Comparison of Physical Adsorption and Covalent Coupling Methods for Surface Density-Dependent Orientation of Antibody on Silicon

The orientation of antibodies, employed as capture molecules on biosensors, determines biorecognition efficiency and bioassay performance. In a previous publication we demonstrated for antibodies attached covalently to silicon that an increase in their surface amount Γ, evaluated with ellipsometry, induces changes in their orientation, which is traced directly using Time-of-Flight Secondary Ion Mass Spectroscopy combined with Principal Component Analysis. Here, we extend the above studies to antibodies adsorbed physically on a 3-aminopropyltriethoxysilane (APTES) monolayer. Antibodies physisorbed on APTES (0 ≤ Γ ≤ 3.5 mg/m²) reveal the Γ ranges for flat-on, side-on, and vertical orientation consistent with random molecular packing. The relation between orientation and Γ is juxtaposed for silicon functionalized with APTES, APTES modified with glutaraldehyde (APTES/GA) and N-hydroxysuccinimide-silane (NHS-silane). Antibody reorientation occurs at lower Γ values when physisorption (APTES) is involved rather than chemisorption (APTES/GA, NHS-silane). At high Γ values, comparable proportions of molecules adapting head-on and tail-on vertical alignment are concluded for APTES and the NHS-silane monolayer, and they are related to intermolecular dipole–dipole interactions. Intermolecular forces seem to be less decisive than covalent binding for antibodies on the APTES/GA surface, with dominant head-on orientation. Independently, the impact of glutaraldehyde activation of APTES on vertical orientation is confirmed by separate TOF-SIMS measurements.     

From Chaos to Ordering: New Studies in the Shannon Entropy of 2D Patterns

Properties of the Voronoi tessellations arising from random 2D distribution points are reported. We applied an iterative procedure to the Voronoi diagrams generated by a set of points randomly placed on the plane. The procedure implied dividing the edges of Voronoi cells into equal or random parts. The dividing points were then used to construct the following Voronoi diagram. Repeating this procedure led to a surprising effect of the positional ordering of Voronoi cells, reminiscent of the formation of lamellae and spherulites in linear semi-crystalline polymers and metallic glasses. Thus, we can conclude that by applying even a simple set of rules to a random set of seeds, we can introduce order into an initially disordered system. At the same time, the Shannon (Voronoi) entropy showed a tendency to attain values that are typical for completely random patterns; thus, the Shannon (Voronoi) entropy does not distinguish the short-range ordering. The Shannon entropy and the continuous measure of symmetry of the patterns demonstrated the distinct asymptotic behavior, while approaching the close saturation values with the increase in the number of iteration steps. The Shannon entropy grew with the number of iterations, whereas the continuous measure of symmetry of the same patterns demonstrated the opposite asymptotic behavior. The Shannon (Voronoi) entropy is not an unambiguous measure of order in the 2D patterns. The more symmetrical patterns may demonstrate the higher values of the Shannon entropy.     

二维多群辐射输运程序LARED-R-1的并行化

利用有向图描述数据依赖关系,应用已有的并行流水线通量扫描算法,实现基于非协调网格的二维辐射输运程序LARED-R-1的并行化.同时,采用消息缓冲技术提高并行程序的性能.经测试,对于典型的问题规模(100群、3800个网格单元、40个方向),在某并行机的64个和128个处理器上,并行程序分别获得80%和53%的并行效率.     

Scattering Matrix Modeling of Photon Migration in Turbid Media

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Geometry of random sequential adsorption

By sequentially adding line segments to a line or disks to a surface at random positions without overlaps, we obtain configurations of the one- and two-dimensional random sequential adsorption (RSA) problem. We have simulated the one- and two-dimensional problem with periodic boundary condition. The one-dimensional simulations are compared with the exact analytical solutions to give an estimate of the accuracy of the simulation. In two dimensions the geometrical properties of the RSA configuration are discussed and in addition known results of the RSA process are reproduced. Various statistical distributions of the Voronoi-Dirichlet (VD) network corresponding to the RSA disk configuration are analyzed. In order to characterize pores in the RSA configuration, we introduce circular holes. There is a direct correspondence between vertices of the VD network and these holes, and also between direct/indirect geometrical neighbors and these holes. The hole size distribution is found to be a parabola. We also find general relations that connect the asymptotic behavior of the surface coverage, the correlation function, and the hole size distribution.     

The spherical-model limit in a random field

The spherical-model limitn of then-vector model in a random field, with either a statistically independent distribution or with long-range correlated random fields, is studied to demonstrate the correctness of the replica method in which then and replica limits limits are interchanged, provided the replica and thermodynamic limits are taken in the right order, in the case of long-range correlated random fields. A scaling form for the two-point correlation function relevant to the first-order phase transition below the lower critical dimensionality of the random system is also obtained.     

Effect of random density irregularities on nonlinear evolution of Langmuir waves in interplanetary medium

The evolution of nonlinear Langmuir waves in the interplanetary medium is investigated by appropriately accounting for the random density irregularities of the medium. A pair of modified Zakharov equations, which describe these waves, is solved numerically as an initial value problem for large scale (≫ 10² km) initial pertubations. For an ion acoustic-Langmuir solitary wave, the random irregularities damp the Langmuir wave by way of scattering and let the ion density perturbation radiate away in a few days. However an initial solitary or shock-like Langmuir wave excites the ion density perturbations within a fraction of a second, and then itself gets damped. These effects will strongly decelerate the collapse of large scale Langmuir waves. The possibility of detecting these processes, by means of interplanetary scintillation, is discussed. The authors felicitate Prof. D S Kothari on his eightieth birthday and dedicate this paper to him on this occasion.     

Rate processes on fractals: Theory,simulations, and experiments

Heterogeneous kinetics are shown to differ drastically from homogeneous kinetics. For the elementary reaction A + A products we show that the diffusion-limited reaction rate is proportional tot ^– h[A]² or to [A]^x, whereh=1- d _s/2, X=1+2/d _s =(h-2)(h-1), andd _s is the effective spectral dimension. We note that ford = d _s =1, h =1/2 andX = 3, for percolating clustersd _s = 4/3,h = 1/3 andX = 5/2, while for dust ds <1, 1 >h > 1/2 and >X > 3. Scaling arguments, supercomputer simulations and experiments give a consistent picture. The interplay of energetic and geometric heterogeneity results in fractal-like kinetics and is relevant to excitation fusion experiments in porous membranes, films, and polymeric glasses. However, in isotopic mixed crystals, the geometric fractal nature (percolation clusters) dominates.     

Fast vectorized algorithm for the Monte Carlo simulation of the random field Ising model

An algorithm for the simulation of the 3-dimensional random field Ising model with a binary distribution of the random fields is presented. It uses multi-spin coding and simulates 64 physically different systems simultaneously. On one processor of a Cray YMP it reaches a speed of 184 million spin updates per second. For smaller field strength we present a version of the algorithm that can perform 242 million spin updates per second on the same machine.     

基于随机效应Wiener退化模型的剩余寿命预测

针对退化率较高的产品具有不稳定的退化路径以及产品个体差异对退化过程的影响,建立了一种新的随机效应退化模型,即漂移参数和扩散参数均为随机变量且两者之间呈线性关系的Wiener退化过程模型.基于该模型获得了产品剩余寿命分布与可靠度函数,同时设计了估计模型参数的EM（expectation maximization）算法.最后,通过分析钛合金疲劳裂纹数据以及与现有模型结果的比较,验证了所建模型的有效性和准确性.