gebhart/patrepeval huggingface dataset:
Circulating adropin levels in patients with endometrium cancer (2015)

Adropin seems to be an important protein in pathogenesis of EC. Clearly, there are largely unknown aspects of adropin in EC pathophysiology and require further multi-centered, molecular and genetic studies including high number of cases.
Intestinal Permeability of Cyclic Peptides: Common Key Backbone Motifs Identified (2012)

Insufficient oral bioavailability is considered as a key limitation for the widespread development of peptides as therapeutics. While the oral bioavailability of small organic compounds is often estimated from simple rules, similar rules do not apply to peptides, and even the high oral bioavailability that is described for a small number of peptides is not well understood. Here we present two highly Caco-2 permeable template structures based on a library of 54 cyclo(-D-Ala-Ala(5)-) peptides with different N-methylation patterns. The first (all-trans) template structure possesses two β-turns of type II along Ala(6)-D-Ala(1) and Ala(3)-Ala(4) and is only found for one peptide with two N-methyl groups at D-Ala(1) and Ala(6) [(NMe(1,6)]. The second (single-cis) template possesses a characteristic cis peptide bond preceding Ala(5), which results in type VI β-turn geometry along Ala(4)-Ala(5). Although the second template structure is found in seven peptides carrying N-methyl groups on Ala(5), high Caco-2 permeability is only found for a subgroup of two of them [NMe(1,5) and NMe(1,2,4,5)], suggesting that N-methylation of D-Ala(1) is a prerequisite for high permeability of the second template structure. The structural similarity of the second template structure with the orally bioavailable somatostatin analog cyclo(-Pro-Phe-NMe-D-Trp-NMe-Lys-Thr-NMe-Phe-), and the striking resemblance with both β-turns of the orally bioavailable peptide cyclosporine A, suggests that the introduction of bioactive sequences on the highly Caco-2 permeable templates may result in potent orally bioavailable drug candidates.
Sex-specific patterns and differences in dementia and Alzheimer’s disease using informatics approaches (2016)

The National Institutes of Health Office of Research on Women's Health recently highlighted the critical need for explicitly addressing sex differences in biomedical research, including Alzheimer's disease and dementia. The purpose of our study was to perform a sex-stratified analysis of cognitive impairment using diverse medical, clinical, and genetic factors of unprecedented scale and scope by applying informatics approaches to three large Alzheimer's databases. Analyses suggested females were 1.5 times more likely than males to have a documented diagnosis of probable Alzheimer's disease, and several other factors fell along sex-specific lines and were possibly associated with severity of cognitive impairment.
Thermally enhanced mechanical properties of arc evaporated Ti0.34Al0.66N/TiN multilayer coatings (2010)

Cubic metastable Ti0.34Al0.66N/TiN multilayer coatings of three different periods, 25+50, 12+25, and 6+12 nm, and monoliths of Ti0.34Al0.66N and TiN where grown by reactive arc evaporation. Differential scanning calorimetry reveals that the isostructural spinodal decomposition to AlN and TiN in the multilayers starts at a lower temperature compared to the monolithic TiAlN, while the subsequent transformation from c-AlN to h-AlN is delayed to higher temperatures. Mechanical testing by nanoindentation reveals that, despite the 60 vol % TiN, the as-deposited multilayers show similar or slightly higher hardness than the monolithic Ti0.34Al0.66N. In addition, the multilayers show a more pronounced age hardening compared to the monolith. The enhanced hardening phenomena and improved thermal stability of the multilayer coatings are discussed in terms of particle confinement and coherency stresses from the neighboring TiN-layers.
Chromosome transfer in Rhodobacter sphaeroides: Hfr formation and genetic evidence for two unique circular chromosomes (1992)

A 600-bp oriT-containing DNA fragment from the Rhodobacter sphaeroides 2.4.1 S factor (oriTs) (A. Suwanto and S. Kaplan, J. Bacteriol. 174:1124-1134, 1992) was shown to promote polarized chromosomal transfer when provided in cis. A Kmr-oriTs-sacR-sacB (KTS) DNA cassette was constructed by inserting oriTs-sacR-sacB into a pUTmini-Tn5 Km1 derivative. With this delivery system, KTS appeared to be randomly inserted into the genome of R. sphaeroides, generating mutant strains which also gained the ability to act as Hfr donors. An AseI site in the Kmr cartridge (from Tn903) and DraI and SnaBI sites in sacR-sacB (the levansucrase gene from Bacillus subtilis) were employed to localize the KTS insertion definitively by pulsed-field gel electrophoresis. The orientation of oriTs at the site of insertion was determined by Southern hybridization analysis. Interrupted mating experiments performed with some of the Hfr strains exhibited a gradient of marker transfer and further provided genetic evidence for the circularity and presence of two chromosomal linkage groups in this bacterium. The genetic and environmental conditions for optimized mating between R. sphaeroides strains were also defined. The results presented here and our physical map of the R. sphaeroides 2.4.1 genome are discussed in light of the presence of two chromosomes.
Purification and Characterization of Leu-Proteinase, the Leucine Specific Serine Proteinase from Spinach (<i>Spinacia oleracea</i> L.) Leaves (1986)

The leucine specific serine proteinase present in the soluble fraction of leaves from Spinacia oleracea L. (called Leu-proteinase) has been purified by acetone precipitation and a combination of gel-filtration, ion exchange, and adsorption chromatography. This enzyme shows a molecular weight of 60,000 +/- 3,000 daltons, an isoelectric point of 4.8 +/- 0.1, and a relative electrophoretic mobility of 0.58 +/- 0.03. The Leu-proteinase catalyzed hydrolysis of p-nitroanilides of N-alpha-substituted(-l-)amino acids as well as of chromogenic macromolecular substrates has been investigated between pH 5 and 10 at 23 +/- 0.5 degrees C and I = 0.1 molar. The enzyme activity is characterized by a bell-shaped profile with an optimum pH value around 7.5, reflecting the acid-base equilibrium of groups with pK(a) values of 6.8 +/- 0.1 and 8.2 +/- 0.1 (possibly the histidyl residue present at the active site of the enzyme and the N-terminus group). Among the substrates considered, N-alpha-benzoyl-l-leucine p-nitroanilide shows the most favorable catalytic parameters and allows to determine an enzyme concentration as low as 1 x 10(-9) molar. In agreement with the enzyme specificity, only N-alpha-tosyl-l-leucine chloromethyl ketone, di-isopropyl fluorophosphate and phenylmethylsulfonyl fluoride, among compounds considered specific for serine enzymes, strongly inhibit the Leu-proteinase. Accordingly, the enzyme activity is insensitive to cations, chelating agents, sulfydryl group reagents, and activators.
Understanding Acceptance of High Technology Products: 50 Years of Research (2006)

This survey of research on acceptance of technology over the past fifty years was conducted to identify and clarify those variables that influence technology acceptance, particularly those that are related to aspects of the technology itself. We surveyed the literature across many domains, selected articles related to this research area, and coded these articles based on the studied variables and products. The results of this survey are an organizational schema for all of the variables as well as specific guidance on the generalized effects of relevant variables such as perceived usefulness, perceived compatibility, and perceived privacy. For each critical variable, we discuss the implications to guide designers of high-technology products.
Novel Indolylindazolylmaleimides as Inhibitors of Protein Kinase C-β:  Synthesis, Biological Activity, and Cardiovascular Safety (2004)

Novel indolylindazolylmaleimides were synthesized and examined for kinase inhibition. We identified low-nanomolar inhibitors of PKC-beta with good to excellent selectivity vs other PKC isozymes and GSK-3beta. In a cell-based functional assay, 8f and 8i effectively blocked IL-8 release induced by PKC-betaII (IC(50) = 20-25 nM). In cardiovascular safety assessment, representative lead compounds bound to the hERG channel with high affinity, potently inhibited ion current in a patch-clamp experiment, and caused a dose-dependent increase of QT(c) in guinea pigs.
Preferentially enhanced gene expression from a synthetic human telomerase reverse transcriptase promoter in human cancer cells (2006)

Although the human telomerase reverse transcriptase (hTERT) promoter can regulate cancer-specific genes, it is generally too weak to be effective. We therefore attempted to improve the potency of synthetic hTERT promoters by fusing the core element (E) of the hTERT promoter (H) and the tripartite leader sequence (T) from human adenovirus 5 in a combinatorial manner. To determine the potential as cancer-specific promoters, we measured luciferase activity driven by the chimeric hTERT promoters in human cancer cells. Among various constructs, the E3-H-T promoter induced the strongest luciferase activity in all the tested cancer cells. SK-Hep1 and Hela cells experienced 1000- and 11-fold higher expression than the basic hTERT promoter, respectively. Relative to the SV40 universal promoter, the E3-H-T promoter led to higher levels of gene expression. Using EMSA, we found that the hTERT enhancer region was specifically bound to c-Myc and Sp1. Thus, the data suggest that the E3-H-T promoter with up-regulated cancer-specific gene expression could be useful in cancer gene therapy.
A Glucose-to-Gene Link (2009)

A regulatory loop links glucose metabolism to chromatin alterations and the controlled expression of metabolic genes.
Chromosome arrangement and nuclear architecture but not centromeric sequences are conserved between <i>Arabidopsis thaliana</i> and <i>Arabidopsis lyrata</i> (2006)

In contrast to the situation described for mammals and Drosophila, chromosome territory (CT) arrangement and somatic homologous pairing in interphase nuclei of Arabidopsis thaliana (n = 5) are predominantly random except for a more frequent association of the chromosomes bearing a homologous nucleolus organizer region. To find out whether this chromosome arrangement is also characteristic for other species of the genus Arabidopsis, we investigated Arabidopsis lyrata ssp. lyrata (n = 8), one of the closest relatives of A. thaliana. First, we determined the size of each chromosome and chromosome arm, the sequence type of centromeric repeats and their distribution between individual centromeres and the position of the 5S/45S rDNA arrays in A. lyrata. Then we demonstrated that CT arrangement, homologous pairing and sister chromatid alignment of distinct euchromatic and/or heterochromatic regions within A. lyrata interphase nuclei are similar to that in A. thaliana nuclei. Thus, the arrangement of interphase chromosomes appears to be conserved between both taxa that diverged about 5 million years ago. Since the chromosomes of A. lyrata resemble those of the presumed ancestral karyotype, a similar arrangement of interphase chromosomes is also to be expected for other closely related diploid species of the Brassicaceae family.
Low dropout (LDO) voltage regulator design using split-length compensation (2012)

We explore the application of split-length compensation to the design of a three-stage low dropout (LDO) voltage regulator. Initially, we review three basic compensation techniques, Miller, cascode, and split-length, and demonstrate their use in a multi-stage amplifier. It is found that stable designs are possible using single Miller compensation, whereas both cascode and split-length compensation require a Miller compensation network in parallel. Finally, we compare the three compensation techniques in terms of quiescent current, area, dropout voltage, unity-gain frequency, line and load transient response, and power supply rejection. For the LDO architecture selected, it is found that cascode and split-length compensation offer very similar performance, with the exception of quiescent current and area. Cascode compensation required 24% less total compensation capacitance, whereas split-length compensation used 14% less quiescent current.
Corroboration versus borrocoration (1989)

Corroboration versus borrocoration Barry Gower Barry Gower Durham UniversityDurham DH1 3HN Search for other works by this author on: Oxford Academic Google Scholar Analysis, Volume 49, Issue 1, January 1989, Pages 8–10, https://doi.org/10.1093/analys/49.1.8 Published: 01 January 1989
Theory of Antenna Radiation from Photonic Band-Gap Materials (1999)

ABSTRACT A unified formulation of antenna radiation from photonic band-gap (PBG) materials is described in this paper. An analytical array scanning method is applied to formulate the boundary-value problem associated with source interaction with infinite periodic structures. A double vector-integral equation formulation in conjunction with multi-stage moment methods is introduced to characterize the current distribution over antenna elements, the near fields, and associated circuit parameters of interest. Asymptotic method is used to find the far-zone radiated waves and the periodic guided waves, which are used subsequently to determine the antenna radiation characteristics including gain (directivity) patterns, efficiency, and periodic guided wave power pattern. Of particular interest is the photonic band-gap effect to the periodic guided waves. Potential high-gain surface wave antenna using a PBG substrate is also discussed.
Raman microspectroscopy for non-invasive biochemical analysis of single cells (2007)

Recent developments in biomedical vibrational spectroscopy now permit the non-invasive imaging of cells and tissues within both the laboratory and clinical settings. The rapid nature and diagnostic potential of both Raman and FTIR (Fourier-transform IR) spectroscopy have resulted in their widespread application to a number of biological fields including fundamental cell biology, medical imaging, tissue engineering and pharmacology. In particular, Raman microspectroscopy shows tremendous promise for the analysis of biological processes within living cells, such as cell cycle dynamics, cell differentiation and cell death. Unlike conventional biological assays, laser-based Raman spectroscopy enables rapid and non-invasive biochemical analysis of cells in the absence of fixatives or labels. The low Raman signal of cell culture buffer/media permits the rapid monitoring of living cells growing under standard cell culture conditions. The Raman spectrum of a cell is a biochemical 'fingerprint', containing molecular-level information about all biopolymers contained within the cell. The high information content of Raman spectra can be used to characterize the distribution of multiple cellular components, and to study the dynamics of subcellular reactions, with excellent spatial resolution. This review highlights recent developments in Raman microspectroscopy, with a focus on non-invasive biochemical analysis of single living cells.
Traditional healthful fermented products of Japan (2008)

A variety of fermentation products, such as foods containing probiotic bacteria, black rice vinegar (kurosu), soy sauce (shoyu), soybean-barley paste (miso), natto and tempeh, are sold in food stores in Japan. These fermented food products are produced by traditional methods that exploit mixed cultures of various non-toxic microorganisms. These microorganisms include lactic acid bacteria, acetic acid bacteria, sake yeast, koji molds and natto bacteria. Many traditional fermented foods have been studied and their effects on metabolism and/or immune system have been demonstrated in animal and/or human cells. This review summarizes the scientific basis for the effects of these traditional food products, which are currently produced commercially in Japan.
New Enlightenment of Skin Cancer Chemoprevention through Phytochemicals:<i>In Vitro</i>and<i>In Vivo</i>Studies and the Underlying Mechanisms (2014)

Skin cancer is still a major cause of morbidity and mortality worldwide. Skin overexposure to ultraviolet irradiations, chemicals, and several viruses has a capability to cause severe skin-related disorders including immunosuppression and skin cancer. These factors act in sequence at various steps of skin carcinogenesis via initiation, promotion, and/or progression. These days cancer chemoprevention is recognized as the most hopeful and novel approach to prevent, inhibit, or reverse the processes of carcinogenesis by intervention with natural products. Phytochemicals have antioxidant, antimutagenic, anticarcinogenic, and carcinogen detoxification capabilities thereby considered as efficient chemopreventive agents. Considerable efforts have been done to identify the phytochemicals which may possibly act on one or several molecular targets that modulate cellular processes such as inflammation, immunity, cell cycle progression, and apoptosis. Till date several phytochemicals in the light of chemoprevention have been studied by using suitable skin carcinogenic in vitro and in vivo models and proven as beneficial for prevention of skin cancer. This revision presents a comprehensive knowledge and the main molecular mechanisms of actions of various phytochemicals in the chemoprevention of skin cancer.
Protumorigenic Role of HAPLN1 and Its IgV Domain in Malignant Pleural Mesothelioma (2009)

Overexpression of HAPLN1 and its SP-IgV domain increases tumorigenic properties of mesothelioma. Thus, targeting the SP-IgV domain may be one of the therapeutic approaches in cancer treatment.
Fano resonance and spectrally modified photoluminescence enhancement in monolayer MoS2 integrated with plasmonic nanoantenna array (2015)

The manipulation of light-matter interactions in two-dimensional atomically thin crystals is critical for obtaining new optoelectronic functionalities in these strongly confined materials. Here, by integrating chemically grown monolayers of MoS2 with a silver-bowtie nanoantenna array supporting narrow surface-lattice plasmonic resonances, a unique two-dimensional optical system has been achieved. The enhanced exciton-plasmon coupling enables profound changes in the emission and excitation processes leading to spectrally tunable, large photoluminescence enhancement as well as surface-enhanced Raman scattering at room temperature. Furthermore, at low temperatures, due to the decreased damping of MoS2 excitons interacting with the plasmonic resonances of the bowtie array, stronger exciton-plasmon coupling is achieved resulting in a Fano lineshape in the reflection spectrum. The Fano lineshape, which is due to the interference between the pathways involving the excitation of the exciton and plasmon, can be tuned by altering the coupling strengths between the two systems via changing the design of the bowties lattice. The ability to manipulate the optical properties of two-dimensional systems with tunable plasmonic resonators offers a new platform for the design of novel optical devices with precisely tailored responses.
Comparison of Materials as Oxygen Catalytic Electrodes on Zirconia Electrolyte (1982)

A study has been conducted on the effects of electrode materials on the kinetics of the oxygen reaction at electrodes on zirconia at 1000°C in air. Single point contact electrodes were used to overcome differences in morphologies of porous electrodes. The areas of contacts were calculated from the electrolyte resistance considering the electrode/electrolyte interface as a disk. The dimensions of the disk were used to normalize the currents observed at −100 mV potential as current per unit length of disk perimeter. These specific currents varied by nearly three orders of magnitude for the metals and oxides tested demonstrating the importance of the catalytic nature of the electrode material and its surface. Impedance measurements at zero overpotential showed a much smaller dependence on the electrode materials.
Equilibrium behavior of sessile drops under surface tension, applied external fields, and material variations (2003)

This article describes the equilibrium shape of a liquid drop under applied fields such as gravity and electrical fields, taking into account material properties such as dielectric constants, resistivities, and surface tension coefficients. The analysis is based on an energy minimization framework. A rigorous and exact link is provided between the energy function corresponding to any given physical phenomena, and the resulting shape and size dependent force term in Young’s equation. In particular, the framework shows that a physical effect, such as capacitive energy storage in the liquid, will lead to 1/R “line-tension”-type terms if and only if the energy of the effect is proportional to the radius of the liquid drop: E∝R. The effect of applied electric fields on shape change is analyzed. It is shown that a dielectric solid and a perfectly conducting liquid are all that is needed to exactly recover the Young–Lippmann equation. A dielectric liquid on a conducting solid gives rise to line tension terms. Finally, a slightly resistive liquid on top of a dielectric, highly resistive solid gives rise to contact angle saturation and accurately matches the experimental data that we observe in our electro-wetting-on-dielectric devices.
Temperature dependence of intramolecular dynamics of the basic leucine zipper of GCN4: implications for the entropy of association with DNA (1999)

The basic leucine zipper domain of the yeast transcription factor GCN4 consists of a C-terminal leucine zipper and an N-terminal basic DNA-binding region that achieves a stable structure only after association with DNA. Backbone dynamics of a peptide encompassing the basic and leucine zipper bZip domain (residues 226-281) are described using NMR spectroscopy. The 15N longitudinal relaxation rates, 15N transverse relaxation rates, and {1H}-15N nuclear Overhauser effects were measured for the backbone amide nitrogen atoms at 290 K, 300 K, and 310 K. The relaxation data were interpreted using reduced spectral density mapping to determine values of the spectral density function, J(omega), at the frequencies 0, omegaN, and 0.87omegaH to characterize overall and intramolecular motions on picosecond-nanosecond timescales. To account for the temperature dependence of overall rotational diffusion, the J(0) values were normalized using Stoke's Law. At 310 K, the 13Calpha and 13CO chemical shifts in conjunction with the spectral density values indicate that the leucine zipper sequence forms a highly ordered alpha-helix, while the basic region populates an ensemble of highly dynamic transient structures with substantial helical character. The normalized values of J(0) and the values of J(0.87omegaH) for residues in the leucine zipper dimerization domain are independent of temperature. In contrast, residues in the basic region exhibit pronounced increases in the normalized J(0) and decreases in J(0.87omegaH) as temperature is decreased. A strong correlation exists between the temperature dependence of 13CO chemical shifts and of J(0.87omegaH). These results suggest that, for the basic region, lowering the temperature increases the population of transient helical conformations, and concomitantly reduces the amplitude or timescale of conformational fluctuations on picosecond-nanosecond timescales. Changes in the conformational dynamics of the peptide backbone of the basic region that accompany DNA binding contribute to the overall thermodynamics of complex formation. The change in backbone conformational entropy derived from NMR spin-relaxation data agrees well with the result calculated from calorimetric measurements. Restriction of the conformational space accessible to the basic region may significantly reduce the entropic cost associated with formation of the basic region helices consequent to DNA binding.