基于移动Agent技术的医学图像检索方法

针对现有医学图像检索方法中，检索算法速度较慢、准确性较低以及远程检索时占用大量带宽等问题，设计并实现了一种基于移动Agent技术的医学图像检索方法，重点讨论了该方法实现的关键技术，包括提升框架下的M带整数小波变换和提取多通道纹理特征的检索算法．模拟实验结果表明，该方法实时性较强，占用网络带宽较少，采用的算法运算速度提高近10倍、运算复杂度降低约50％，提取的纹理特征能充分表达图像内容，较好地满足了医学图像的检索要求，实现了对医学图像库快速较准确的检索．     

Quantitative High Resolution Electron Microscopy

 With the resolution becoming sufficient to reveal individual atoms, HREM is now entering the stage where it can compete with X-ray methods to quantitatively determine atomic structures of materials without much prior knowledge, but with the advantage of being applicable to aperiodic objects such as crystal defects. In our view the future electron microscope will be characterised by a large versatility in experimental settings under computer control such as the illumination conditions (TEM-STEM), CBED, detecting conditions (diffraction, image, ptychography) and many other tunable parameters such as focus (g), voltage, spherical aberration (C _s ), beam tilt, etc. Since modern detectors can detect single electrons, also the counting statistics is known. The only limiting factor in the experiment will be the total number of electrons that interact with the object during the experiment due to the limitations in the exposure time or in the object damage. However, instrumental potentialities will never be exploited fully if not guided by an experimental strategy. Here intuitive guidelines can be very deceptive. For instance an image made with the best electron microscope (C _s  = 0) at the best focus (g = 0) from the best object (phase object) would show no contrast at all. Hence, questions such as what is the best C _s , focus, object thickness, etc. can only be answered properly if done using a method of experiment design.     

Characteristic polynomial theory of two-stage phase shifting algorithms

Two-stage phase shifting algorithms make possible to directly recover the sum or the difference of the optical phase of two different fringe patterns. These algorithms can be built by combining the known phase shifting algorithms in a non-linear way. In this work, we associate a two-dimensional characteristic polynomial to each two-stage phase shifting algorithm. This enables us to qualitatively compare their behaviour against the main systematic error sources, by means of an analysis protocol like that used for phase shifting algorithms. We show that this tool allows to understand the propagation of properties from precursor phase shifting algorithms to new evaluation algorithms built from them. As an experimental application, a wavefront distortion evaluation in differential phase-shifting interferometry is presented.     

Towards full-resolution inline electron holography

With the availability of fast computers, inline electron holography, a technique for reconstructing both amplitude and phase of the electron wave function as scattered by the sample from a set of differently aberrated transmission electron microscopy images, is becoming increasingly quantitative. While focal series reconstruction from transmission electron microscopy images has already been practiced for at least 3 decades, existing approaches can only recover a relatively small band of spatial frequencies. Here I present a reconstruction scheme which is capable of reconstructing the electron wave function for a very large range of spatial frequencies, demonstrating its performance using simulated as well as experimental data.     

Global Structure-Acute Toxicity Relationships for Mice Using Structural Parameter Ratios: New Approach to Molecular Design and Screening

Abstract

A method for a preliminary survey of the relationship between molecular structure and performance was described using 1506 random data of structure-acute toxicity for mice (intravenously dosed). The structural patterns of the weakest toxic structures (111) were extracted from the data and the patterns discriminated for 64.2% of the other structures (1395). As for the 826 structures of strongest toxicity, 78.3% were discriminated by these structural patterns. These results were obtained by using structural parameter ratios to describe the structural patterns and the exhaustive elimination process to select the best parameter ratio from many candidates. The results were summarized in the form of a chart which can be used for practical screening for the weakest toxic structures.     

Phase retrieval from fringe pattern with 1-D discrete wavelet transform

This paper proposes a novel method to obtain frequency modulation (FM) signals from a single fringe pattern for phase retrieval. First, a 1D discrete Meyer wavelet is employed to decompose the pattern image signal row by row and the soft-thresholding approach is applied to remove noise. The low frequency coefficients of the wavelet decomposition are then set to 0, and the signal is reconstructed. Moreover, the optimal wavelet decomposition level is adaptively determined using a cost function-based method. The reconstructed signal, which no longer contains a background component, is normalized using a nonlinear and piecewise normalization method. The proposed method is faster and more accurate than some other phase retrieval approaches, which is illustrated with two test cases.     

Integrated Access to Genomic and Other Bioinformation: An Essential Ingredient of the Drug Discovery Process

Abstract

Due to the high rate of data production and the need of researchers to have rapid access to new data, public databases have become the major medium through which genome mapping and sequencing data as well as macromolecular structural data are published. There are now more than 250 databases of biomolecular, structural, genetic, or phenotypic data, many of which are doubling in size annually. These databases, many of which were created and are maintained by experimentalists for their own research use, provide valuable collections of organized, validated data. However, the very number and diversity of databases now make efficient data resource discovery as important as effective data resource use. Existing autonomous biological databases contain related data which are more valuable when interconnected than when isolated. Political and scientific realities dictate that these databases will be built by different teams, in different locations, for different purposes, and using different data models and supporting DBMSs. As a consequence, connecting the related data they contain is not straightforward. Experience with existing biological databases indicates that it is possible to form useful queries across these databases, but that doing so usually requires expertise in the semantic structure of each source database. Advancing to the next level of integration among biological information resources poses significant technical and sociological challenges.     

Avoiding problems with hydrogen misplacement in reporting crystal structures

Intermolecular hydrogen bonding is an integral part of many crystal structures. Hydrogen bonding sometimes results in one‐, two‐ or three‐dimensional supramolecular assemblies, a common feature of which is positional disorder of H atoms related to space‐group symmetry. Yet some reported structures fail to include all possible donor–acceptor close contacts, or to seek H‐atom electron densities associated with apparent D—H...A trios, while some H‐atom positions violate principles of chemistry or crystal physics. Modern diffraction equipment and sophisticated computing systems provide high‐quality data; thus, failure to characterize and report fully an accurate, complete and physically correct hydrogen‐bonding model should not be acceptable. We illustrate the relevant issues with three published examples in the hope of slowing the proliferation of these problems, with the scientifically desirable goal of improving the accuracy of crystallographic models while also providing improved search keys for information retrieval.     

基于瑞利-索末菲积分的大衍射角衍射光学元件设计方法

针对现有的衍射光学元件设计方法只适用于小角度衍射的情况,本文提出了一种基于瑞利-索末菲衍射积分的设计方法,可以用来设计具有大衍射角的衍射光学元件。先对目标光场进行坐标变换和强度调整,再利用改进的Gerchberg-Saxton算法优化得到衍射光学元件的相位分布。分别采用本文方法和原有的基于夫琅禾费衍射积分的方法设计衍射光学元件实现线条结构光和不同角度方框图形的光场重构,结果表明:原有的设计方法只适用于衍射角全角小于25°的情况,当衍射角大于25°时,重构光场会出现显著的枕形畸变和不均匀的强度分布。而本文方法在小角度和大角度衍射下都能重构出准确的衍射角和较为均匀的强度分布.     

Determining the micro-optical element surfaces profiles using transmission deflectometry with liquids

We propose a method for simultaneously measuring the front and back surface profiles of transparent optical components. The proposed method combines dual wavelength transmission deflectometry with liquids to record distorted phases at different wavelengths, and then numerically reconstructs the three-dimensional phase information to image the front and back surfaces of the lens. We propose a theoretical model to determine the surface information, and the imaging of achromatic lenses is experimentally demonstrated. Unlike conventional transmission deflectometry, our proposed method supports direct observation of the front and back surface profiles of the optical elements. Compared with other techniques such as interferometry, the proposed setup is simpler to align, has lower cost, and does not require coherent illumination. The proposed method can be applied to normal transmission deflectometry for determining the three-dimensional surface profiles of optical components.