DeepNGlyPred: A Deep Neural Network-Based Approach for Human N-Linked Glycosylation Site Prediction

Protein N-linked glycosylation is a post-translational modification that plays an important role in a myriad of biological processes. Computational prediction approaches serve as complementary methods for the characterization of glycosylation sites. Most of the existing predictors for N-linked glycosylation utilize the information that the glycosylation site occurs at the N-X-[S/T] sequon, where X is any amino acid except proline. Not all N-X-[S/T] sequons are glycosylated, thus the N-X-[S/T] sequon is a necessary but not sufficient determinant for protein glycosylation. In that regard, computational prediction of N-linked glycosylation sites confined to N-X-[S/T] sequons is an important problem. Here, we report DeepNGlyPred a deep learning-based approach that encodes the positive and negative sequences in the human proteome dataset (extracted from N-GlycositeAtlas) using sequence-based features (gapped-dipeptide), predicted structural features, and evolutionary information. DeepNGlyPred produces SN, SP, MCC, and ACC of 88.62%, 73.92%, 0.60, and 79.41%, respectively on N-GlyDE independent test set, which is better than the compared approaches. These results demonstrate that DeepNGlyPred is a robust computational technique to predict N-Linked glycosylation sites confined to N-X-[S/T] sequon. DeepNGlyPred will be a useful resource for the glycobiology community.     

Kinetic–catalytic–spectrophotometric determination of low concentrations of molybdenum in white wines

The paper describes the determination of the molybdenum content in white wines based on its catalytical action on the kalium iodide oxidation by hydrogen peroxide in acid medium.

The optimum reaction conditions (the catalyst, KI and H₂O₂ concentrations, the pH value, the order of the reagent additions, the temperature) have been found by studying the effect of the reaction variables.

The influence of some metallic ions (Ca²⁺, Mg²⁺, Zn²⁺, Cd²⁺, Fe²⁺ and Fe³⁺) and complexing anions (F⁻, C₂O²⁻₄, EDTA⁴⁻) on the catalyzed reaction rate was elucidated.

The molybdenum concentration was estimated by the tangent, fixed-time and fixed-absorbance method. The obtained average values for molybdenum content in white wines are within the 1.77×10⁻⁷–1.83×10⁻⁷ mol l⁻¹ range.     

Intense laser effects on the optical properties of asymmetric GaAs double quantum dots under applied electric field

We investigated the combined effects of a non-resonant intense laser field and a static electric field on the electronic structure and the nonlinear optical properties (absorption, optical rectification) of a GaAs asymmetric double quantum dot under a strong probe field excitation. The calculations were performed within the compact density-matrix formalism under steady state conditions using the effective mass approximation. Our results show that: (i) the electronic structure and optical properties are sensitive to the dressed potential; (ii) under applied electric fields, an increase of the laser intensity induces a redshift of the optical absorption and rectification spectra; (iii) the augment of the electric field strength leads to a blueshift of the spectra; (iv) for high electric fields the optical spectra show a shoulder-like feature, related with the occurrence of an anti-crossing between the two first excited levels.     

Oscillatory behaviour in the energy and nonlinear optical rectification spectra of elliptic quantum rings under electric field: influence of impurity and eccentricity

We have theoretically investigated the electronic properties and nonlinear optical rectification spectra of GaAs/AlGaAs anisotropic quantum ring, modelled by an outer ellipsis and an inner circle, in connection to the presence of a donor off-centre impurity, structural distortions and in-plane electric field. The one-electron energy spectrum and wave functions are found using the adiabatic approximation and the finite element method within the effective-mass model. The energy spectrum of concentric ring reveals an anomalous oscillatory behaviour in the region of relatively small values of the electric field (< 12?kV/cm) followed by linear Stark effect at higher field values. We showed that this unusual behaviour is strongly affected by the ratio of the outer/inner ring radii, the displacement of the inner circle (eccentricity) along the x or y axis and the impurity presence. The related nonlinear optical rectification spectra present maxima whose positions mirror this oscillatory behaviour and consequently can be used as an excellent tool to distinguish the presence of an impurity or the direction of the eccentricity.     

On the inversion of the Laplace transform for resolvent families in <Emphasis Type="Italic">UMD</Emphasis> spaces

We analyze the inversion of the Laplace transform in UMD-spaces for resolvent families associated to an integral Volterra equation of convolution type.Received: 25 March 2002     

Schwarzschild-de-Sitter Solution in Quantum Gauge Theory of Gravity

We use the theory based on the gravitational gauge group G to obtain a spherical symmetric solution of the field equations for the gravitational potentials on a Minkowski space-time. The gauge group G is defined and then we introduce the gauge-covariant derivative Dμ. The strength tensor of the gravitational gauge field is also obtained and a gauge-invariant Lagrangian including the cosmological constant is constructed. A model whose gravitational gauge potentials A^α μ （x） have spherical symmetry, depending only on the radial coordinate τ is considered and an analytical solution of these equations, which induces the Schwarzschild-de-Sitter metric on the gauge group space, is then determined. All the calculations have been performed by GR Tensor II computer algebra package, running on the Maple V platform, along with several routines that we have written for our model.     

New developments in laser interferometry at 10.6 μm

A complete setup for pulsed CO₂ laser interferometry is described. The relative advantages and limits of different recording techniques of the interference pattern in 10.6 μm laser light are analysed. Preliminary recordings of the interference pattern in the case of early evolution stages of an air breakdown plasma in front of a solid target are given.     

Analytic inner shell internal conversion coefficients for screened Coulomb potentials

An analytic method is presented for evalution of internal conversion coefficients (ICC) in inner shells of neutral or ionized atoms. Analytic formulas for ICC are given which include electron screening and static nuclear size effects. Predictions have also been obtained from these formulas for point Coulomb ICC or for screening effects included only in bound state normalization. Very good agreement with full numerical calculations is found, except in those cases where the formation region of the ICC is not well inside the atom. While the discussion in this paper concerns mediumZ elements (30<Z<80) and not too low energy, the method can be extended to other situations. The method is suited also for ICC of the inner shells of ionized atoms, even for very high degree of ionization.     

Magnetic nanoparticles and concentrated magnetic nanofluids： Synthesis, properties and some applications

This paper reviews some recent results concerning chemical synthesis of magnetic nanoparticles and preparation of various types of magnetic nanofluids. Structural properties and behaviour in external magnetic field of magnetic nanofluids will be emphasized with relation to their use in leakage-free rotating seals and in biomedical applications.     

Tetrakis[(4S)-4-phenyloxazolidin-2-one]dirhodium(II) and Its Catalytic Applications for Metal Carbene Transformations

The synthesis and X-ray structure of the binuclear complex tetrakis[(4S)-4-phenyloxazolidin-2-one]-dirhodium(II) ([Rh₂{(4S)-phox}₄]) are reported. Structure-selectivity comparisons are made for typical metal carbene transformations, such as inter- and intramolecular cyclopropane formation, intermolecular cyclopropene formation and intramolecular C–H insertions of diazoacetates and diazoacetamides. The enantioselectivity achieved in the [Rh₂{(4S)-phox}₄]-catalyzed reactions is intermediate between that of [Rh₂{(5S)-mepy}₄] and [Rh₂{(4R)-bnox}₄], which were described previously (mepy = methyl 5-oxopyrrolidine-2-carboxylate; bnox = 4-benzyloxazolidin-2-one). In contrast to other catalyzed intermolecular cyclopropane formations, those using [Rh₂{(4S)-phox}₄] result preferentially in formation of the cis-cyclopropane.