TargetATPsite: A template‐free method for ATP‐binding sites prediction with residue evolution image sparse representation and classifier ensemble

Understanding the interactions between proteins and ligands is critical for protein function annotations and drug discovery. We report a new sequence‐based template‐free predictor (TargetATPsite) to identify the Adenosine‐5′‐triphosphate (ATP) binding sites with machine‐learning approaches. Two steps are implemented in TargetATPsite: binding residues and pockets predictions, respectively. To predict the binding residues, a novel image sparse representation technique is proposed to encode residue evolution information treated as the input features. An ensemble classifier constructed based on support vector machines (SVM) from multiple random under‐samplings is used as the prediction model, which is effective for dealing with imbalance phenomenon between the positive and negative training samples. Compared with the existing ATP‐specific sequence‐based predictors, TargetATPsite is featured by the second step of possessing the capability of further identifying the binding pockets from the predicted binding residues through a spatial clustering algorithm. Experimental results on three benchmark datasets demonstrate the efficacy of TargetATPsite. © 2013 Wiley Periodicals, Inc.     

Signal moments for the short‐time Fourier transform associated with Hardy–Sobolev derivatives

The short‐time Fourier transform has been shown to be a powerful tool for non‐stationary signals and time‐varying systems. This paper investigates the signal moments in the Hardy–Sobolev space that do not usually have classical derivatives. That is, signal moments become valid for non‐smooth signals if we replace the classical derivatives by the Hardy–Sobolev derivatives. Our work is based on the extension of Cohen's contributions to the local and global behaviors of the signal. The relationship of the moments and spreads of the signal in the time, frequency and short‐time Fourier domain are established in the Hardy–Sobolev space. Copyright © 2014 John Wiley & Sons, Ltd.     

Synthesis,Aromaticity, and Application of peri-Pentacenopentacene: Localized Representation of Benzenoid Aromatic Compounds

We report the synthesis and optoelectronic properties of TIPS-peri-pentacenopentacene ( TIPS-PPP ), a vertical extension of TIPS-pentacene ( TIPS-PEN ) and a low-band-gap material with remarkable stability. We found the synthetic conditions to avoid the competition between 1,2- and 1,4-addition of lithium acetylide on the large aromatic dione. The high stability of TIPS-PPP is due to the peri-fusion which increases the aromaticity by generating two localized aromatic sextets that are flanked with 2 diene fragments, similar to two fused-anthracenes. Like TIPS-PEN , TIPS-PPP shows the archetypal 2D brickwall motif in crystals with a larger transfer integral and smaller reorganization energy. The high mobility of up to 1 cm² V^?1 s^?1 was obtained in an organic field-effect transistor fabricated by a wet process. Also, TIPS-PPP was used as a near-infrared (NIR) emitter for NIR organic-light-emitting-diode devices resulting in a high external quantum efficiency at 800 nm.     

Non-integrability vs. integrability in pentagram maps

We revisit recent results on integrable cases for higher-dimensional generalizations of the 2D pentagram map: short-diagonal, dented, deep-dented, and corrugated versions, and define a universal class of pentagram maps, which are proved to possess projective duality. We show that in many cases the pentagram map cannot be included into integrable flows as a time-one map, and discuss how the corresponding notion of discrete integrability can be extended to include jumps between invariant tori. We also present a numerical evidence that certain generalizations of the integrable 2D pentagram map are non-integrable and present a conjecture for a necessary condition of their discrete integrability.     

The minimal dimensions of faithful representations for Heisenberg Lie superalgebras

This paper aims to determine the minimal dimensions and super-dimensions of faithful representations for Heisenberg Lie superalgebras over an algebraically closed field of characteristic zero.     

扩散过程中弱相干光场的退相干

研究了扩散过程中弱相干光场量子特性的演化.利用正规乘积、反正规乘积和Weyl编序算符内的积分技术,采用热纠缠态表象求解密度矩阵主方程,利用Kraus算符给出扩散过程中密度算符解的表达式,导出初态为弱相干态的量子态密度算符演化规律.讨论了扩散对光场压缩效应和反聚束效应的影响.结果表明:随着扩散过程的进行,弱相干场压缩深度和压缩范围均在减小;扩散初期光场呈反聚束效应,扩散时间大于一定值后反聚束效应消失.     

化学知识三重表征的话语意义探析*

基于科学哲学和语言学理论,强调化学学科中的三重表征的话语意义,旨在帮助学生将头脑中的三重表征思维用语言科学地表达出来并进行社会性交往。在明确三重表征与话语的关系的基础上,借助于相关教学片段,对三重表征的话语意义(语法学、语义学和语用学意义)进行探析,将宏观微观符号表征中各自的语言内部联系以及彼此间的话语表达关系解构出来,从而全面提升学生在建构、关联及转换表征过程中的交往效率。最后针对相关教学问题,提出了3条教学策略。     

Reduced eigensystem representation of the linear density-density response function

The linear density-density response function represents a formulation of the generalized density response of a molecular (or extended) system to arbitrary perturbing potentials. We have recently established an approach for reducing the dimension of the (in principle infinite) eigenspace representation (the moment expansion) and generalized it to arbitrary self-adjoint, positive-definite, and compact linear operators. Here, we present a modified representation—the reduced eigensystem representation—which allows to define a trivial criterion for the convergence of the approximation to the density response. By means of this novel eigensystem-like structure, the remarkable reduction of the dimensionality becomes apparent for the calculation of the density-density response function.     

基于概率密度演化的输电塔-线体系抗风可靠性分析

以三线两塔直线段输电塔-线体系为工程对象,应用有限元数值模拟,建立了基于概率密度演化的输电塔-线体系抗风可靠性分析方法。首先,应用谱表示-降维方法模拟结构脉动风场,生成风荷载的代表性样本集合。然后,结合概率密度演化理论,分析了输电塔-线体系考虑气弹效应的随机动力反应。最后,应用等价极值思想构建了风荷载作用下输电塔-线体系失效准则,进而对输电塔-线体系的抗风可靠性进行精细化分析。本文结合谱表示-降维方法与概率密度演化理论,实现了仅用较少数量的代表性样本来精细地分析结构的抗风可靠性,为工程实践提供参考。