gebhart/patrepeval huggingface dataset:
Synthetic Antisense Oligodeoxynucleotides to Transiently Suppress Different Nucleus- and Chloroplast-Encoded Proteins of Higher Plant Chloroplasts  (2011)

Selective inhibition of gene expression by antisense oligodeoxynucleotides (ODNs) is widely applied in gene function analyses; however, experiments with ODNs in plants are scarce. In this work, we extend the use of ODNs in different plant species, optimizing the uptake, stability, and efficiency of ODNs with a combination of molecular biological and biophysical techniques to transiently inhibit the gene expression of different chloroplast proteins. We targeted the nucleus-encoded phytoene desaturase (pds) gene, encoding a key enzyme in carotenoid biosynthesis, the chlorophyll a/b-binding (cab) protein genes, and the chloroplast-encoded psbA gene, encoding the D1 protein. For pds and psbA, the in vivo stability of ODNs was increased by phosphorothioate modifications. After infiltration of ODNs into juvenile tobacco (Nicotiana benthamiana) leaves, we detected a 25% to 35% reduction in mRNA level and an approximately 5% decrease in both carotenoid content and the variable fluorescence of photosystem II. In detached etiolated wheat (Triticum aestivum) leaves, after 8 h of greening, the mRNA level, carotenoid content, and variable fluorescence were inhibited up to 75%, 25%, and 20%, respectively. Regarding cab, ODN treatments of etiolated wheat leaves resulted in an up to 59% decrease in the amount of chlorophyll b, a 41% decrease of the maximum chlorophyll fluorescence intensity, the cab mRNA level was reduced to 66%, and the protein level was suppressed up to 85% compared with the control. The psbA mRNA and protein levels in Arabidopsis (Arabidopsis thaliana) leaves were inhibited by up to 85% and 72%, respectively. To exploit the potential of ODNs for photosynthetic genes, we propose molecular design combined with fast, noninvasive techniques to test their functional effects.
The Association of Alternate VEGF Ligands with Resistance to Anti-VEGF Therapy in Metastatic Colorectal Cancer (2013)

Increases in PlGF and VEGF-D were observed after progression on chemotherapy with bevacizumab. These changes appear to be reversible after discontinuing therapy. These ligands are associated with resistance to bevacizumab-containing chemotherapy in mCRC, but causation remains to be established.
Cloning and Expression of the Alveolar Type II Cell P2u-Purinergic Receptor (1995)

Adenosine triphosphate (ATP) regulates surfactant phospholipid secretion from alveolar type II cells by interacting with P2-purinoceptors on the alveolar type II cell surface. To further characterize regulation of surfactant secretion, we have cloned the type II cell P2u-purinoceptor and expressed a functional receptor in an unrelated cell line. The coding sequence of the P2u clone isolated from a type II cell cDNA library was 1.1 kb, encoding a putative protein of 374 amino acids. The putative protein demonstrated > 97% homology with the P2u-purinoceptor previously identified in the hybrid neuroblastoma x glioma cell line, NG 108-15, 87% homology to the recently cloned human P2u-purinoceptor, and 34% homology to the P2u-purinoceptor cloned from chicken brain. The putative type II cell P2u protein contains seven membrane-spanning domains, characteristic of G-protein-coupled receptors. The type II cell P2u-purinoceptor nucleotide sequence also demonstrated > 95% homology to the nucleotide sequence of the NG 108-15 clone. However, the type II cell cDNA also demonstrated presence of an additional 208 bp insert in the 5' untranslated region, which was not present in the NG 108-15 clone. Using reverse transcriptase polymerase chain reaction, we examined expression of the two different sizes of mRNA in various rat tissues. Only the larger type II cell mRNA was expressed in rat heart, kidney, lung, spleen, and testis, with no expression of P2u-purinoceptor mRNA noted in brain or liver. The smaller species of mRNA was only detected in mouse N18-TG2 cells, and these cells expressed a larger species as well, found in the rat tissues noted.(ABSTRACT TRUNCATED AT 250 WORDS)
Geometric modeling of pelvic organs with a discrete offset approach (2012)

In order to design a patient-specific simulator of pelvic organs, MoDyPe project considers the organs as thick\nsurfaces. Starting from a closed parametric surface for the outer hull, an offset approach is applied. However,\nrespecting the thickness on the surface and ensuring the absence of self-intersection is impossible if the shape has\ntoo important local curvatures. Two iterative approaches are compared. The first method is based on a B-spline\nformulation, and the second one on a mass-spring system (MSS). Our second method on discrete representation\npermits to obtain more accurate results with a more flexible formulation of the problem.
Discharge characteristics of the spherical inertial electrostatic confinement (IEC) device (2002)

The inertial electrostatic confinement (IEC) device provides 10/sup 7/ 2.5-MeV D-D neutrons/second, when operated with a deuterium discharge at 70 kV. This potentially provides an important portable neutron source for various activation analysis applications. The discharge involved is unique, in that it uses a spherical grid in a spherical vacuum vessel. The discharge is struck between the grid and the vessel wall and the -70-kV grid also serves to extract high-energy ions. Two features of the discharge are discussed: 1) the breakdown voltage characteristics as a function of pressure-grid/wall distance (pd); and 2) the formation of ion "microchannels" that carry the main ion flow through grid openings.
Ion specificity of cardiac sarcolemmal Na+/H+ antiporter. (1990)

In bovine cardiac sarcolemmal vesicles, an outward H+ gradient stimulated the initial rate of amiloride-sensitive uptake of 22Na+, 42K+, or 86Rb+. Release of H+ from the vesicles was stimulated by extravesicular Na+, K+, Rb+, or Li+ but not by choline or N-methylglucamine. Uptakes of Na+ and Rb+ were half-saturated at 3 mM Na+ and 3 mM Rb+, but the maximal velocity of Na+ uptake was 1.5 times that of Rb+ uptake. Na+ uptake was inhibited by extravesicular K+, Rb+, or Li+, and Rb+ uptake was inhibited by extravesicular Na+ or Li+. Amiloride-sensitive uptake of Na+ or Rb+ increased with increase in extravesicular pH and decrease in intravesicular pH. In the absence of pH gradient, there were stimulations of Na+ uptake by intravesicular Na+ and K+ and of Rb+ uptake by intravesicular Rb+ and Na+. Similarly, there were trans stimulations of Na+ and Rb+ efflux by extravesicular alkali cations. The data suggest the existence of a nonselective antiporter catalyzing either alkali cation/H+ exchange or alkali cation/alkali cation exchange. Since increasing Na+ caused complete inhibition of Rb+/H+ exchange, but saturating K+ caused partial inhibitions of Na+/H+ exchange and Na+/Na+ exchange, the presence of a Na(+)-selective antiporter is also indicated. Although both antiporters may be involved in pH homeostasis, a role of the nonselective antiporter may be in the control of Na+/K+ exchange across the cardiac sarcolemma.
Harmonic analysis of a parallel-loaded resonant converter (1991)

A method for calculating the harmonic components of the currents and voltages in a parallel-loaded resonant converter using frequency-domain techniques is presented. The converter is divided into an inverter section and a rectifier section. A harmonic model is developed for the resonant converter in which the rectifier section is treated as a voltage-dependent current sink. All voltages and currents in this model are represented by a Fourier series. The unknown coefficients in all Fourier series are calculated by using the harmonic model and Kirchhoff's laws. Because of the nonlinear nature of the rectifier section, an iterative technique must be utilized to find the unknown Fourier coefficients.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Noncovalent Interactions in the Asymmetric Synthesis of Rigid, Conjugated Helical Structures (2009)

From helical folding to helical locking: Tetrakis(β-trithiophene) 1 folds into a helical conformation (RRR) that facilitates double ring annelation, with high diastereoselectivity and modest enantioselectivity, to provide bis[7]helicene 2 (MRM). This rigid, helically locked structure has enhanced chiroptical properties similar to the corresponding [15]helicene. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Conjugate Addition of Organosiloxanes to α,β-Unsaturated Carbonyl Compounds Catalyzed by a Cationic Rhodium Complex (2002)

[reaction: see text] A novel, additive-free, and clean conjugate addition reaction of organosiloxanes to alpha,beta-unsaturated carbonyl compounds catalyzed by a cationic rhodium complex in water-containing solvent has been developed. A plausible reaction mechanism involving the additive-free transmetalation step between the rhodium complex and the silicon reagent is proposed.
The End of Pax Americana. (cover story) (2015)

The article discusses the U.S.'s relations with the Middle East, with a particular focus on the U.S.'s alleged lack of involvement and assertion of military power in the region. The authors contend that the U.S. is not deviating from its historic policy towards the Middle East from 1948 through the early 21st century, including in regard to its lack of interventionist policy under U.S. President Barack Obama. An overview of U.S. alliances in the Middle East, including with Israel and Saudi Arabia, is provided. The 2015 Nuclear deal with Iran is discussed. An overview of the foreign participation in the Syrian Civil War, including Russian support of the Syrian President Bashar al-Assad, is also discussed, is also provided
Optimum thermal design of office buildings (1997)

Proper design and selection of building components at the early stages of the design process can greatly help in achieving thermal comfort with minimum reliance upon HVAC systems and, therefore, minimum energy requirements. Given today's complexities in building design as well as advances in computer technology, optimization techniques can be used as an aid to building designers in their decision making process. Office buildings are characterized by being ‘internal-load’ dominated with internal heat generation determining the need for energy to air-condition such buildings. This paper presents the results of applying an optimization model to the design of energy conserving office buildings in different climatic regions to test the impact of mainly envelope related parameters on the thermal performance of offices. Optimum sets of building design variables for three different sizes office building in four U.S. and two Saudi Arabian cities are presented with the objective of minimizing annual energy consumption for those buildings. © 1997 John Wiley & Sons, Ltd.
Apparatus for positioning and loading a test specimen Patent (1967)

Apparatus for testing metallic and nonmetallic beams or rods by bending at high temperatures in vacuum or inert atmosphere
Use or disposal of by‐products and spent material from the vegetable oil processing industry in the U.S. (1976)

Abstract During processing of vegetable oils, certain by‐products and waste materials are generated. Where and how the by‐products are recovered and used and how the solid wastes are handled and disposed of are considered. Several suggestions for the future are explored.
Application of the xenon-adsorption method for the study of metal cluster formation and growth on Y zeolite (1992)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTApplication of the xenon-adsorption method for the study of metal cluster formation and growth on Y zeoliteRyong Ryoo, Sung June Cho, Chanho Pak, Jeong Guk Kim, Son Ki Ihm, and Jeong Yong LeeCite this: J. Am. Chem. Soc. 1992, 114, 1, 76–82Publication Date (Print):January 1, 1992Publication History Published online1 May 2002Published inissue 1 January 1992https://pubs.acs.org/doi/10.1021/ja00027a011https://doi.org/10.1021/ja00027a011research-articleACS PublicationsRequest reuse permissionsArticle Views523Altmetric-Citations69LEARN 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
Adenosine as a vasodilator in primary pulmonary hypertension. (1991)

Because of its pharmacokinetic and vasodilator properties, adenosine may have a specific role in the investigation of primary pulmonary hypertension.
Identifying nude pictures (2002)

This paper demonstrates an automatic system for telling whether there are naked people present in an image. The approach combines color and texture properties to obtain a mask for skin regions, which is shown to be effective for a wide range of shades and colors of skin. These skin regions are then fed to a specialized grouper, which attempts to group a human figure using geometric constraints on human structure. This approach introduces a new view of object recognition, where an object model is an organized collection of grouping hints obtained from a combination of constraints on color and texture and constraints on geometric properties such as the structure of individual parts and the relationships between parts. The system demonstrates excellent performance on a test set of 565 uncontrolled images of naked people, mostly obtained from the internet, and 4289 assorted control images, drawn from a wide collection of sources.
New materials and scaffold fabrication method for nerve tissue engineering (2009)

Acetylcholine is a neurotransmitter that regulates neurite branching, induces neurite outgrowth, and synapse formation. Because of its various roles in neuronal activities, acetylcholine-based materials may also be useful in nerve repair. We present a series of biodegradable polymers with varying concentrations of acetylcholine-like motifs. We hypothesize that neurite sprouting and extension can be enhanced by using materials to present biochemical and physical cues.\n\nAcetylcholine-like motifs were incorporated by the polycondensation of diglycidyl sebacate, aminoethyl acetate, and leucine ethyl ester, which permitted control over acetylcholine motif concentration. Interactions between the polymers and neurons were characterized using rat dorsal root ganglia explants (DRG). We screened the potential application of these materials in nerve tissue engineering using the following criteria: 1) neurite sprouting, 2) neurite length, and 3) distribution of the neurite lengths. The ability of DRG to sprout neurites was influenced by the concentration of acetylcholine motifs of the polymer. Addition of acetylcholine receptor antagonists to DRG cultured on the polymers significantly decreased neurite sprouting, suggesting acetylcholine receptors mediate sprouting on the polymers. Future studies may examine how neurons on acetylcholine-based polymers exhibit changes in downstream signaling events and cell excitability that are associated with receptor activation. \n\nIn preparation for testing the acetylcholine-based polymers in vivo, porous scaffolds with longitudinally oriented channels were fabricated using fiber templating and salt leaching. Micro computed tomography, scanning electron microscopy, and cryo-sectioning revealed the presence of longitudinally oriented channels. Channel volume and average pore size of the scaffolds were controlled by the number of fibers and salt fusion time. Future studies may involve testing the effect of acetylcholine-motifs by coating polymers onto such scaffolds or assessing the effect of the scaffold's dimensional properties on nerve regeneration.
Specific breast cancer prognosis‐subtype distinctions based on<scp>DNA</scp>methylation patterns (2018)

Tumour heterogeneity is an obstacle to effective breast cancer diagnosis and therapy. DNA methylation is an important regulator of gene expression, thus characterizing tumour heterogeneity by epigenetic features can be clinically informative. In this study, we explored specific prognosis-subtypes based on DNA methylation status using 669 breast cancers from the TCGA database. Nine subgroups were distinguished by consensus clustering using 3869 CpGs that significantly influenced survival. The specific DNA methylation patterns were reflected by different races, ages, tumour stages, receptor status, histological types, metastasis status and prognosis. Compared with the PAM50 subtypes, which use gene expression clustering, DNA methylation subtypes were more elaborate and classified the Basal-like subtype into two different prognosis-subgroups. Additionally, 1252 CpGs (corresponding to 888 genes) were identified as specific hyper/hypomethylation sites for each specific subgroup. Finally, a prognosis model based on Bayesian network classification was constructed and used to classify the test set into DNA methylation subgroups, which corresponded to the classification results of the train set. These specific classifications by DNA methylation can explain the heterogeneity of previous molecular subgroups in breast cancer and will help in the development of personalized treatments for the new specific subtypes.
Weighted CUSUM Control Charts for Monitoring Poisson Processes with Varying Sample Sizes (2011)

Monitoring inhomogeneous Poisson processes with varying sample sizes has attracted considerable attention recently in both industrial quality control and public-health surveillance. One of the key challenges in these applications is that a change in incidence rate may be masked by changes of sample sizes. The conventional Poisson cumulative sum (CUSUM) chart designed for detecting a prespecified change in the incidence rate could perform poorly when the actual change is different from the prespecified one. This phenomenon is especially prominent when the sample size is nonconstant and varies over time. To efficiently detect changes in the incidence rate with varying sample sizes, this paper proposes a class of weighted CUSUM (WCUSUM) schemes with general weight functions applied to the likelihood-ratio statistic. The comparison results with the traditional Poisson CUSUM method and other alternatives favor the proposed method. An example in health-care surveillance is used to illustrate the application of the proposed method.
A ceramic prosthesis for the treatment of tumours of the distal radius (2006)

Despite extensive experience with prosthetic replacement for the reconstruction of limbs following juxta-articular resection of tumours, there are few reports of prosthetic replacement of the distal radius. We present two cases of massive bone defects of the distal radius in which alumina ceramic prosthetic replacements were used. We evaluated the patients more than ten years after the procedure. Both patients had degenerative changes to the wrist. This, however, was not associated with pain or decreased function, and both had returned to their previous occupation after surgery. When a patient has a massive defect of the distal radius, reconstruction using a ceramic prosthesis is a reasonable alternative to using autograft. This method of treatment results in little pain, a moderate range of movement and satisfactory function.
Genetic Diversity of Simian Immunodeficiency Virus (1989)

We have demonstrated that the genetic diversity of simian immunodeficiency virus from African green monkeys (SIVagm) is much greater than that observed previously for individual HIV-1, HIV-2, or SIVmac isolates. Extensive genetic variation among SIVagm isolates and the high prevalence of green monkey infection without disease suggest that the virus has been in the green monkey population for a long time. We have also demonstrated that SIV from a sooty mangabey monkey (isolate SMM-7) is closer to SIVmac and HIV-2 than to HIV-1 and SIVagm. The extensive genetic diversity of SIVagm and the relatedness of SIVsmm to HIV-2 warrant continued examination of SIVagm and SIVsmm isolates from dispersed geographic regions. SIV strains much more closely related to HIV-1, HIV-2, or SIVmac may be found which would be reasonable candidates for recent cross-species transmission.
Specific biomarkers of receptors, pathways of inhibition and targeted therapies: pre-clinical developments (2011)

A deeper understanding of the role of specific genes, proteins, pathways and networks in health and disease, coupled with the development of technologies to assay these molecules and pathways in patients, promises to revolutionise the practice of clinical medicine. Especially the discovery and development of novel drugs targeted to disease-specific alterations could benefit significantly from non-invasive imaging techniques assessing the dynamics of specific disease-related parameters. Here we review the application of imaging biomarkers in the management of patients with brain tumours, especially malignant glioma. In our other review we focused on imaging biomarkers of general biochemical and physiological processes related with tumour growth such as energy, protein, DNA and membrane metabolism, vascular function, hypoxia and cell death. In this part of the review, we will discuss the use of imaging biomarkers of specific disease-related molecular genetic alterations such as apoptosis, angiogenesis, cell membrane receptors and signalling pathways and their application in targeted therapies.
Best practices in diagnostic immunohistochemistry: hepatocellular carcinoma versus metastatic neoplasms. (2007)

Hep Par 1 and polyclonal carcinoembryonic antigen are the most reliable markers for hepatocellular differentiation, but they have low sensitivity for poorly differentiated cases. Immunohistochemistry for glypican-3 shows promise for the diagnosis of poorly differentiated hepatocellular carcinoma and for its distinction from benign processes such as hepatic adenoma. Further studies with a large number of cases are required before it can be widely used. The combination of Hep Par 1 and MOC-31 will allow for the diagnosis of hepatocellular carcinoma in most cases and will guide the selection of immunohistochemical markers for further workup.