitive to variations in surface area and porosity for reactions accompanied by an increase in volume of the solid phase. These findings are in agreement with experimental literature on the SO 2 ‐lime reaction (Ulerich et al., 1978; Borgwardt and Harvey, 1972; Potter, 1969; Falkenberry and Slack, 1968) and the model is shown to fit the data of Borgwardt (1970), and of Hartman and Coughlin (1974, 1976). It is seen that this reaction is diffusion controlled under the conditions of Hartman and Coughlin, in consonance with their own finding using the grain model, and a prior Pigford and Sliger (1973) interpretation. The temperature behavior of the diffusion coefficient in the product layer suggests the participation of an activated process, possibly a solid state diffusion step.
Implications of peroxisome proliferator-activated receptors (PPARS) in development, cell life status and disease (2000)

The past several years have seen an increasing interest in the peroxisome proliferator-activated receptors (PPARs). These transcriptional factors belong to the superfamily of the steroid/thyroid/retinoid receptors. They are activated by fatty acids or their metabolites as well as by different xenobiotic peroxisome proliferators. These receptors are expressed in both the embryo and the adult organism. They have been implicated in cell proliferation, differentiation and apoptosis. In this review, we will attempt to point out some of the more salient features of this expression pattern during development and the different steps of cell life. The current understanding of how PPARs are involved in some human diseases will also be described.
Two Transcription Factors, DREB1 and DREB2, with an EREBP/AP2 DNA Binding Domain Separate Two Cellular Signal Transduction Pathways in Drought- and Low-Temperature-Responsive Gene Expression, Respectively, in Arabidopsis (1998)

Plant growth is greatly affected by drought and low temperature. Expression of a number of genes is induced by both drought and low temperature, although these stresses are quite different. Previous experiments have established that a cis-acting element named DRE (for dehydration-responsive element) plays an important role in both dehydration- and low-temperature-induced gene expression in Arabidopsis. Two cDNA clones that encode DRE binding proteins, DREB1A and DREB2A, were isolated by using the yeast one-hybrid screening technique. The two cDNA libraries were prepared from dehydrated and cold-treated rosette plants, respectively. The deduced amino acid sequences of DREB1A and DREB2A showed no significant sequence similarity, except in the conserved DNA binding domains found in the EREBP and APETALA2 proteins that function in ethylene-responsive expression and floral morphogenesis, respectively. Both the DREB1A and DREB2A proteins specifically bound to the DRE sequence in vitro and activated the transcription of the b-glucuronidase reporter gene driven by the DRE sequence in Arabidopsis leaf protoplasts. Expression of the DREB1A gene and its two homologs was induced by low-temperature stress, whereas expression of the DREB2A gene and its single homolog was induced by dehydration. Overexpression of the DREB1A cDNA in transgenic Arabidopsis plants not only induced strong expression of the target genes under unstressed conditions but also caused dwarfed phenotypes in the transgenic plants. These transgenic plants also revealed freezing and dehydration tolerance. In contrast, overexpression of the DREB2A cDNA induced weak expression of the target genes under unstressed conditions and caused growth retardation of the transgenic plants. These results indicate that two independent families of DREB proteins, DREB1 and DREB2, function as trans-acting factors in two separate signal transduction pathways under low-temperature and dehydration conditions, respectively.
Diethylaminoalkyl Ester Hydrochlorides of N-Alkyl-4-carbostyrilcarboxylic Acids (1952)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDiethylaminoalkyl Ester Hydrochlorides of N-Alkyl-4-carbostyrilcarboxylic AcidsD. J. Cook and C. Kenneth BjorkCite this: J. Am. Chem. Soc. 1952, 74, 2, 543–544Publication Date (Print):January 1, 1952Publication History Published online1 May 2002Published inissue 1 January 1952https://pubs.acs.org/doi/10.1021/ja01122a079https://doi.org/10.1021/ja01122a079research-articleACS PublicationsRequest reuse permissionsArticle Views54Altmetric-Citations3LEARN 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
Abnormality detection in retinal images using Haar wavelet and First order features (2016)

Diabetic Retinopathy has become a major cause of blindness. Early detection of diabetic retinopathy can prevent vision loss of human. Many automated systems have been developed to detect diabetic retinopathy. All these mechanisms are computationally expensive. They perform segmentation and then classify these regions into exudates and non-exudates. Proposed method classify quickly image as Diseased or Healthy one. The image is classified based on Haar wavelet and First order statistical features obtained from detailed coefficients. The authors used Diaretdb0 and Diaretdb1 database and performed a comparative study of Decision tree classifier and Knn classier. Authors obtained encouraging results with classification accuracy of 85% with Knn classifier and 75% accuracy with decision tree classifier.
Improving Tumor-Targeting Capability and Pharmacokinetics of 99mTc-Labeled Cyclic RGD Dimers with PEG4 Linkers (2008)

This report describes the synthesis of two cyclic RGD (Arg-Gly-Asp) conjugates, HYNIC-2PEG(4)-dimer (HYNIC = 6-hydrazinonicotinyl; 2PEG(4)-dimer = E[PEG(4)-c(RGDfK)](2); and PEG(4) = 15-amino-4,7,10,13-tetraoxapentadecanoic acid) and HYNIC-3PEG(4)-dimer (3PEG(4)-dimer = PEG(4)-E[PEG(4)-c(RGDfK)](2)), and evaluation of their (99m)Tc complexes [(99m)Tc(HYNIC-2PEG(4)-dimer)(tricine)(TPPTS)] ((99m)Tc-2PEG(4)-dimer: TPPTS = trisodium triphenylphosphine-3,3',3''-trisulfonate) and [(99m)Tc(HYNIC-3PEG(4)-dimer)(tricine)(TPPTS)] ((99m)Tc-3PEG(4)-dimer) as novel radiotracers for imaging integrin alpha(v)beta(3) expression in athymic nude mice bearing U87MG glioma and MDA-MB-435 breast cancer xenografts. The integrin alpha(v)beta(3) binding affinities of RGD peptides were determined by competitive displacement of (125)I-c(RGDyK) on U87MG glioma cells. It was found that the two PEG(4) linkers between RGD motifs in HYNIC-2PEG(4)-dimer (IC(50) = 2.8 +/- 0.5 nM) and HYNIC-3PEG(4)-dimer (IC(50) = 2.4 +/- 0.7 nM) are responsible for their higher integrin alpha(v)beta(3) binding affinity than that of HYNIC-PEG(4)-dimer (PEG(4)-dimer = PEG(4)-E[c(RGDfK)](2); IC(50) = 7.5 +/- 2.3 nM). Addition of extra PEG(4) linker in HYNIC-3PEG(4)-dimer has little impact on integrin alpha(v)beta(3) binding affinity. (99m)Tc-2PEG(4)-dimer and (99m)Tc-3PEG(4)-dimer were prepared in high yield with >95% radiochemical purity and the specific activity of >10 Ci/mumol. Biodistribution studies clearly demonstrated that PEG(4) linkers are particularly useful for improving the tumor uptake and clearance kinetics of (99m)Tc-2PEG(4)-dimer and (99m)Tc-3PEG(4)-dimer from noncancerous organs. It was also found that there was a linear relationship between the tumor size and radiotracer tumor uptake expressed as %ID (percentage of the injected dose) in U87MG glioma and MDA-MB-435 breast tumor models. The blocking experiment showed that the tumor uptake of (99m)Tc-2PEG(4)-dimer is integrin alpha(v)beta(3)-mediated. In the metabolism study, (99m)Tc-2PEG(4)-dimer had high metabolic stability during its excretion from renal and hepatobiliary routes. (99m)Tc-3PEG(4)-dimer also remained intact during thee excretion from the renal route, but, had approximately 30% metabolism during the excretion from the hepatobiliary route. Planar imaging studies in U87MG glioma and MDA-MB-435 breast tumor models showed that the tumors of approximately 5 mm in diameter could be readily visualized with excellent contrast. Thus, (99m)Tc-3PEG(4)-dimer is a very promising radiotracer for the early detection of integrin alpha(v)beta(3)-positive tumors, and may have the potential for noninvasive monitoring of tumor growth or treatment efficacy.
Role of human papillomavirus in the development of head and neck squamous cell carcinomas (2004)

Taken together, these data support the view that HPV-harbouring HNSCC can be considered a discrete tumour entity with, moreover, a favourable prognosis. Screening of patients, especially those with tonsillar cancers, for the presence of HPV may help to further optimize treatment protocols and to provide more accurate prognostic information.
Arabidopsis MSH1 mutation alters the epigenome and produces heritable changes in plant growth (2015)

Plant phenotypes respond to environmental change, an adaptive capacity that is at least partly transgenerational. However, epigenetic components of this interplay are difficult to measure. Depletion of the nuclear-encoded protein MSH1 causes dramatic and heritable changes in plant development, and here we show that crossing these altered plants with isogenic wild type produces epi-lines with heritable, enhanced growth vigour. Pericentromeric DNA hypermethylation occurs in a subset of msh1 mutants, indicative of heightened transposon repression, while enhanced growth epi-lines show large chromosomal segments of differential CG methylation, reflecting genome-wide reprogramming. When seedlings are treated with 5-azacytidine, root growth of epi-lines is restored to wild-type levels, implicating hypermethylation in enhanced growth. Grafts of wild-type floral stems to mutant rosettes produce progeny with enhanced growth and altered CG methylation strikingly similar to epi-lines, indicating a mobile signal when MSH1 is downregulated, and confirming the programmed nature of methylome and phenotype changes.
(Invited) Selective Etch of Si and SiGe for Gate All-Around Device Architecture (2015)

The Gate All-Around device architecture requires the formation of semiconductor nanowires. As an example SiGe nanowires can be formed by the selective removal of rSi in a Si-SiGe fin-shaped stack. In this paper we will show how alkaline solutions can be used for the selective removal of Si to SiGe and SiGe to Ge. We will also show that the anisotropy of the SiGe alkaline etch is not an extension of Si, even at low to moderate Ge concentrations (Ge ≤ 50%).
Role of Telomerase in Normal and Cancer Cells (2000)

Shortening of the telomeric DNA at chromosome ends is postulated to limit the lifespan of human cells. In contrast, activation of telomerase, the enzyme that synthesizes telomeric DNA, is proposed to be an essential step in cancer cell immortalization and cancer progression. This review discusses the structure and function of telomeres and telomerase, the role of telomerase in cell immortalization, and the effects of telomerase inactivation on normal and cancer cells. Moreover, data on the experimental use of telomerase assays for cancer detection and diagnosis are reviewed. Finally, the review considers the evidence regarding whether telomerase inhibitors could be used to treat human cancers.
Flash matting (2006)

In this paper, we propose a novel approach to extract mattes using a pair of flash/no-flash images. Our approach, which we call flash matting , was inspired by the simple observation that the most noticeable difference between the flash and no-flash images is the foreground object if the background scene is sufficiently distant. We apply a new matting algorithm called joint Bayesian flash matting to robustly recover the matte from flash/no-flash images, even for scenes in which the foreground and the background are similar or the background is complex. Experimental results involving a variety of complex indoors and outdoors scenes show that it is easy to extract high-quality mattes using an off-the-shelf, flash-equipped camera. We also describe extensions to flash matting for handling more general scenes.
The Direct Execution of SPECS-C++: A Model-Based Specification Language for C++ Classes (1994)

Executable specification languages may be the key to more widespread use of formal methods in software production. However, the expressiveness of executable specification languages is typically much less than that of non-executable specification languages such as VDM or Z. Thus, specifiers are forced to work at a lower level of abstraction to gain the advantage of executability. Additionally, specifications are typically made executable by translating them to a programming language, so errors in the specification can only be detected as errors in the resulting code. This paper presents a technique for directly executing specifications written in SPECS-C++, a model-based specification language for C++ classes. As SPECS-C++ has much in common with the implicit subset of VDM, this technique is equally applicable to implicit VDM specifications. Standard ML code for the interpreter and the example used in the paper appear in the appendices.
Intragastric Colonization of Infant Mice with Candida albicans Induces Systemic Immunity Demonstrable upon Challenge as Adults (1988)

A murine model of long-term colonization with Candida albicans, established by intubating infant CBA/J mice, was used to study the effects of colonization on the development of Candida-specific immune responses in mature animals. Two striking consequences were stimulation of protective immune responses, as evidenced by increased survival and decreased numbers of colony-forming units in mice challenged intravenously (iv), and priming of the T cell component responsible for delayed hypersensitivity (DH). Colonized mice, tested as adults by using a cell wall-derived antigen, had little or no demonstrable DH. If inoculated once cutaneously with viable Candida, however, they responded with significantly enhanced DH reactions that could not be correlated with the cutaneous inoculation. Inoculation of the same number of dead organisms into infant mice neither primed animals for enhanced DH nor stimulated protective immunity. Antibody to cytoplasmic antigens of Candida was demonstrable in colonized animals, and its production was increased significantly in animals challenged iv with the highest dose of blastoconidia.
Dual OCT/SLO imager with three-dimensional tracker (2005)

We have designed, developed, and tested a three-dimensional tracking and imaging system that uses a novel optical layout to acquire both en-face confocal images by scanning laser imaging (e.g. scanning laser ophthalmoscopy, SLO) and high-resolution depth sections by optical coherence tomography (OCT). The present application for this system is retinal imaging. The instrument is capable of sequentially collecting OCT and SLO images with the simple articulation of an optic affixed to a flip-mount. In addition, we have extended our mature transverse tracking system for full three-dimensional motion stabilization. The tracking component employs an innovative optical and electronic design that encodes transverse and depth tracking information on a single beam. We have demonstrated en face SLO imaging with a resolution of ~25 &#956;m and depth-resolved OCT imaging with a resolution of ~10 &#956;m. On artificial targets, transverse tracking was robust up to 1 m/s with a bandwidth of ~1 kHz and depth tracking was robust up to a velocity of ~15 cm/sec, a range of ~1 mm, and a bandwidth of a few hundred Hz. The details of the instrument, including optical and electronic design, are discussed. The system has the potential to provide clinicians and researchers with a wide variety of diagnostic information for the early detection and treatment of retinal diseases.