带有停滞检测的蚁群算法在2D HP格点模型中的应用

为了提高蛋白质折叠结构预测的求解效率,针对2D HP格点模型,研究蚁群ACO(Ant Colony Optimization)算法在该问题上的应用。采用四元组表示绝对的折叠方向,并建立构象和解的一一对应关系。通过实验对算法各阶段的常用策略、方法进行比较分析。为了防止搜索陷入停滞,引入位置信息素停滞比和序列信息素停滞比两个参数,使用一种新的停滞检测机制。实验结果表明,改进的算法在保证预测质量的前提下,显著地提升了收敛速度。     

改进二进制量子粒子群算法在蛋白质折叠中的应用*

为了改善已有二维HP模型蛋白质折叠算法容易陷入局部最优、找不到理论最低能量构象的缺点,提出一种基于变异算子的改进二进制量子粒子群算法。采用二进制编码蛋白质序列,提出变异策略,并采用惩罚因子避免出现蛋白质重叠,最后将该算法应用于蛋白质序列进行测试。测试结果表明,改进算法能够找到更优的结果,算法具有一定的实用性和有效性。     

求解蛋白质折叠构形预测问题的PERM改进算法

PERM算法用来求解蛋白质折叠构形预测问题具有非常高的效率。本文介绍了PERM算法的思想，并详细介绍了一种我们改进的PERM算法。使用该算法求解蛋白质折叠构形预测的二维HP格点模型取得了相当好的计算结果。     

进化策略的一种改进及其在蛋白质结构预测中的应用

进化策略算法是一种模拟自然界生物进化过程的全局优化方法。本文将一种改进的进化策略算法应用于蛋白质三维HPNX非格模型,较成功地预测了蛋白质序列1RPB、1BPI和1UBQ的折叠趋势,说明了三维HPNX非格模型比简化HP非格模型更能准确地描述蛋白质的折叠情况,同时表明了进化策略算法用于蛋白质结构预测问题是可行的、有效的。     

改进的蚁群算法求解蛋白质折叠问题

针对蛋白质折叠问题的二维格点模型(2DHP)提出了一种改进的蚁群算法(ACO).受链生长型算法Pruned-Enriched Rosenbluth Mvthod(PERM)的启发,在计算迹的时候增加了一个新的信息量,使得改进后的蚁群算法具有较快的收敛速度,同时采用基于极值动力学的优化方法(EO)进行局部搜索.求解基准实例的结果表明,该算法能够在保证解质量的前提下能大大缩短计算时间.     

格子模型中蛋白质折叠的有效运动集

改进的遗传算法应用格子模型的一种新的运动集来优化蛋白质折叠过程。该新的运动集包含所有对称构象以及传统的运动模式，使其更适用于蛋白质折叠模拟。通过在格子模型中的实验我们发现，利用新的运动集明显优于传统使用的运动集。改进的遗传算法是一种进化算法，该算法适合搜索任何HP序列。     

Toy模型蛋白质折叠问题的随机扰动粒子群解法

Toy模型蛋白质折叠问题是一个计算生物学中典型的NP难题。提出了一种随机扰动粒子群结合爬山优化的算法,应用二维Toy模型进行蛋白质折叠结构预测,在Fibonacci测试序列及真实蛋白质序列上的测试结果验证了算法的良好性能。     

蛋白质折叠问题的蚁群优化算法研究

蛋白质是一类重要的生物大分子,在生物体内占有特殊的地位,是生命的主要承担者。而研究蛋白质的折叠,是生命科学领域的前沿课题之一。在概述蚁群算法及2D HP蛋白质模型的基础上,针对蛋白质折叠问题提出一种蚁群优化算法,并用几个比较典型的模型对其进行仿真实验,结果表明该蚁群优化算法在求解蛋白质折叠问题时表现出了良好的性能。实践表明该算法具有很高的应用价值。     

一种禁忌搜索算法在二维HP非格模型中的应用

禁忌搜索算法是一种启发式的全局优化算法,是局部搜索算法的一种推广,已被成功地应用于许多组合优化问题,本文探讨将一种记忆的禁忌搜索算法应用于求解蛋白质结构预测问题。文中首先介绍了一种二维HP非格模型,此模型最后可以归结为一个全局优化问题,然后介绍了记忆的禁忌搜索算法在其中的应用,通过与PERM（Pruned—Enriched—Rosenbluth Method）比较,发现禁忌算法能得到较好的实验结果,经分析发现虽然二维HP非格模型很简单,但却能反映蛋白质结构的一些简单的性质,即在蛋白质结构中,疏水性氨基酸形成束,总是被极性氨基酸包围。数值实验表明该算法对于蛋白质结构预测是可行有效的。     

基于ACO优化SVM参数的蛋白质耐热性预测

氨基酸含量是影响蛋白质耐热性的主要因素,为了提高以氨基酸含量为特征向量的蛋白质耐热性预测的精度和预测模型的性能,提出了一种基于机器学习蚁群算法(ACO)优化支持向量机(SVM)参数的蛋白质耐热性预测方法。建立了SVM参数优化模型,探讨了基于网格划分策略的连续蚁群算法,通过对SVM的惩罚因子和径向基核函数的全局搜索,筛选出最优参数,使SVM的蛋白质耐热性预测率最优。结果表明:采用未优化的SVM建立的预测模型的蛋白质耐热性总预测率相对较低,约为76.5%,采用遗传算法优化预测模型参数后的预测率约为86.6%,采用ACO优化预测模型参数后预测率达到87.8%。采用ACO优化的SVM模型参数的寻优速度快,预测结果准确。     

煤矿井下安全监控分站的设计及其仿真实现

为了设计一种具有低成本、低功耗、易操作、功能强且可靠性高的煤矿井下安全分站,针对煤矿安全生产实际,文章提出了采用MCS-51系列单片机为核心、具有CAN总线通信接口的煤矿井下安全监控分站的设计方案;首先给出煤矿井下安全监控分站的整体构架设计,然后着重阐述模拟量输入信号处理系统的设计过程,最后说明单片机最小系统及其键盘、显示、报警、通信等各个组成部分的设计;为验证设计方案的可行性与有效性,使用Proteus软件对设计内容进行仿真验证,设计的煤矿井下安全监控分站具有瓦斯、温度等模拟量参数超标报警功能和电机开停、风门开闭等开关量指示功能;仿真结果表明:设计的煤矿井下安全监控分站具有一定的实际应用价值.     

View-based model-driven architecture for enhancing maintainability of data access services

In modern service-oriented architectures, database access is done by a special type of services, the so-called data access services (DAS). Though, particularly in data-intensive applications, using and developing DAS are very common today, the link between the DAS and their implementation, e.g. a layer of data access objects (DAOs) encapsulating the database queries, still is not sufficiently elaborated, yet. As a result, as the number of DAS grows, finding the desired DAS for reuse and/or associated documentation can become an impossible task. In this paper we focus on bridging this gap between the DAS and their implementation by presenting a view-based, model-driven data access architecture (VMDA) managing models of the DAS, DAOs and database queries in a queryable manner. Our models support tailored views of different stakeholders and are scalable with all types of DAS implementations. In this paper we show that our view-based and model driven architecture approach can enhance software development productivity and maintainability by improving DAS documentation. Moreover, our VMDA opens a wide range of applications such as evaluating DAS usage for DAS performance optimization. Furthermore, we provide tool support and illustrate the applicability of our VMDA in a large-scale case study. Finally, we quantitatively prove that our approach performs with acceptable response times.     

A pragmatic multi-method investigation of discrepant technological events: Coping,attributions, and ‘accidental’ learning

Discrepant technological events or situations that entail a problem, a misunderstanding or a difficulty with the Information Technology (IT) being employed, are common in the workplace, and can lead to frustration and avoidance behaviors. Little is known, however, about how individuals cope with these events. This paper examines these events by using a multi-method pragmatic approach informed by coping theory. The results of two studies – a critical incident study and an experiment – serve to build and test, respectively, a theoretical model that posits that individuals use a variety of strategies when dealing with these events: they experience negative emotions, make external attributions, and adopt engagement coping strategies directed at solving the event, eventually switching to a disengagement coping strategy when they feel they have no control over the situation. Furthermore, users’ efforts may result in ‘accidental’ learning as they try to overcome the discrepant IT events through engagement coping. The paper ends with a discussion of the results in light of existing literature, future opportunities for research, and implications for practice.     

The Distributed Time-Triggered Simulation Scheme: Core Principles and Supporting Execution Engine

Distributed real-time simulation is a young technology field but its practice is under increasing demands. In recent years the author and his collaborators have been establishing a new approach called the distributed time-triggered simulation (DTS) scheme which is conceptually simple and easy to use but widely applicable. The concept was initiated in the course of developing a new-generation object-oriented real-time programming scheme called the time-triggered message-triggered object (TMO) programming scheme. Some fundamental issues inherent in distributed real-time simulation that were learned during recent experimental studies are discussed along with some approaches for resolving the issues. An execution engine developed to support both the TMOs engaged in control computation and the TMOs engaged in DTS is also discussed along with its possible extensions that will enable significantly larger-scale DTSs.     

Software-Konfigurationsmanagement in großen Softwareprojekten

Zusammenfassung Mit zunehmender Größe der Softwaresysteme verschärfen sich die für die Software-Herstellung typischen Probleme: Beherrschen großer Objektmengen, Erhalten der Systemkonsistenz, Kontrolle der ständigen Änderungseinflüsse und Gewährleisten einer langen Lebensdauer. Die Disziplin Konfigurationsmanagement bildet den methodischen Ansatz, diese Probleme besser zu beherrschen. Software-Konfigurationsmanagement faßt die Herstellung von Softwaresystemen als eine Abfolge von kontrollierten Änderungen an gesicherten Zwischen- und Endergebnissen auf. Dargestellt werden die Objekte und Funktionen des Software-Konfigurationsmanagements sowie die hierfür in großen Software-Projekten benötigten Methoden, Instanzen und Hilfsmittel.     

Information for Authors

正http://www.zju.edu.cn/jzus http://www.springerlink.com Aim The Journals of Zhejiang University-SCIENCE(A/B/C)are edited by the international board of distinguished Chinese and foreign scientists,and are aimed to present the latest developments and achievements in scientific research in China and     

Editorial:Brain-machine interface(BMI) and cyborg intelligence

正Brain-machine interfaces(BMIs)aim at building a direct communication pathway between the brain and an external device,and represent an area of research where significant progress has been made during the past decade.Based on BMIs,mind information can be read out by neural signals to control     

Information for Authors

正http://www.zju.edu.cn/jzus http://www.springerlink.com Aim The Journals of Zhejiang University-SCIENCE(A/B/C)are edited by the international board of distinguished Chinese and foreign scientists,and are aimed to present the latest developments and achievements in scientific research in China and overseas to the world’s scientific circles,especially to stimulate     

SCIENCE CHINA Information Sciences SUBJECT INDEX TO VOLUME 57(2014)

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Information for Authors

正http://www.zju.edu.cn/jzus http://www.springerlink.com Aim The Journals of Zhejiang University-SCIENCE(A/B/C)are edited by the international board of distinguished Chinese and foreign scientists,and are aimed to present the latest developments and achievements in scientific research in China and overseas to the world’s scientific circles,especially to stimulate