gebhart/patrepeval huggingface dataset:
5′ distal and proximal cis‐acting regulator elements are required for developmental control of a rice seed storage protein glutelin gene (1993)

Using a homologous transgenic rice system it is demonstrated that 5' distal and proximal cis-acting transcriptional regulatory elements are required for developmental control of a rice seed storage protein glutelin gene. Analyses of gene expression of nine progressively truncated 5' promoter sequences in developing endosperm indicated the existence of at least one major positive element located from the -5.1 to -1.8 kb region. The functional importance of proximal elements in the context of 1.8 kb promoter was demonstrated by single substitution mutations in the TATA box (-28/-23), AACA motif (-73/-61), and protein-binding boxes I (-103/-86), II (-124/-110), III (-175/-158) and IV (-200/-217). A simultaneous mutation of five protein-binding sites (-410/-86) essentially eliminated the activity of the 1.8 kb promoter. Although temporal control of the Gt1 gene during endosperm development was retained in plants of constructs from -5.1 kb to -155 bp, spatial control of the glutelin gene was altered when the 5.1 kb promoter was deleted to -507 bp or -154 bp as the reporter gene activities of these constructs were detected in phloem of leaves, and in stems, sheaths and roots of plants.
Differential Expression of the Melatonin Receptor in Human Monocytes (1998)

Earlier studies have shown that the pineal hormone melatonin activates human monocytes. It is reported here that melatonin induces the secretion of IL-1, IL-6, and TNF in fresh and 1-day in vitro cultured monocytes that also express the melatonin receptor (Kd = 270 +/- 60 pM; 42,000-48,000 receptors/cell). However, when monocytes were cultured in vitro for 2 days, the number of receptors decreased to 11,000 receptors/cell, with the same Kd. LPS activation of fresh or 1-day cultured monocytes did not result in any increase in melatonin receptor number. LPS activation of 2-day cultured monocytes led to an increase in the number of melatonin receptors, from 11,000 receptors/cell to the plateau of 42,000 to 48,000 receptors/cell. The loss of receptors by 2-day cultured monocytes was not irreversible. Melatonin did not induce the release of IL-1, TNF, or IL-6 in monocytes cultured in vitro for 3 days and for up to 15 days, and these long time cultured monocytes did not express the melatonin receptors even after activation by LPS. The loss of melatonin receptors by monocytes cultured in vitro for 3 days and for up to 15 days was irreversible. Therefore, it is shown for the first time that human monocytes express melatonin receptors. Furthermore, human monocytes express melatonin receptors differentially depending on their state of maturation, and it appears that in vitro monocyte differentiation and maturation negatively affect human monocyte melatonin receptor expression.
Network Anomaly Detection Using Time Series Analysis (2005)

This paper presents a method of detecting network anomalies by analyzing the abrupt change of time series data obtained from Management Information Base (MIB) variables. The method applies the Auto- Regressive (AR) process to model the abrupt change of time series data, and performs sequential hypothesis test to detect the anomalies. With time correlation and location correlation, the method determines not only the presence of anomalous activity, but also its occurring time and location. The experimental results show that the proposed method performs well in detecting the traffic-related Anomalies
The human anti-CD30 antibody 5F11 shows in vitro and in vivo activity against malignant lymphoma (2003)

CD30 is a promising target for antibody-based immunotherapy of Hodgkin lymphoma (HL) and anaplastic large cell lymphoma. To overcome the limitations from currently available murine anti-CD30 monoclonal antibodies (mAbs), a new fully human anti-CD30 antibody was generated. Binding properties were evaluated by recombinant CD30 capture enzyme-linked immunosorbent assay (ELISA) and fluorescence-activated cell-sorter (FACS) flow cytometry. Activity of this new mAb was assessed in vitro using growth inhibition and antibody-dependent cellular cytotoxicity (ADCC) assays on several cell lines. In vivo activity was determined in a solid as well as in a disseminated xenografted model of HL in severe combined immunodeficiency (SCID) mice. The mAb 5F11 showed specific binding to CD30 (cluster A). The ADCC assays indicated dose-dependent lysis of L540 cells when 5F11 was combined with human effector cells. Upon cross-linking in vitro, 5F11 inhibited the growth of CD30-expressing cell lines. In vivo, treatment with 5F11 induced a marked growth delay or even a complete regression of established xenografted HL in SCID mice. In the disseminated HL model, a high proportion of 5F11-treated mice experienced long-term survival. The new human anti-CD30 monoclonal antibody 5F11 shows promise as a means of CD30-targeted immunotherapy of malignant lymphomas. Based on these results, a clinical phase 1 study in patients with refractory CD30+ lymphoma has been initiated.
A repressible female-specific lethal genetic system for making transgenic insect strains suitable for a sterile-release program (2000)

We have developed a tetracycline-repressible female-specific lethal genetic system in the vinegar fly Drosophila melanogaster. One component of the system is the tetracycline-controlled transactivator gene under the control of the fat body and female-specific transcription enhancer from the yolk protein 1 gene. The other component consists of the proapoptotic gene hid under the control of a tetracycline-responsive element. Males and females of a strain carrying both components are viable on medium supplemented with tetracycline, but only males survive on normal medium. A strain with such properties would be ideal for a sterile-insect release program, which is most effective when only males are released in the field.
THE EFFECT OF COMBINING ALLELES INTO ELECTROPHORETIC CLASSES ON DETECTING LINKAGE DISEQUILIBRIUM (1977)

When alleles are combined into few detectable classes, linkage correlations are underestimated most of the time. The probability that the linkage correlation will be underestimated is a function of the actual degree of correlation and the evenness of the allelic distribution, but is mainly determined by the distribution of alleles into distinguishable classes. With only two alleles per class this probability will usually be higher than 0.7. Also, the consistency in the sign of the linkage disequilibrium over many populations may escape detection. An increase of sample size by one order of magnitude or more may be required to compensate for the loss in detection power. It follows that the available electrophoretic studies of linkage correlations, although negative in their majority, do not suggest that epistatic interactions and linkage disequilibria are rare in natural populations.
HBV Core Particles as a Carrier for B Cell/T Cell Epitopes (2001)

In the middle 80s, recombinant hepatitis B virus cores (HBc) gave onset to icosahedral virus-like particles (VLPs) as a basic class of non-infectious carriers of foreign immunological epitopes. The recombinant HBc particles were used to display immunodominant epitopes of hepatitis B, C, and E virus, human rhinovirus, papillomavirus, hantavirus, and influenza virus, human and simian immunodeficiency virus, bovine and feline leukemia virus, foot-and-mouth disease virus, murine cytomegalovirus and poliovirus, and other virus proteins, as well as of some bacterial and protozoan protein epitopes. Practical applicability of the HBc particles as carriers was enabled by their ability to high level synthesis and correct self-assembly in heterologous expression systems. The interest in the HBc VLPs was reinforced by the resolution of their fine structure by electron cryomicroscopy and X-ray crystallography, which revealed an unusual alpha-helical organization of dimeric units of HBc shells, alternative packing into icosahedrons with T = 3 and T = 4 symmetry, and the existence of long protruding spikes. The tips of the latter seem to be the optimal targets for the display of foreign sequences up to 238 amino acid residues in length. Combination of numerous experimental data on epitope display with the precise structural information enables a knowledge-based design of diagnostic, and vaccine and gene therapy tools on the basis of the HBc particles.
Hierarchical movie affective content analysis based on arousal and valence features (2008)

Emotional factors directly reflect audiences' attention, evaluation and memory. Affective contents analysis not only create an index for users to access their interested movie segments, but also provide feasible entry for video highlights. Most of the work focus on emotion type detection. Besides emotion type, emotion intensity is also a significant clue for users to find their interested content. For some film genres (Horror, Action, etc), the segments with high emotion intensity have the most possibilities to be video highlights. In this paper, we propose a hierarchical structure for emotion categories and analyze emotion intensity and emotion type by using arousal and valence related features hierarchically. Firstly, High, Medium and Low are detected as emotion intensity levels by using fuzzy c-mean clustering on arousal features. Fuzzy clustering provides a mathematical model to represent vagueness, which is close to human perception. After that, valence related features are used to detect emotion types (Anger, Sad, Fear, Happy and Neutral). Considering video is continuous time series data and the occurrence of a certain emotion is affected by recent emotional history, Hidden Markov Models (HMMs) are used to capture the context information. Experimental results shows the movie segments with high emotion intensity cover over 80% of the movie highlights in Horror and Action movies and the hierarchical method outperforms the one-step method on emotion type detection. Meanwhile, it is flexible for user to pick up their favorite affective content by choosing both emotion intensity levels and emotion types.
The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes (2012)

Wood is a major pool of organic carbon that is highly resistant to decay, owing largely to the presence of lignin. The only organisms capable of substantial lignin decay are white rot fungi in the Agaricomycetes, which also contains non-lignin-degrading brown rot and ectomycorrhizal species. Comparative analyses of 31 fungal genomes (12 generated for this study) suggest that lignin-degrading peroxidases expanded in the lineage leading to the ancestor of the Agaricomycetes, which is reconstructed as a white rot species, and then contracted in parallel lineages leading to brown rot and mycorrhizal species. Molecular clock analyses suggest that the origin of lignin degradation might have coincided with the sharp decrease in the rate of organic carbon burial around the end of the Carboniferous period.
Dendritic cells and the control of immunity: enhancing the efficiency of antigen presentation. (2001)

The control of the immune system by DCs reflects numerous specializations, not a single "magic bullet." These specializations include a number of mechanisms that increase the efficiency of antigen uptake and MHC-peptide complex formation. The harnessing of these and other features of DCs provides opportunities for improving immune-based therapies and vaccine design.
Cardiac responses to electrical stimulation of discrete loci in canine atrial and ventricular ganglionated plexi (1990)

The purpose of the present study was to examine cardiac effects induced by electrical stimulation (1-4 V, 1 ms, 200 Hz) of discrete loci within the ganglionated plexi located on canine atria and ventricles. When 20 loci in the right atrial ventral ganglionated plexi of 11 anesthetized open-chest dogs were stimulated, bradycardia and/or right and left atrial force suppression occurred when, on average, 15% of these loci were stimulated. Bradycardia and atrial force suppression were elicited when, on average, 8% of 15 loci in the left atrial ventral ganglionated plexi of eight dogs was stimulated. When these loci were restimulated after acute decentralization, cardiac responses were attenuated or occasionally eliminated. After atropine (1 mg/kg iv) administration, repeat stimulation of loci in the right but not left atrial ganglionated plexus induced tachycardia. Stimulation of loci in the right ventricular ganglionated plexus after the subsequent administration of desipramine (1 mg/kg iv) in six dogs resulted in an increase in right ventricular conus intramyocardial pressure. After hexamethonium administration (10 mg/kg iv, followed by a continuous infusion of 1 mg.kg-1.min-1), sympathetic responses were no longer elicited from one of the five dogs in which loci in the right atrial ganglionated plexi and from two of the six dogs in which loci of the right ventricular ganglionated plexus had elicited responses. We conclude that atrial and ventricular ganglionated plexi contain efferent parasympathetic, efferent sympathetic, and afferent neurons.
Persistence of naive CD45RA+ regulatory T cells in adult life (2005)

Regulatory T cells (TREGs) constitutively expressing CD4, CD25, and the transcription factor Foxp3 can prevent a wide range of experimental and spontaneous autoimmune diseases in mice. In humans, CD4+CD25bright T cells, predominantly within the CD45RO+ activated/memory subset in adults and the CD45RA+ naive T-cell subset in infants, are considered to be the equivalent subset. Using novel combinations of monoclonal antibodies (mAbs), we examined expression of CD25 in human infant thymus, cord blood, adult peripheral blood, lymph node, and spleen. In addition to the CD4+CD25bright T cells, subfractionation on the basis of CD45 splice variants indicated that all samples contained a second distinct population of cells expressing a slightly lower level of CD25. In adult peripheral blood, this population expressed a naive CD45RA+ phenotype. The corresponding population in lymph node, spleen, and cord blood showed some evidence of activation, and expressed markers characteristic of TREGs, such as cytotoxic T lymphocyte-associated antigen 4 (CTLA-4). Sorted CD4+CD25+CD45RA+ T cells from both cord and adult blood expressed very high levels of mRNA for Foxp3 and manifested equivalent suppressive activity in vitro, indicating that they are bone fide members of the regulatory T-cell lineage. Targeting naive TREGs in adults may offer new means of preventing and treating autoimmune disease.
Integrative Genomic Analysis Implicates Gain of PIK3CA at 3q26 and MYC at 8q24 in Chronic Lymphocytic Leukemia (2012)

Our findings implicate amplifications of 3q26 focused on PIK3CA and 8q24 focused on MYC in CLL.
Synthesis of ethisolide, isoavenaciolide, and avenaciolide (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis of ethisolide, isoavenaciolide, and avenaciolideSteven D. Burke, Gregory J. Pacofsky, and Anthony D. PiscopioCite this: J. Org. Chem. 1992, 57, 8, 2228–2235Publication Date (Print):April 1, 1992Publication History Published online1 May 2002Published inissue 1 April 1992https://pubs.acs.org/doi/10.1021/jo00034a009https://doi.org/10.1021/jo00034a009research-articleACS PublicationsRequest reuse permissionsArticle Views680Altmetric-Citations37LEARN 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
Using pathchar to estimate Internet link characteristics (1999)

We evaluate pathchar , a tool that infers the characteristics of links along an Internet path (latency, bandwidth, queue delays). Looking at two example paths, we identify circumstances where pathchar is likely to succeed, and develop techniques to improve the accuracy of pathchar 's estimates and reduce the time it takes to generate them. The most successful of these techniques is a form of adaptive data collection that reduces the number of measurements pathchar needs by more than 90% for some links.
Suppressed smooth muscle proliferation and inflammatory cell invasion after arterial injury in elafin-overexpressing mice (2000)

Elastases degrade the extracellular matrix, releasing growth factors and chemotactic peptides, inducing glycoproteins such as tenascin, and thereby promoting vascular cell proliferation and migration. Administration of serine elastase inhibitors reduces experimentally induced vascular disease. The ability to mount an intrinsic anti-elastase response may, therefore, protect against intimal/medial thickening after vascular injury. To investigate this, we showed that wire-induced endothelial denudation of the carotid artery is associated with transient elevation in elastase activity and confirmed that this is abolished in transgenic mice overexpressing the serine elastase inhibitor, elafin, targeted to the cardiovascular system. Ten days after injury, nontransgenic littermates show vessel enlargement, intimal thickening, increased medial area and cellularity, and 2-fold increase in tenascin. Injured vessels in transgenic mice become enlarged but are otherwise similar to sham-operated controls. Injury-induced vessel wall thickening, which is observed only in nontransgenic mice, is related to foci of neutrophils and macrophages, in addition to smooth muscle cells that fail to stain for alpha-actin and are likely dedifferentiated. Our study therefore suggests that a major determinant of the vascular response to injury is the early transient induction of serine elastase activity, which leads to cellular proliferation and inflammatory cell migration.
Issues of Page Representation and Organisation in Web Browser's Revisitation Tools (2000)

Many commercial and research WWW browsers include a variety of graphical revisitation tools that let users return to previously seen pages. Examples include history lists, bookmarks and site maps. In this paper, we examine two fundamental design and usability issues that all graphical tools for revisitation must address. First, how can individual pages be represented to best support page identification? We discuss the problems and prospects of various page representations: the pages themselves, image thumbnails, text labels, and abstract page properties. Second, what display organisation schemes can be used to enhance the visualisation of large sets of previously visited pages? We compare temporal organisations, hub-and spoke dynamic trees, spatial layouts and site maps.
Association of La and Ro antigens with intracellular structures in HEp-2 carcinoma cells. (1986)

Monoclonal antibodies were raised against homogeneous Ro and La antigens, two proteins associated with Ro and La ribonucleoproteins (RNPs). The specificity of the monoclonal antibodies was proven by immunoblot analysis and by immunoprecipitation. The anti-Ro antibody reacted with a Mr 95,000 protein in a mouse lymphoma cell extract and with a Mr 60,000 polypeptide in extracts from human spleen. The anti-La antibody recognized a Mr 50,000 polypeptide in the mouse L5178y cell extract. The two monoclonal antibodies precipitated RNPs that contained the typical RNA species of Ro or La RNPs. The localization of Ro and La antigen was performed by direct immunofluorescence microscopy. It was found that the anti-Ro antibody reacted with a fibrous network that behaves like cytokeratin, one of the intermediate filament systems. The anti-La antibody reacted with nuclear structures that gave a speckled-type pattern.
The role of omega-3 fatty acids in the secondary prevention of cardiovascular disease (2003)

It has long been recognized from epidemiological studies that Greenland Eskimos have substantially reduced rates of acute myocardial infarction (MI) compared with Western controls. From these epidemiological observations, the benefits of fatty fish consumption have been explored in cell culture and animal studies, as well as randomized controlled trials investigating the cardioprotective effects of omega-3 fatty acids. Dietary omega-3 fatty acids seem to stabilize the myocardium electrically, resulting in reduced susceptibility to ventricular arrhythmias, thereby reducing the risk of sudden death. These fatty acids also have potent anti-inflammatory effects, and may also be antithrombotic and anti-atherogenic. Furthermore, the recent GISSI-Prevention study of 11 324 patients showed a marked decrease in risk of sudden cardiac death as well as a reduction in all-cause mortality in the group taking a highly purified form of omega-3 fatty acids, despite the use of other secondary prevention drugs, including beta-blockers and lipid-lowering therapy. The use of omega-3 fatty acids should be considered as part of a comprehensive secondary prevention strategy post-myocardial infarction.
Enhancement of LPS Triggered TNF-.ALPHA. (Tumor Necrosis Factor-.ALPHA.) Production by (1.RAR.3)-.BETA.-D-Glucans in Mice. (1995)

Effects of (1-->3)-beta-D-glucans on tumor necrosis factor-alpha (TNF-alpha) production in mice in vivo were investigated with or without triggering stimulation of lipopolysaccharide (LPS). Administration of grifolan (GRN) (100-250 micrograms/mouse) obtained from Grifola frondosa, did not elevate the TNF-alpha concentration in serum, but significantly elevated LPS (10 micrograms/mouse)-elicited TNF-alpha production in serum. The priming effect was observed as early as 2 h after administration and remained high for 3 weeks. The priming effect was dependent on the strain of mice, i.e. ICR, BALB/c, and MRL/lpr (15 weeks old) showed high response. In addition, GRN administration increased membrane-bound TNF-alpha assessed by Western blotting and flow cytometry. Comparing the activity using structurally related glucans obtained from other microorganisms, highly branched glucans, SSG isolated from Sclerotinia sclerotiorum IFO 9395 and OL-2 from Omphalia lapidescence significantly increased TNF-alpha production. Small molecular weight GRN derivatives prepared by heat degradation method showed weaker priming effect. These facts suggested that the glucans showed priming effect of TNF-alpha production in vivo and that this effect was related to the degree of branching and molecular weight.
Acid‐Doped Polybenzimidazoles: A New Polymer Electrolyte (1995)

Polybenzimidazole films doped with phosphoric acid are being investigated as potential polymer electrolytes for use in hydrogen/air and direct methanol fuel cells. In this paper, we present experimental findings on the proton conductivity, water content, and methanol vapor permeability of this material, as well as preliminary fuel cell results. The low methanol vapor permeability of these electrolytes significantly reduces the adverse effects of methanol crossover typically observed in direct methanol polymer electrolyte membrane fuel cells.