gebhart/patrepeval huggingface dataset:
Polymer Nanocomposites with Prescribed Morphology: Going beyond Nanoparticle-Filled Polymers (2007)

Polymer nanocomposites (PNCs), i.e. nanoparticles (spheres, rods, and plates) dispersed in a polymer matrix, have garnered substantial academic and industrial interest since their inception, ca. 1990. With respect to the neat matrix, nanoparticle dispersion has been shown to enhance physical (e.g., barrier, erosion resistance, and reduced flammability), thermomechanical (e.g., heat distortion temperature, thermal expansion coefficient, and stiffness), and processing (e.g., surface finish and melt strength) characteristics. Beyond maximization of the nanoparticle dispersion, however, the morphology of these materials is many times uncontrolled, yielding isotropic nanofilled systems, not necessarily spatially “engineered, designed and tailored” materials. To impact high-technology applications requiring unique electrical, thermal, and optical properties, manufacturing techniques enabling control of the nanoparticle arrangement and distribution must be developed. This paper will examine the status of approaches for directing the hierarchical morphology of nanoparticle dispersions in three dimensions, and beyond uniaxial alignment, using examples from the literature to highlight the potential and issues. Ultimately, two general approaches to this challenge are emerging, namely, external-in (directed patterning of nanoparticle dispersions) and internal-out (mesophase assembly of nanoparticles).
A behavioral screen for isolating zebrafish mutants with visual system defects. (1995)

Optokinetic and phototactic behaviors of zebrafish larvae were examined for their usefulness in screening for recessive defects in the visual system. The optokinetic response can be reliably and rapidly detected in 5-day larvae, whereas the phototactic response of larvae is variable and not robust enough to be useful for screening. We therefore measured optokinetic responses of mutagenized larvae as a genetic screen for visual system defects. Third-generation larvae, representing 266 mutagenized genomes, were examined for abnormal optokinetic responses. Eighteen optokinetic-defective mutants were identified and two mutants that did not show obvious morphological defects, no optokinetic response a (noa) and partial optokinetic response a (poa), were studied further. We recorded the electroretinogram (ERG) to determine whether these two mutations affect the retina. The b-wave of noa larvae was grossly abnormal, being delayed in onset and significantly reduced in amplitude. In contrast, the ERG waveform of poa larvae was normal, although the b-wave was reduced in amplitude in bright light. Histologically, the retinas of noa and poa larvae appeared normal. We conclude that noa larvae have a functional defect in the outer retina, whereas the outer retina of poa larvae is likely to be normal.
Different central nervous system cell types display distinct and nonrandom arrangements of satellite DNA sequences. (1984)

Paraformaldehyde-fixed tissue from mouse cerebellum was hybridized with biotin-labeled satellite DNA for identification of centromeres. By using avidin-peroxidase conjugates, it was possible to define the nuclear position of centromeres at the ultrastructural level. Three-dimensional analysis of well-resolved centromere arrays were aided by computer reconstruction of serial sections. Different cell types displayed distinct, nonrandom centromere locations. In Purkinje neurons, the majority of detected sequences were clustered together around the central nucleolus, whereas in granule neurons, more numerous, dispersed centromere clusters were associated with the nuclear membrane. In Purkinje cells, peroxidase-labeled regions corresponded to dense heterochromatic aggregates were detected in Purkinje cells of several different species. These observations suggest that in these highly differentiated cells, the nuclear position of centromeres is maintained in evolution despite species differences in centromeric DNA sequence. Such defined ordering of centromeres may be integral to specific functional capacities.
Discrepancy between Self-Reported and Actual Caloric Intake and Exercise in Obese Subjects (1992)

The failure of some obese subjects to lose weight while eating a diet they report as low in calories is due to an energy intake substantially higher than reported and an overestimation of physical activity, not to an abnormality in thermogenesis.
EBP-80, a transcription factor closely resembling the human autoantigen Ku, recognizes single- to double-strand transitions in DNA (1993)

We have previously reported the purification and characterization of the transcription factor EBP-80 (Falzon, M., and Kuff, E. L. (1989) J. Biol. Chem. 264, 21915-21922). EBP-80 mediates the DNA methylation effect on transcription from an endogenous proviral long terminal repeat. Here we show that EBP-80 is very similar if not identical to the Ku autoantigen, a heterodimeric nuclear protein first detected by antibodies from autoimmune patients (Mimori, T., Akizuki, M., Yamagata, H., Inada, S., Yoshida, S., and Homma, M. (1981) J. Clin. Invest. 68, 611-620). A number of laboratories have shown that the Ku protein complex binds to free double-stranded DNA ends. In this study, we have examined the binding properties of EBP-80. EBP-80 binds single-stranded DNA with low affinity. Binding to random sequence double-stranded DNA depends on the length of the duplex and is optimal with oligomers of 30 and 32 base pairs; the protein complexes formed with these oligomers have Kd values of 15-20 pM. It binds with comparable high affinities to blunt-ended duplex DNA, to duplex DNA ending in hairpin loops, and to constructs in which an internal segment of duplex DNA is flanked by single-strand extensions. EBP-80 also interacts effectively with circular duplex molecules containing a 30-nucleotide single-stranded region (gap) or a double-stranded segment of nonhomology (bubble), but only weakly with the corresponding closed circular construct made up entirely of duplex DNA. EBP-80 prefers A/T to G/C ends. The binding properties of EBP-80 are consistent with the hypothesis that is recognizes single- to double-strand transitions in DNA. A model is presented for the interaction of EBP-80 with its target sequence in the proviral long terminal repeat.
Biological Activity of Water-Soluble Fullerenes. Structural Dependence of DNA Cleavage, Cytotoxicity, and Enzyme Inhibitory Activities Including HIV-Protease Inhibition (1996)

Abstract Two different classes of water-soluble fullerene derivatives, detergent-type and sphere-type, were synthesized. The derivatives were evaluated for their biological activities including cytotoxicity, DNA cleavage, and inhibition of HIV-protease and other enzymes. Both classes of compounds display generally similar behavior except for their cytotoxicity spectra against several cell lines. The fullerene derivatives bearing N-methylpyrrole were found to be photo-inactive with respect to DNA cleaving activity and cytotoxicity. A study on the kinetics for the inhibition of HIV-protease with detergent type derivative revealed that the compound is a potent fullerene-based HIV protease inhibitor, inhibiting the enzyme activity in a reversible and competitive manner with a Ki value of 0.32 μM.
Temporospatial expression of the small HSP/αB-crystallin in cardiac and skeletal muscle during mouse development (1997)

Although the small (22 Kd) heat shock protein/alpha B-crystallin functions as a major structural protein and molecular chaperone in the vertebrate lens, little is known about the protein's role in nonlenticular tissues such as the heart and skeletal muscle. Recent studies have demonstrated that alpha B-crystallin expression is uniquely regulated during myogenesis in vitro. We report here for the first time that the temporal and spatial expression of alpha B-crystallin is similarly regulated in vivo during mouse embryogenesis. Expression of alpha B-crystallin mRNA was detected by in situ hybridization in the primitive heart at 8.5 days postconception (p.c.) and in the myotome of the somites at 10.5 days p.c. This tissue-restricted pattern was corroborated by immunohistochemical studies. alpha B-crystallin mRNA and protein expression were uniform in the developing atria and ventricles without regional differences or gradients. alpha B-crystallin expression was absent in the endocardial cushion, pulmonary trunk, aorta, and endothelium. Examination of muscle precursors revealed expression throughout the dorsoventral aspect of the myotomes and in developing skeletal muscle. Our findings suggest that alpha B-crystallin may serve pivotal roles as a structural protein and a molecular chaperone in myofiber stabilization of metabolically active tissues during early embryogenesis. Thus, early alpha B-crystallin expression in myogenic lineages supports the hypothesis that the putative functions of alpha B-crystallin are coupled to the activation of genetic programs responsible for myogenic differentiation and cardiac morphogenesis.
Lattice Thermal Conductivity of Disordered Semiconductor Alloys at High Temperatures (1963)

The high-temperature thermal conductivity of a disordered semiconductor alloy is derived using the Klemens-Callaway theory. It is assumed that the reciprocal relaxation times depend on frequency $\ensuremath{\omega}$ as ${\ensuremath{\omega}}^{4}$ for strain and mass point defects and as ${\ensuremath{\omega}}^{2}$ for normal and umklapp three-phonon anharmonic processes. The thermal conductivity is expressed in terms of the lattice parameters and mean atomic weights of the alloy and its constituents. Agreement is obtained between theory and published experimental data on Ge-Si alloys at temperatures 300-1200\ifmmode^\circ\else\textdegree\fi{}K, and on (Ga,In)As alloys at 300\ifmmode^\circ\else\textdegree\fi{}K, using the value 2.5 for the ratio of umklapp to normal relaxation times. It is found that the large thermal resistivity of Ge-Si alloys is predominantly due to mass defect scattering, whereas that of (Ga,In)As alloys is mainly due to strain scattering.
Efficient multi-object dynamic query histograms (2003)

Dynamic queries offer continuous feedback during range queries, and have been shown to be effective and satisfying. Recent work has extended them to datasets of 100,000 objects and, separately, to queries involving relations among multiple objects. The latter work enables filtering houses by properties of their owners, for instance. Our primary concern is providing feedback from histograms during dynamic query. The height of each histogram bar shows the count of selected objects whose attribute value falls into a given range. Unfortunately, previous efficient algorithms for single object queries overcount in the case of multiple objects if for instance, a house has multiple owners. This paper presents an efficient algorithm that with high probability closely approximates the true counts.
The Development of Cyclic Sulfolanes as Novel and High-Affinity P2 Ligands for HIV-1 Protease Inhibitors (1994)

Design and synthesis of a novel series of protease inhibitors incorporating conformationally constrained cyclic ligands for the S2-substrate binding site of HIV-1 protease is described. We recently reported urethanes of 3-tetrahydrofuranyl as P2 ligands for HIV-1 protease inhibitors. Subsequently, we have found that the urethane of 3(S)-hydroxysulfolane further increased the in vitro potency of these inhibitors. Furthermore, introduction of a small 2-alkyl group cis to the 3-hydroxyl group of either heterocyclic system further enhanced enzyme affinity. The cis-2-isopropyl group thus far offered optimum enhancement of the inhibitory properties. This led to the discovery of inhibitor 43 (IC50 3.5 nM, CIC95 50 +/- 14 nM) of comparable in vitro antiviral potency to the current clinical candidate 1 (Ro 31-8959) but of reduced molecular weight due to the exclusion of the P3 quinoline ligand. Also, it has been demonstrated that the octahydropyrindene derivative 34 is an effective replacement of the P1' decahydroisoquinoline derivative.
Online adaptation of HMMs to real-life conditions: a unified framework (2001)

This paper introduces a unified framework for online adaptation of hidden Markov models (HMM) parameters to real-life conditions. Hence, it aims at improving the robustness of speech recognition systems. In addition, it describes some techniques developed to control the convergence of adaptation in unsupervised modes. Classically, two approaches have been used to adapt HMM parameters to new conditions, that is, Bayesian adaptation and spectral transformation-generally using linear regression. This paper lays out a unifying framework where both Bayesian adaptation and spectral transformation adaptation are seen as particular cases. In this sense, the framework attributes one transformation to each Gaussian distribution and partitions the latter automatically with respect to the adaptation data. Thus, the transformations of each class would share the same parameter vector. Consequently, the global transformation gets a data-driven freedom degree. The parameters of the global transformation are determined according to the maximum a posteriori (MAP) criterion using the original HMM a priori distributions. The general adaptation algorithm has been implemented within the CNET speech recognition system and the whole system evaluated on several field-telephone databases. The new adaptation method provides us with a systematic convergence in an online unsupervised mode of the speech recognition system toward a system enrolled with field data in a supervised mode.
A 5' to 3' exonuclease functionally interacts with calf DNA polymerase epsilon. (1992)

Analysis of fractions containing purified DNA polymerase epsilon from calf thymus has revealed the presence of a 5' to 3' exonuclease activity that is specific for a single strand of duplex DNA. This activity is capable of degrading a 3'-labeled oligonucleotide hybridized to M13mp18 DNA. When a second oligonucleotide primer is annealed 3 bases upstream, degradation of the downstream primer is strictly dependent on DNA synthesis from the upstream primer. Replacement of the downstream primer by an oligoribonucleotide of identical sequence results in a similar pattern of exonucleolytic activity. The activity has been highly purified and found to cosediment in glycerol gradients with a peptide of 56 kDa as judged by SDS/PAGE analysis. Effects of calf DNA polymerase alpha and delta on exonuclease activity are also observed but with differences in the pattern of products.
1,3‐Dipolare Addition von 2‐Benzonitrilio‐2‐propanid an 7‐Methylthieno[2,3‐<i>c</i>]pyridin‐1,1‐dioxid und Folgereaktionen (1983)

1,3‐Dipolar Addition of 2‐Benzonitrilio‐2‐propanid to 7‐Methylthieno[2,3‐ c ]pyridine 1,1‐Dioxide and Subsequent Reactions The addition of dipole 2 , generated photochemically from 2,2‐dimethyl‐3‐phenyl‐2 H ‐azirine ( 1 ), to 7‐methylthieno[2,3‐ c ]pyridine 1,1‐dioxide yields the pyrroline derivative 4 as a major product and regioisomer 5 in low yield. Compound 4 can be transformed into the pyrrolidine derivative 11 by ring opening, loss of SO 2 and hydrogenation. Bromopyrroline derivative 14 gives either by dehydrohalogenation compound 18 or, by substitution, nitrile 17 or ethoxy derivative 19 . Substitution of 14 and ring opening yields methoxypyrrole derivative 20 , which gives access to the unstable hydroxypyrrole and hydroxypyrrolidine derivative 28 resp. 30 . The vinylsulfone 18 is the starting material for addition‐ring‐cleavage reactions. Oxidation of pyrroline derivative 4 gives epoxy‐substituted N ‐oxide 39 and di‐ N ‐oxide 40 ; and oxidative transformation of pyrrolidine derivative 11 yields the (hydroxymethyl)pyridylpyrrolidine derivative 45 .
Fine-grained revision control for collaborative software development (1993)

This paper presents a framework for controlling the evolution of complex software systems concurrently developed by teams of software engineers. A general technique for fine-grained revision control of hierarchically structured information, such as programs and documents, is described and evaluated. All levels in the hierarchy are revision controlled, leaves as well as branch nodes. The technique supports sharing of unchanged nodes among revisions, automatic change propagation, and change-oriented representation of differences. Its use in a software development environment is presented, facilitating optimistic check-out of revisions and alternatives, check-in with incremental merge support, visualization of change propagation, and an integrated flexible diff-ing technique providing group awareness for team members.
Comparison of Fabrication Approaches for Selectively Oxidized VCSEL Arrays (2000)

The impressive performance improvements of laterally oxidized VCSELs come at the expense of increased fabrication complexity for 2-dimensional arrays. Since the epitaxial layers to be wet-thermally oxidized must be exposed, non-planarity can be an issue. This is particularly important in that electrical contact to both the anode and cathode of the diode must be brought out to a package. They have investigated four fabrication sequences suitable for the fabrication of 2-dimensional VCSEL arrays. These techniques include: mesa etched polymer planarized, mesa etched bridge contacted, mesa etched oxide isolated (where the electrical trace is isolated from the substrate during the oxidation) and oxide/implant isolation (oxidation through small via holes) all of which result in VCSELs with outstanding performance. The suitability of these processes for manufacturing are assessed relative to oxidation uniformity, device capacitance, and structural ruggedness for packaging.
Advanced fabrication of Si nanowire FET structures by means of a parallel approach (2014)

In this paper we present fabricated Si nanowires (NWs) of different dimensions with enhanced electrical characteristics. The parallel fabrication process is based on nanoimprint lithography using high-quality molds, which facilitates the realization of 50 nm-wide NW field-effect transistors (FETs). The imprint molds were fabricated by using a wet chemical anisotropic etching process. The wet chemical etch results in well-defined vertical sidewalls with edge roughness (3σ) as small as 2 nm, which is about four times better compared with the roughness usually obtained for reactive-ion etching molds. The quality of the mold was studied using atomic force microscopy and scanning electron microscopy image data. The use of the high-quality mold leads to almost 100% yield during fabrication of Si NW FETs as well as to an exceptional quality of the surfaces of the devices produced. To characterize the Si NW FETs, we used noise spectroscopy as a powerful method for evaluating device performance and the reliability of structures with nanoscale dimensions. The Hooge parameter of fabricated FET structures exhibits an average value of 1.6 × 10(-3). This value reflects the high quality of Si NW FETs fabricated by means of a parallel approach that uses a nanoimprint mold and cost-efficient technology.
Quantitation of megakaryocytopoiesis in liquid culture by enzymatic determination of acetylcholinesterase (1985)

A method has been developed to quantitate megakaryocytopoiesis in culture by measuring acetylcholinesterase synthesized in vitro. Murine marrow cells, treated with diisopropylfluorosphosphate (DFP) to inactivate initial acetylcholinesterase (AchE) present in megakaryocytes and contaminating blood, were set up in Iscove's medium supplemented with 15% DFP-treated horse serum +/- pokeweed mitogen-stimulated spleen cell conditioned medium (PWM-SCM) in 96-well microplates. Following the culture period, Triton X-100, dithiobisnitrobenzoic acid (DTNB), and acetylthiocholine iodide were added to each well. AchE synthesized in culture cleaved acetylthiocholine to thiocholine, which stochiometrically reduced the colorless indicator DTNB to a highly colored product. Thirty minutes following the addition of substrate, the plates were assayed for activity with a vertical recording photometer. When platelets, freshly prepared bone marrow cells, or cultured marrow were assayed by this method, a linear relationship was observed between optical density (OD) and the number of cells assayed. Moreover, a linear relationship between the number of AchE-positive megakaryocytes determined histochemically and AchE activity determined spectrophotometrically was observed. Red cells exhibited no activity. Inhibitor studies demonstrated that the activity measured was true AchE. Separation of marrow by density gradient centrifugation showed that the megakaryocyte enriched fraction contained all the AchE while the megakaryocyte depleted fraction contained none. From the data we conclude that this rapid, semiautomated method quantitates megakaryocytic AchE synthesis in culture, and that this method will be a useful assay system for the detection of factors that influence megakaryocytopoiesis.
Carpal tunnel syndrome (1983)

The presenting symptomatology and clinical findings of 464 patients with the carpal tunnel syndrome are reviewed. The results of decompression by section of the transverse carpal ligament are presented, with particular reference to the use of the Paine retinaculotome. Approximately 90% of patients achieved very satisfactory results and complications were minimal. The commonest reason for failure is incomplete division of the flexor retinaculum. The detailed procedure is presented.
Disc Height and Signal Intensity of the Nucleus Pulposus on Magnetic Resonance Imaging as Indicators of Lumbar Disc Degeneration (2001)

Relative signal intensity was lower in the middle-aged men than in the young men, indicating age-related disc degeneration. Despite the general positive association between disc narrowing and decreased relative signal intensity, disc narrowing may behave unexpectedly in relation to signal intensity and age. Signal intensity may be a more sensitive measure of disc degeneration. The validity of disc height as an indicator of early degeneration seems questionable.