gebhart/patrepeval huggingface dataset:
Protein Geranylgeranylation Is Required for Osteoclast Formation, Function, and Survival: Inhibition by Bisphosphonates and GGTI-298 (2000)

Bisphosphonates are the important class of antiresorptive drugs used in the treatment of metabolic bone diseases. Although their molecular mechanism of action has not been fully elucidated, recent studies have shown that the nitrogen-containing bisphosphonates can inhibit protein prenylation in macrophages in vitro. In this study, we show that the nitrogen-containing bisphosphonates risedronate, zoledronate, ibandronate, alendronate, and pamidronate (but not the non nitrogen-containing bisphosphonates clodronate, etidronate, and tiludronate) prevent the incorporation of [14C]mevalonate into prenylated (farnesylated and geranylgeranylated) proteins in purified rabbit osteoclasts. The inhibitory effect of nitrogen-containing bisphosphonates on bone resorption is likely to result largely from the loss of geranylgeranylated proteins rather than loss of farnesylated proteins in osteoclasts, because concentrations of GGTI-298 (a specific inhibitor of geranylgeranyl transferase I) that inhibited protein geranylgeranylation in purified rabbit osteoclasts prevented osteoclast formation in murine bone marrow cultures, disrupted the osteoclast cytoskeleton, inhibited bone resorption, and induced apoptosis in isolated chick and rabbit osteoclasts in vitro. By contrast, concentrations of FTI-277 (a specific inhibitor of farnesyl transferase) that prevented protein farnesylation in purified rabbit osteoclasts had little effect on osteoclast morphology or apoptosis and did not inhibit bone resorption. These results therefore show the molecular mechanism of action of nitrogen-containing bisphosphonate drugs in osteoclasts and highlight the fundamental importance of geranylgeranylated proteins in osteoclast formation and function.
Reduced complexity fractionally spaced MIMO equalizers for multitone systems without guard time (2002)

When OFDM or multitone modulation is used, the dispersiveness of the channel is usually circumvented by means of the guard time technique. As an alternative it is possible not to use a guard time but design receivers able to equalize the intersymbol interference (ISI) and inter-carrier interference (ICI). We show how to design fractionally spaced linear or decision-feedback MIMO equalizers for multitone systems without the guard time. Full complexity and reduced complexity solutions are investigated. The design is made for an MMSE criterion and the steady-state performance is analyzed. It is shown that MIMO equalization outperforms the guard time technique, that fractionally spaced devices are very effective and the complexity reduction produces a performance degradation which is negligible compared to full complexity fractionally spaced devices, especially when the processing rate is larger than the symbol rate.
Measurements of the Refractive Index Increment on Hydroxyethyl Starch as a Basis for Absolute Molecular Weight Determinations (1991)

Abstract Solutions of hydroxyethyl starch are used as a blood plasma substitute. If their physiological efficiency is to be optimized, they need to be accurately characterized in terms of their molecular weight and its distribution. The absolute determination of molecular weight and molecular weight distribution by means of light scattering require a knowledge of the refractive index increment. Although numerous investigations of the refractive index increment of hydroxyethyl starch have already been published, the results vary significantly due to the use of different samples and the choice of different measuring parameters. There was therefore an urgent need to examine the extent to which the refractive index increment depends on molecular parameters, the experimental method used and the type of processing. Here it was found that different sample preparations result in different contents of solid matter, so that an exact determination of the quantity is required. Hydroxyethyl starches in the molecular weight range of about Mw = 200.000 g/mol and varying degrees of substitution between DS 0.38 and 0.50 which are regarded as optimal for clinical use give a refractive index increment of dn/dc 633nm = 0.146 = 0.005 cm 3 /g (solvent: H 2 O/0.02% NaN 3 ; T = 25°C).
Catalytic Growth of Zinc Oxide Nanowires by Vapor Transport (2001)

Patterned nanowire networks of photoluminescent highly crystalline ZnO nanowires (see Figure) have been produced via the vapor–liquid–solid mechanism using gold as catalyst. The diameters of the nanowires can be controlled by varying the thickness of the gold layer. The size of the wires has an influence on their emission characteristics (see also cover).
Generation of octave-spanning supercontinuum with 1550-nm amplified diode-laser pulses and a dispersion-shifted fiber (2006)

We present a compact supercontinuum source using a dispersion-shifted fiber and an amplified diode-laser pulse source. Gain-switched DFB laser operating at 1550-nm wavelength, which provides 30-ps pulses, was used for generating the seeding pulses. And serially cascaded low-cost EDFAs were employed to boost the peak power of the pulses to more than 1 kW. Single-mode supercontinuum spanning nearly the full near-IR band was obtained by passing the amplified high-power pulses through a dispersion-shifted fiber. By investigating various characteristics of the supercontinuum generation, the walk-off between the spectral components was found to limit the effective interaction length of the spectrum-broadening effects. An optimal length of the fiber to obtain a flat spectrum was determined, which minimizes undesirable excessive Raman effect.
Caudal genes in blood development and leukemia (2012)

Members of the caudal gene family (in mice and humans: Cdx1, Cdx2, and Cdx4) have been studied during early development as regulators of axial elongation and anteroposterior patterning. In the adult, Cdx1 and Cdx2, but not Cdx4, have been intensively explored for their function in intestinal tissue homeostasis and the pathogenesis of gastrointestinal cancers. Involvement in embryonic hematopoiesis was first demonstrated in zebrafish, where cdx genes render posterior lateral plate mesoderm competent to respond to genes specifying hematopoietic fate, and compound mutations in cdx genes thus result in a bloodless phenotype. Parallel studies performed in zebrafish embryos and murine embryonic stem cells (ESCs) delineate conserved pathways between fish and mammals, corroborating a BMP/Wnt-Cdx-Hox axis during blood development that can be employed to augment derivation of blood progenitors from pluripotent stem cells in vitro. The molecular regulation of Cdx genes appears complex, as more recent data suggest involvement of non-Hox-related mechanisms and the existence of auto- and cross-regulatory loops governed by morphogens. Here, we will review the role of Cdx genes during hematopoietic development by comparing effects in zebrafish and mice and discuss their participation in malignant blood diseases.
High performance imaging using large camera arrays (2005)

The advent of inexpensive digital image sensors and the ability to create photographs that combine information from a number of sensed images are changing the way we think about photography. In this paper, we describe a unique array of 100 custom video cameras that we have built, and we summarize our experiences using this array in a range of imaging applications. Our goal was to explore the capabilities of a system that would be inexpensive to produce in the future. With this in mind, we used simple cameras, lenses, and mountings, and we assumed that processing large numbers of images would eventually be easy and cheap. The applications we have explored include approximating a conventional single center of projection video camera with high performance along one or more axes, such as resolution, dynamic range, frame rate, and/or large aperture, and using multiple cameras to approximate a video camera with a large synthetic aperture. This permits us to capture a video light field, to which we can apply spatiotemporal view interpolation algorithms in order to digitally simulate time dilation and camera motion. It also permits us to create video sequences using custom non-uniform synthetic apertures.
Human jaw muscle strength and size in relation to limb muscle strength and size (2004)

The aim of the present study was to investigate to what extent general factors (e.g. genotype, hormones) and factors at the craniofacial level (e.g. craniofacial size, jaw muscle architecture) contribute to the size and strength of the jaw muscles. A strong relationship of jaw muscle size and strength with that of other muscles would argue for general influences, whereas a weak relationship would argue for craniofacial influences. In 121 adult individuals, moments of maximal bite force, arm flexion force and leg extension force were measured. In addition, thicknesses of jaw muscles, arm flexor muscles and leg extensor muscles were measured using ultrasound. Relationships were assessed by using a principal component analysis. In females, one component was found in which all force moments were represented. Bite force moment, however, loaded very low. In males, two components were found. One component loaded for arm flexion and leg extension moments, the other loaded for bite force moments. In both females and males, only one component was found for the muscle thicknesses in which all muscle groups loaded similarly. It was concluded that the size of the jaw muscles was significantly related to the size of the limb muscles, suggesting that they were both subject to the same general influences. Maximal voluntary bite force moments were not significantly related to the moments of the arm flexion and leg extension forces, suggesting that besides the general influence on the muscle size, variation in bite force moment was also influenced by local variables, such as craniofacial morphology.
Trends in miniaturized total analysis systems for point-of-care testing in clinical chemistry (2001)

A currently emerging approach enables more widespread monitoring of health parameters in disease prevention and biomarker monitoring. Miniaturisation provides the means for the production of small, fast and easy-to-operate devices for reduced-cost healthcare testing at the point-of-care (POC) or even for household use. A critical overview is given on the present state and requirements of POC testing, on microTAS elements suited for implementation in future microTAS devices for POC testing and microTAS systems for the determination of clinical parameters.
Cell-penetrating peptide–morpholino conjugates alter pre-mRNA splicing of DMD (Duchenne muscular dystrophy) and inhibit murine coronavirus replication in vivo (2007)

The cellular uptake of PMOs (phosphorodiamidate morpholino oligomers) can be enhanced by their conjugation to arginine-rich CPPs (cell-penetrating peptides). Here, we discuss our recent findings regarding (R-Ahx-R)(4)AhxB (Ahx is 6-aminohexanoic acid and B is beta-alanine) CPP-PMO conjugates in DMD (Duchenne muscular dystrophy) and murine coronavirus research. An (R-Ahx-R)(4)AhxB-PMO conjugate was the most effective compound in inducing the correction of mutant dystrophin transcripts in myoblasts derived from a canine model of DMD. Similarly, normal levels of dystrophin expression were restored in the diaphragms of mdx mice, with treatment starting at the neonatal stage, and protein was still detecTable 22 weeks after the last dose of an (R-Ahx-R)(4)AhxB-PMO conjugate. Effects of length, linkage and carbohydrate modification of this CPP on the delivery of a PMO were investigated in a coronavirus mouse model. An (R-Ahx-R)(4)AhxB-PMO conjugate effectively inhibited viral replication, in comparison with other peptides conjugated to the same PMO. Shortening the CPP length, modifying it with a mannosylated serine moiety or replacing it with the R(9)F(2) CPP significantly decreased the efficacy of the resulting PPMO (CPP-PMO conjugate). We attribute the success of this CPP to its stability in serum and its capacity to transport PMO to RNA targets in a manner superior to that of poly-arginine CPPs.
Synthesis and herbicidal activity of novel substituted 2- and 4-pyrimidinyloxyphenoxypropionate derivatives (2010)

Aryloxyphenoxypropionates (APPs) are a class of herbicides targeting acetyl-CoA carboxylase (ACCase) in monocot chloroplast.The article presents the rational design and synthesis of a series of APPs with 2-and 4-pyrimidinyloxy moieties.The developed synthetic protocols are versatile and allow convenient functionalization of the phenoxypropionate core with various 2or 4-pyrimidinyl moieties via the oxygen bridge by taking advantage of the reactivity difference between 2-methylsulfonyl and 4-chloro on the pyrimidine ring.Preliminary bioassay shows that most of title compounds have good herbicidal activities against rape and barnyard grass at 100 mg/L.Several compounds are more potent to inhibit the stalk growth of barnyard grass than the commercial herbicide cyhalofop.
The Vaccinia Virus A9L Gene Encodes a Membrane Protein Required for an Early Step in Virion Morphogenesis (2000)

The A9L open reading frame of vaccinia virus was predicted to encode a membrane-associated protein. A transcriptional analysis of the A9L gene indicated that it was expressed at late times in vaccinia virus-infected cells. Late expression, as well as virion membrane association, was demonstrated by the construction and use of a recombinant vaccinia virus encoding an A9L protein with a C-terminal epitope tag. Immunoelectron microscopy revealed that the A9L protein was associated with both immature and mature virus particles and was oriented in the membrane with its C terminus exposed on the virion surface. To determine whether the A9L protein functions in viral assembly or infectivity, we made a conditional-lethal inducible recombinant vaccinia virus. In the absence of inducer, A9L expression and virus replication were undetectable. Under nonpermissive conditions, viral late protein synthesis occurred, but maturational proteolytic processing was inhibited, and there was an accumulation of membrane-coated electron-dense bodies, crescents, and immature virus particles, many of which appeared abnormal. We concluded that the product of the A9L gene is a viral membrane-associated protein and functions at an early stage in virion morphogenesis.
Tool Use Learning in Robots (2011)

Learning to use an object as a tool requires understanding what goals it helps to achieve, the properties of the tool that make it useful and how the tool must be manipulated to achieve the goal. We present a method that allows a robot to learn about objects in this way and thereby employ them as tools. An initial hypothesis for an action model of tool use is created by observing another agent accomplishing a task using a tool. The robot then refines its hypothesis by active learning, generating new experiments and observing the outcomes. Hypotheses are updated using Inductive Logic Programming. One of the novel aspects of this work is the method used to select experiments so that the search through the hypothesis space is minimised.
Preparation and Reactions of 2-Methoxythiophene (1953)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPreparation and Reactions of 2-MethoxythiopheneJean SicéCite this: J. Am. Chem. Soc. 1953, 75, 15, 3697–3700Publication Date (Print):August 1, 1953Publication History Published online1 May 2002Published inissue 1 August 1953https://pubs.acs.org/doi/10.1021/ja01111a027https://doi.org/10.1021/ja01111a027research-articleACS PublicationsRequest reuse permissionsArticle Views1464Altmetric-Citations89LEARN 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
Toward a near-field optical array (1997)

The fabrication and characterization of three near-field optical array types is presented. In all cases, a coherent fiber-optic bundle was chemically etched to produce an array of nanometer-sized, optical fiber tips. The 270 μm diameter bundle comprised ∼6000 tapered optical fibers and the smallest, etched optical fiber tips had an ∼50 nm radius of curvature. This array could be metal coated, and a metal-coated array could be polished to yield an array of nanometer-sized apertures. These variable nanoarchitectures should be amenable to a large number of near-field scanning optical microscopies.
cis-Diprotected cyclams and cyclens: a new route to symmetrically or asymmetrically 1,4-disubstituted tetraazamacrocycles and to asymmetrically tetrasubstituted derivatives (1999)

The use of cyclam and cyclen oxamides as intermediates for the synthesis of N 1,N 4-disubstituted tetraazamacrocycles is reported. This pathway affords a general strategy for the preparation of symmetrically or asymmetrically disubstituted derivatives in good yields. Also these intermediates proved convenient synthons for the preparation of asymmetrically tetrasubstituted macrocycles, leading to a new class of potentially dinucleating ligands.
Transcription elongation factor P-TEFb is required for HIV-1 Tat transactivation in vitro (1997)

P-TEFb is a key regulator of the process controlling the processivity of RNA polymerase II and possesses a kinase activity that can phosphorylate the carboxy-terminal domain of the largest subunit of RNA polymerase II. Here we report the cloning of the small subunit of Drosophila P-TEFb and the finding that it encodes a Cdc2-related protein kinase. Sequence comparison suggests that a protein with 72% identity, PITALRE, could be the human homolog of the Drosophila protein. Functional homology was suggested by transcriptional analysis of an RNA polymerase II promoter with HeLa nuclear extract depleted of PITALRE. Because the depleted extract lost the ability to produce long DRB-sensitive transcripts and this loss was reversed by the addition of purified Drosophila P-TEFb, we propose that PITALRE is a component of human P-TEFb. In addition, we found that PITALRE associated with the activation domain of HIV-1 Tat, indicating that P-TEFb is a Tat-associated kinase (TAK). An in vitro transcription assay demonstrates that the effect of Tat on transcription elongation requires P-TEFb and suggests that the enhancement of transcriptional processivity by Tat is attributable to enhanced function of P-TEFb on the HIV-1 LTR.
The plenoptic video (2005)

This paper presents a system for capturing and rendering a dynamic image-based representation called the plenoptic video. It is a simplified light field for dynamic environments, where user viewpoints are constrained to the camera plane of a linear array of video cameras. Important issues such as multiple camera calibration, real-time compression, decompression and rendering are addressed. The system consists of a camera array of eight Sony CCX-Z11 CCD cameras and eight Pentium 4 1.8-GHz computers connected together through a 100 Base-T local area network. It is possible to perform software-assisted real-time MPEG-2 compression at a resolution of (720/spl times/480). Using selective transmission, we are able to stream continuously plenoptic video with (256/spl times/256) resolution at a rate of 15 f/s over the network. For rendering from raw data on the hard disk, real-time rendering can be achieved with a resolution of (720/spl times/480) and a rate of 15 f/s. A new compression algorithm using both temporal and spatial predictions is also proposed for the efficient compression of the plenoptic videos. Experimental results demonstrate the usefulness of the proposed parallel processing based system in capturing and rendering high-quality dynamic image-based representations using off-the-shelf equipment, and its potential applications in visualization and immersive television systems.
Mass and molecular composition of vesicular stomatitis virus: a scanning transmission electron microscopy analysis (1985)

Dark-field scanning transmission electron microscopy was used to perform mass analyses of purified vesicular stomatitis virions, pronase-treated virions, and nucleocapsids, leading to a complete self-consistent account of the molecular composition of vesicular stomatitis virus. The masses obtained were 265.6 +/- 13.3 megadaltons (MDa) for the native virion, 197.5 +/- 8.4 MDa for the pronase-treated virion, and 69.4 +/- 4.9 MDa for the nucleocapsid. The reduction in mass effected by pronase treatment, which corresponds to excision of the external domains (spikes) of G protein, leads to an average of 1,205 molecules of G protein per virion. The nucleocapsid mass, after compensation for the RNA (3.7 MDa) and residual amounts of other proteins, yielded a complement of 1,258 copies of N protein. Calibration of the amounts of M, NS, and L proteins relative to N protein by biochemical quantitation yielded values of 1,826, 466, and 50 molecules, respectively, per virion. Assuming that the remaining virion mass is contributed by lipids in the viral envelope, we obtained a value of 56.1 MDa for its lipid content. In addition, four different electron microscopy procedures were applied to determine the nucleocapsid length, which we conclude to be 3.5 to 3.7 micron. The nucleocapsid comprises a strand of repeating units which have a center-to-center spacing of 3.3 nm as measured along the middle of the strand. We show that these repeating units represent monomers of N protein, each of which is associated with 9 +/- 1 bases of single-stranded RNA. From scanning transmission electron microscopy images of negatively stained nucleocapsids, we inferred that N protein has a wedge-shaped, bilobed structure with dimensions of approximately 9.0 nm (length), approximately 5.0 nm (depth), and approximately 3.3 nm (width, at the midpoint of its long axis). In the coiled configuration of the in situ nucleocapsid, the long axis of N protein is directed radially, and its depth corresponds to the pitch of the nucleocapsid helix.