3D graphical representation of protein sequences and their statistical characterization

Based on three physicochemical properties of amino acid side chains, we proposed a novel unique 3D graphical representation of protein sequences. Then, we constructed two vectors of three components as mathematical objects to characterize protein sequences numerically. The similarity/dissimilarity analysis among nine ND5 protein sequences proved the utility of our approach. A correlation and significance analysis have been provided to compare our results and the sequence homology.     

3D trapping and manipulation of micro-particles using holographic optical tweezers with optimized computer-generated holograms

A multi-plane adaptive-additive algorithm is developed for optimizing computer-generated holograms for the reconstruction of traps in three-dimensional(3D) spaces.This algorithm overcomes the converging stagnation problem of the traditional multi-plane Gerchberg-Saxton algorithm and improves the diffraction efficiency of the holograms effectively.The optimized holograms are applied in a holographic optical tweezers(HOT) platform.Additionally,a computer program is developed and integrated into the HOT platform for the purpose of achieving the interactive control of traps.Experiments demonstrate that the manipulation of micro-particles into the 3D structure with optimized holograms can be carried out effectively on the HOT platform.     

Improving pulse sequences for 3D DOSY: convection compensation

Signal overlap in the NMR dimension significantly complicates the construction and analysis of 2D diffusion-ordered (DOSY) spectra. Such problems can often be reduced or even eliminated by extending the NMR domain of a DOSY experiment into two dimensions, giving a 3D-DOSY spectrum. To date such experiments have generally sacrificed some signal-to-noise ratio and have required extensive and time-consuming phase cycling. A new family of pulse sequences with internal diffusion encoding (IDOSY) has been introduced which avoids both of these problems. It is often straightforward to incorporate convection compensation in such sequences at no cost in signal-to-noise ratio. Here, some of the problems caused by convection in DOSY are described and illustrated, and the efficacy of convection compensation in the 2DJ-IDOSY and COSY-IDOSY experiments is demonstrated.     

Evaluation of Crohn's disease using half-fourier RARE and gadolinium-enhanced SGE sequences: initial results

To assess the bowel changes in Crohn's disease, 11 consecutive patients underwent magnetic resonance imaging (MRI) study using T(2)-weighted half-Fourier rapid acquisition with relaxation enhancement (RARE) and gadolinium-enhanced standard and fat suppressed spoiled gradient echo (SGE) sequences. Comparison was made between MR findings of disease extent, severity, and complications and clinical data, endoscopic findings and/or surgical specimens in all patients. We found that the half-Fourier RARE images showed bowel wall thickening, dilatation of bowel and bowel obstruction well in all patients, however severity of bowel disease could not be determined as the signal intensity of diseased bowel was comparable to normal bowel in 10/11 patients. Gadolinium-enhanced fat suppressed SGE demonstrated variations of mural enhancement that correlated well with extent of disease severity in 10/11 patients. Complications such as intraperitoneal (i. p.) abscess (2 patients), gastric outlet obstruction (1 patient), bowel obstruction (2 patients), and fistula formation (3 patient), were accurately shown. We conclude that T(2)-weighted half-Fourier RARE and gadolinium-enhanced fat suppressed SGE sequences are complementary techniques that possess different imaging features that are of value for assessing bowel changes in Crohn's disease.     

Magnetic fields in 2D and 3D sphere

In this note we study the Landau–Hall problem in the 2D and 3D unit sphere, that is, the motion of a charged particle in the presence of a static magnetic field. The magnetic flow is completely determined for any Riemannian surface of constant Gauss curvature, in particular, the unit 2D sphere. For the 3D case we consider Killing magnetic fields on the unit sphere, and we show that the magnetic flowlines are helices with the given Killing vector field as its axis.     

钪原子的自电离里德伯能级3d4s(~1D_2)nf~2D_(3/2),3d4s(~1D_2)nf~2F_(5/2)和3d4s(~1D_2)np~2D_(3/2)的理论研究

在多通道量子亏损理论框架下,利用相对论多通道理论,分别在冻结实近似和考虑偶极极化下计算钪原子的Jπ=(3/2)-,(5/2)-的三个收敛于[Ar]3d4s(1D2)的自电离里德伯系列的能级.对3d4s(1D2)np2D3/2和3d4s(1D2)nf2F5/2这两个系列,计算结果表明,考虑偶极极化效应后,理论计算和实验测量的量子数亏损之差普遍小于0.01.而对3d4s(1D2)nf2D3/2系列,考虑偶极极化效应后的结果和仅考虑冻结实的结果比较接近,理论计算和实验测量的量子数亏损之差普遍在0.04左右.     

Comparison of 1D, 2D and 3D quench onset simulations

Measured and simulated minimum quench energies (MQE) for short samples are doubtful when estimating disturbance tolerance of an impregnated superconducting magnet. If measurements are performed at liquid cryogen, the cooling provided by the cryogen causes MQE to be high. At a conduction-cooled system, the transverse heat conduction is neglected causing low MQE. Even though these conditions can be artificially brought closer to the ones in an impregnated magnet, it is difficult to estimate by short-sample measurement the MQE of a superconducting coil. These similar difficulties are present at simulations. On the other hand, 1D and 2D measurements and simulations can be used, e.g., to compare wires or consider effect of insulation layer thickness, but according to the results only in a rough quantitative way. In this paper, we compare MQE and normal zone propagation velocity simulations of an MgB₂ wire with 1D, 2D and 3D finite element method models to focus on the different results given by the models employing different dimensions.     

2D and 3D SIMS investigations on sintered steels

Powder metallurgy (PM) is a well-established method for manufacturing ferrous precision parts. Sintering is one of the important production steps and can be strongly enhanced (activated) by formation of a liquid phase during the sintering process. The liquid phase can be reached by the addition of alloying elements (e.g., copper) or sintering activators (e.g., phosphorus) and is formed by melting of eutectic phase mixtures or by incipient melting. The main investigations presented in this work are done by secondary ion mass spectrometry (SIMS): 2D and 3D elemental distribution. Additionally, impact energy and hardness measurements were performed in order to study the influence of phosphorus on mechanical properties. The concentration of P in different samples was varied between 0 and 1 weight percent (wt.%), the carbon content was consistently 0.5 wt.%. Nominal specimens were sintered at 1120 and 1250 °C in protective atmosphere of flowing nitrogen to determine the influence of sintering temperature.     

Polarization singularities in 2D and 3D speckle fields

The 3D structure of randomly polarized light fields is exemplified by its polarization singularities: lines along which the polarization is purely circular (C lines) and surfaces on which the polarization is linear (L surfaces). We visualize these polarization singularities experimentally in vector laser speckle fields, and in numerical simulations of random wave superpositions. Our results confirm previous analytical predictions [M. R. Dennis, Opt. Commun. 213, 201 (2002)] regarding the statistical distribution of types of C points and relate their 2D properties to their 3D structure.     

MRI of normal and abnormal duodenum using Half-Fourier Single-Shot RARE and gadolinium-enhanced spoiled gradient echo sequences.

The objective of this research was two-fold: First, to describe the normal and abnormal MR appearances of the duodenum using combined Half-Fourier Acquisition Single Shot RARE (HASTE) and gadolinium-enhanced standard and fat suppressed spoiled gradient echo (SGE) sequences. The second objective was to assess the ability of these combined sequences to detect and characterize duodenal diseases. MR examinations were performed on fifty consecutive patients with no clinical history of duodenal diseases, who were 1) imaged with HASTE and gadolinium-enhanced standard and fat suppressed SGE sequences and 2) referred to MR examination for reasons other than duodenal diseases, and were reviewed retrospectively to determine the normal MR appearances of the duodenum. A second population of patients with abnormal duodenum who were imaged with the same MR sequences were included in the second part of this study. This population was composed of 20 consecutive patients with subsequently proven duodenal abnormalities, including: malrotation (2), diverticula (4), intussusception (1), sprue (1), polyps (2), neurofibroma (1), lymphoma (1), Zollinger Ellison syndrome (1), metastatic disease (1), Crohn's disease (1), and wall thickening and duodenitis (5). Normal measurements of the duodenum are described. Abnormalities of wall thickness and duodenal masses required combined HASTE and gadolinium-enhanced SGE images to evaluate well. Abnormalities of the bowel lumen (e.g., diverticula and intussusception), and developmental variants (e.g., malrotation), were sufficiently visualized on HASTE images alone. Bowel inflammation was best shown on gadolinium-enhanced fat suppressed SGE images. HASTE and gadolinium-enhanced fat suppressed SGE sequences are complementary techniques for the demonstration of normal and abnormal duodenum. The combined use of both sequences allows evaluation of different aspects of bowel diseases; abnormalities of position, lumen, and contents are well shown on HASTE, while inflammation is best shown on gadolinium enhanced fat suppressed SGE, and wall thickening and masses are best evaluated with the combined use of both techniques.     

Critical conditions for 1D, 2D and 3D magnetic-bipolaron formation

Il Nuovo Cimento D - Interaction of two magnetic polarons formed either by single carriers or by excitons is considered in bulk crystal, quantum well and quantum wire. It is shown that the magnetic...     

Thermal emission properties of 2D and 3D silicon photonic crystals

We present measurements of the thermal emission properties of 2D and 3D silicon photonic crystals with and without substrate heated resistively as well as passively with an aluminium hotplate. The out-of-plane and in-plane emission properties were recorded and compared to numerical simulation. It turned out that for the in-plane 2D photonic crystal and out-of-plane 3D photonic crystal emission a photonic stop gap effect is visible. For the out-of-plane 2D photonic crystal emission, no photonic bandgap effect is observable but instead strong silicon oxide emission from native oxide inside the pores of silicon are observable. A model for the modified thermal emission is presented.     

Interaction between excitons in 3D and 2D laser-excited semiconductors

Analytical expressions of the exciton-exciton interaction in 3D and 2D laser-excited semiconductors are approximately derived in rather easy-to-handle forms which enable us to study in detail their dependences on the exciton momenta, the momentum transferred between two excitons and the electron-hole mass ratio.We would like to thank Prof. Nguyen Van Hieu and Prof. Dao Vong Due for their support given to us in the research of highly excited media.     

二维及三维流场的光学测量方法

对于复杂的非定常流动 ,流场的测量往往要求无干扰、非接触 ,并且能够瞬时记录流场的二维甚至三维信息。对近年来流场测量领域发展快速、应用广泛的几种光学测量方法 ,如 PIV技术及其由此发展而来的 DPIV和 HPV技术 ,做一些介绍和比较。