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Proceedings First International Symposium on Intelligence in Neural and Biological Systems. INBS'95最新文献

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Modeling sensory representations in brain: new methods for studying functional architecture reveal unique spatial patterns 大脑感官表征建模:研究功能建筑的新方法揭示了独特的空间模式
D.R. Roberts, C. Koutsougeras, R. Nudo, C. Cusick
We review experimental methods used to study cortex functional architecture, including the optical imaging technique. Information gained from studies of stimulus evoked brain activity will aid our understanding of sensory coding and information processing in central nervous systems and should be incorporated into biologically plausible models of cortical function.<>
我们回顾了用于研究皮层功能结构的实验方法,包括光学成像技术。从刺激诱发的大脑活动的研究中获得的信息将有助于我们理解中枢神经系统的感觉编码和信息处理,并应纳入生物学上合理的皮层功能模型。
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引用次数: 0
Knowledge-based simulation of regulatory action in lambda phage 基于知识的lambda噬菌体调节作用模拟
T. Shimada, M. Hagiya, M. Arita, S. Nishizaki, C. Tan
We have developed a knowledge-based, discrete-event simulation system to simulate proteins-regulated genetic action in lambda phage. Lambda phage is a kind of virus which infects Escherichia coli (E. Coli). Specifically, we simulate the decision between two developmental pathways, that is, lytic growth and lysogenic growth on such conditions as mutation. The novelty of this work is the employment of two different levels of abstraction in a genetic model for the purpose of achieving greater precision. Our model is composed of a roughly abstracted level for the noncritical parts which constitute most parts of our model, and a precisely abstracted level for the critical parts. In the former level, our model is a discrete-event simulation in qualitative representation on a knowledge-based system. In the latter level, it is based on reaction formulae in quantitative representation.<>
我们已经开发了一个基于知识的,离散事件模拟系统来模拟蛋白质调节的遗传作用在lambda噬菌体。Lambda噬菌体是一种感染大肠杆菌(E. coli)的病毒。具体来说,我们模拟了在突变等条件下两种发育途径,即溶解性生长和溶原性生长之间的决策。这项工作的新颖之处在于,为了达到更高的精度,在遗传模型中使用了两个不同层次的抽象。该模型由非关键部分的粗略抽象层和关键部分的精确抽象层组成,非关键部分构成了模型的大部分。在前一个层次上,我们的模型是基于知识系统的离散事件模拟的定性表示。在后一级,它是基于定量表示的反应公式
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引用次数: 11
DNA evolutionary linguistics and RNA structure modeling: a computational approach DNA进化语言学和RNA结构建模:一种计算方法
T. Yokomori, S. Kobayashi
The authors are concerned with analysing formal linguistic properties of DNA sequences in which a number of the language theoretic analysis on DNA sequences are established by means of computational methods. First, employing a formal language theoretic framework, the authors consider a kind of evolutionary problem of DNA sequences, asking (1) how DNA sequences were initially created and then evolved (grew up) to be a language of certain complexity, and (2) what primitive constructs were minimally required for the process of evolution. In terms of formal linguistic concepts, the authors present several results that provide their views on these questions at a conceptual level. Based on the formal analysis on these biological questions, the authors then choose a certain type of tree generating grammars called tree adjunct grammars (TAG) to attach the problem of modeling the secondary structure of RNA sequences. By proposing an extended model of TAGs, the authors demonstrate the usefulness of the grammars for modeling some typical RNA secondary structures including "pseudoknots", which suggests that TAG families as RNA grammars have a great potential for RNA secondary structure prediction.<>
作者对DNA序列的形式语言性质进行了分析,并利用计算方法建立了一些DNA序列的语言理论分析。首先,采用正式的语言理论框架,作者考虑了一种DNA序列的进化问题,提出了以下问题:(1)DNA序列最初是如何产生的,然后是如何进化(成长)成为一种一定复杂性的语言的;(2)进化过程中最低限度需要哪些原始结构。在形式语言学概念方面,作者提出了几个结果,在概念层面上提供了他们对这些问题的看法。在对这些生物学问题进行形式化分析的基础上,作者选择了一种称为树辅助语法(TAG)的树生成语法来附加RNA序列二级结构的建模问题。通过提出一个扩展的TAG模型,作者证明了该语法对包括“伪结”在内的一些典型RNA二级结构建模的有用性,这表明TAG家族作为RNA语法在RNA二级结构预测方面具有很大的潜力。
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引用次数: 29
KYDON, a self-organized autonomous net: learning model and failure recovery 自组织自治网络KYDON:学习模型与故障恢复
J. S. Mertoguno, G. Bourbakis
In this paper, a learning model and a failure recovery approach of an autonomous vision system multi-layer architecture, called KYDON, are presented. The KYDON architecture consists of "k" layers array processors. The lowest layers compose the KYDON's low level processing group, and the rest compose the higher level processing groups. The interconnectivity of the processors in each array is based on a full hexagonal mesh structure. The lowest layer array processors captures images from the environment by employing a 2-D photoarray. The top most layer deals with the image interpretation and understanding. The intermediate layers perform learning and pattern recognition processes to bridge the image information flow from the bottom most layer to the top most one. KYDON uses graph models to represent and process the knowledge, extracted from the image. An important feature of KYDON is that it does not need any host computer or control processor to handle I/O and other miscellaneous tasks. A novel learning model has been developed for the KYDON's distributed knowledge base.<>
本文提出了一种自主视觉系统多层结构KYDON的学习模型和故障恢复方法。KYDON架构由“k”层阵列处理器组成。最低的层组成KYDON的低级处理组,其余的层组成高级处理组。每个阵列中处理器的互连是基于全六边形网格结构的。最低层阵列处理器通过采用二维光电阵列从环境中捕获图像。最上面的一层处理图像的解释和理解。中间层执行学习和模式识别过程,将图像信息流从最底层连接到最上层。KYDON使用图形模型来表示和处理从图像中提取的知识。KYDON的一个重要特点是它不需要任何主机或控制处理器来处理I/O和其他杂项任务。为KYDON的分布式知识库开发了一种新的学习模型。
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引用次数: 2
Drosophila GRAIL: an intelligent system for gene recognition in Drosophila DNA sequences 果蝇GRAIL:果蝇DNA序列基因识别的智能系统
Ying Xu, G. Helt, J. Einstein, G. Rubin, E. Uberbacher
An AI-based system for gene recognition in Drosophila DNA sequences was designed and implemented. The system consists of two main modules, one for coding exon recognition and one for single gene model construction. The exon recognition module finds a coding exon by recognition of its splice junctions (or translation start) and coding potential. The core of this module is a set of neural networks which evaluate an exon candidate for the possibility of being a true coding exon using the "recognized" splice junction (or translation start) and coding signals. The recognition process consists of four steps: generation of an exon candidate pool, elimination of improbable candidates using heuristic rules, candidate evaluation by trained neural networks, and candidate cluster resolution and final exon prediction. The gene model construction module takes as input the clustered exon candidates and builds a "best" possible single gene model using an efficient dynamic programming algorithm. 129 Drosophila sequences consisting of 441 coding exons including 216358 coding bases were extracted from GenBank and used to build statistical matrices and to train the neural networks. On this training set the system recognized 97% of the coding messages and predicted only 5% false messages. Among the "correctly" predicted exons, 68% match the actual exon exactly and 96% have at least one edge predicted correctly. On an independent test set consisting of 30 Drosophila sequences, the system recognized 96% of the coding messages and predicted 7% false messages.<>
设计并实现了基于人工智能的果蝇DNA序列基因识别系统。该系统由编码外显子识别和单基因模型构建两个主要模块组成。外显子识别模块通过识别其剪接(或翻译起始点)和编码电位来发现编码外显子。该模块的核心是一组神经网络,这些神经网络使用“识别”的剪接连接(或翻译开始)和编码信号来评估候选外显子成为真正编码外显子的可能性。识别过程包括四个步骤:生成候选外显子库,使用启发式规则消除不可能的候选外显子,通过训练的神经网络评估候选外显子,以及候选聚类解析和最终的外显子预测。基因模型构建模块以聚集的候选外显子为输入,使用高效的动态规划算法构建“最佳”可能的单基因模型。从GenBank中提取129条果蝇序列,包括441个编码外显子,216358个编码碱基,用于构建统计矩阵和训练神经网络。在这个训练集上,系统识别了97%的编码信息,只预测了5%的错误信息。在“正确”预测的外显子中,68%的外显子与实际外显子完全匹配,96%的外显子至少有一个边缘预测正确。在一个由30个果蝇序列组成的独立测试集上,该系统识别了96%的编码信息,并预测了7%的错误信息。
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引用次数: 6
Gene classification artificial neural system 基因分类人工神经系统
Cathy H. Wu, Hsi-Lien Chen, Sheng-Chih Chen
A gene classification artificial neural system has been developed for rapid annotation of the molecular sequencing data being generated by the Human Genome Project. Three neural networks have been implemented, one full-scale system to classify protein sequences according to PIR (protein identification resources) superfamilies, one system to classify ribosomal RNA sequences into RDP (ribosomal database project) phylogenetic classes, and one pilot system to classify proteins according to Blocks motifs. The sequence encoding schema involved an n-gram hashing method to convert molecular sequences into neural input vectors, a SVD (singular value decomposition) method to compress vectors, and a term weighting method to extract motif information. The neural networks used were three-layered, feed-forward networks that employed backpropagation or counter-propagation learning paradigms. The system runs faster by one to two orders of magnitude than existing method and has a sensitivity of 85 to 100%. The gene classification artificial neural system is available on the Internet, and may be extended into a gene identification system for classifying indiscriminately sequenced DNA fragments.<>
一个基因分类人工神经系统被开发用于快速标注由人类基因组计划产生的分子测序数据。目前已经实现了三个神经网络,一个全规模的系统根据PIR(蛋白质鉴定资源)超家族对蛋白质序列进行分类,一个系统将核糖体RNA序列分类为RDP(核糖体数据库项目)系统发育类,一个试点系统根据Blocks基序对蛋白质进行分类。序列编码模式采用n-gram哈希法将分子序列转换为神经输入向量,采用奇异值分解(SVD)法压缩向量,采用项加权法提取基序信息。使用的神经网络是三层前馈网络,采用反向传播或反传播学习范式。该系统的运行速度比现有方法快一到两个数量级,灵敏度为85%至100%。基因分类人工神经系统可在互联网上获得,并可扩展为一个基因识别系统,用于对无差别测序的DNA片段进行分类
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引用次数: 32
A genetic algorithm for decomposition type choice in OKFDDs okfdd分解类型选择的遗传算法
R. Drechsler, B. Becker, Nicole Drechsler, A. Jahnke
A genetic algorithm (GA) is applied to find decomposition type lists (DTLs) that minimize the size of ordered Kronecker functional decision diagrams (OKFDDs). OKFDDs are a data structure for representation and manipulation of Boolean functions. The choice of the DTL largely influences the size of the OKFDD, i.e. its size may vary from polynomial to exponential. In Dreschsler, Becker, and Jahnke (1995) heuristic methods have been presented. In this paper the authors show by experiments that better results can be obtained by using GAs.<>
应用遗传算法(GA)寻找分解类型列表(DTLs),使有序Kronecker功能决策图(okfdd)的大小最小。okfdd是一种用于表示和操作布尔函数的数据结构。DTL的选择在很大程度上影响OKFDD的大小,即其大小可能从多项式到指数变化。Dreschsler、Becker和Jahnke(1995)提出了启发式方法。本文通过实验证明,使用GAs可以获得较好的效果。
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引用次数: 3
A neural network model of the cortico-hippocampal interplay: contexts and generalization 皮质-海马相互作用的神经网络模型:背景和概括
A. Bibbig, T. Wennekers, G. Palm
We present computer simulations of a neural network comprising two sensory pathways, each built of preprocessing and associative memory modules perhaps corresponding to a primary and higher sensory area, and a hippocampal area that serves as an integration or fusion zone during learning and retrieval of polymodal information. The network is able to store unimodal details about a complex environment in local assemblies restricted to the corresponding associative memory, whereas a representation of the simultaneous occurrences of several stimuli is constituted and stored in a self-organizing manner in the hippocampal area. This can be viewed as storage of a "particular context". If many stimulus constellations are presented to the network during learning, it may over-learn, that is, the hippocampal area can no longer distinguish particular situations, but instead represents more general contexts or categories, a given environmental situation may belong to. Feedback from the hippocampal region to association areas can restore particular memories; it can still act as a threshold control gate raising sensitivity in the appropriate cortex regions when it is overloaded.<>
我们提出了一个由两个感觉通路组成的神经网络的计算机模拟,每个通路都由预处理和联想记忆模块组成,这些模块可能对应于初级和高级感觉区,以及在学习和检索多模态信息期间作为整合或融合区的海马区。该网络能够将复杂环境的单模态细节存储在局限于相应联想记忆的局部集合中,而同时出现的几种刺激的表征则以自组织的方式构成并存储在海马体区域。这可以看作是“特定上下文”的存储。如果在学习过程中有许多刺激星座呈现给网络,它可能会过度学习,也就是说,海马体区域不再能够区分特定的情况,而是代表更一般的上下文或类别,一个给定的环境情况可能属于。从海马体区域到关联区域的反馈可以恢复特定的记忆;当它过载时,它仍然可以作为一个阈值控制门,提高相应皮质区域的灵敏度。
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引用次数: 4
Hybrid nets with variable parameters: a novel approach to fast learning under backpropagation 变参数混合网络:一种反向传播下快速学习的新方法
Jun Han, C. Moraga
This paper presents a novel approach under regular backpropagation. We introduce hybrid neural nets that have different activation functions for different layers in fully connected feed forward neural nets. We change the parameters of activation functions in hidden layers and output layer to accelerate the learning speed and to reduce the oscillation respectively. Results on the two-spirals benchmark are presented which are better than any results under backpropagation feed forward nets using monotone activation functions published previously.<>
本文提出了正则反向传播下的一种新方法。在全连接前馈神经网络中,我们引入了对不同层具有不同激活函数的混合神经网络。我们通过改变隐藏层和输出层的激活函数参数来加快学习速度和减小振荡。给出了在双螺旋基准上的结果,该结果优于以往使用单调激活函数的反向传播前馈网络的结果。
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引用次数: 2
A new model for the cognitive process. Artificial cognition 认知过程的新模型。人工识别
R. Keene
A theory is presented: that a subsumptive neural system coupled with a semi-randomly connected, teachable, neural net will result in cognitive behavior similar to what appears to happen in biological brains. The paper discusses a new theory of what cognition is, and an algorithm for the simulation of cognition. The topics of what the brain appears to do, why the brain provides the functions it does, and how this could be simulated are discussed. The intent is to arrive at a single unified algorithm that covers all functions of the brain.<>
提出了一种理论:假设神经系统与半随机连接的、可教的神经网络相结合,将导致类似于生物大脑中发生的认知行为。本文讨论了一种新的认知理论,以及一种模拟认知的算法。讨论了大脑看起来在做什么,为什么大脑提供它所做的功能,以及如何模拟这些主题。其目的是得出一种涵盖大脑所有功能的单一统一算法。
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引用次数: 0
期刊
Proceedings First International Symposium on Intelligence in Neural and Biological Systems. INBS'95
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