MolBioART: Molecular Biological ART for Drug Discovery

The adaptive resonance theory 2 (ART2) neural network exhibits several properties which can be useful in the data mining and which are lacking in most other neural networks. But ART2 has deficiencies that the categories clustered by ART2 are very mutable to slight changes in training conditions. An improved ART2 with enhanced triplex matching mechanism, named as ETM-ART2, is presented to redress the deficiencies. Several tests results show that ETM-ART2 performs better than classic ART2 when applied to clustering tasks. It is an effective improved algorithm and can be applied to a wide variety of problems.

Photometric clustering of regenerated plants of gladiolus by neural networks and its biological validation

This study presents a simplified fuzzy ARTMAP (SFAM) for different classification applications. The proposed SFAM model is synergy of fuzzy logic and adaptive resonance theory (ART) neural networks. SFAM is supervised network consisting of two layers (Fuzzy ART and Inter ART) that build constant classification groups in answer to series of input patterns. Fuzzy ART layer takes a series of input patterns and relate them to output classes. Inter ART layer functions in such a way that it raises the vigilance parameter of fuzzy ART layer. By combining this two layers, SFAM is capable to perform classification very efficiently and giving very high performances. Lastly, the SFAM model is applied to different simulations. The simulation results obtained for the three different datasets: Iris, Wisconsin breast cancer and wine dataset prove that SFAM model has better performance results than other models for these classification applications.

The internal representation of the categories in Adaptive Resonance Theory (ART) neural networks can greatly affect the quality and compactness of the discovered clusters. Dual vigilance thresholds have been shown to yield a significant improvement in Fuzzy ART performance and allow it to retrieve arbitrarily shaped clusters while maintaining the important advantage of a simple architecture and implementation. In this study, we examine the use of Hypersphere ART within the same dual vigilance architecture, thereby presenting the Dual Vigilance Hypersphere ART (DVHA). We conduct an extensive comparison between 6 different ART-based approaches across a set of 30 benchmark datasets, using two different input ordering methods and 30 repeated runs. We find that DVHA ranks better than Dual Vigilance Fuzzy ART (DVFA) on average for many datasets, both in terms of performance and network compactness. Furthermore, although another multi-category-based architecture showed statistically superior results when the inputs are shuffled, we found no statistical difference in performance when the input was pre-processed using the visual assessment of cluster tendency (VAT), while generally being much simpler to implement and less computationally demanding. These findings make DVHA a viable alternative to its Fuzzy ART counterpart, and a simpler alternative to the other studied multi-category-based approaches in cases where resources are limited, such as embedded and hardware-based applications, provided that the input can be preprocessed using VAT.

An efficient approach for electric load forecasting using distributed ART (adaptive resonance theory) & HS-ARTMAP (Hyper-spherical ARTMAP network) neural network

Hierarchical clustering is an important and powerful but computationally extensive operation. Its complexity motivates the exploration of highly parallel approaches such as Adaptive Resonance Theory (ART). Although ART has been implemented on GPU processors, this paper presents the first hierarchical ART GPU implementation we are aware of. Each ART layer is distributed in the GPU's multiprocessors and is trained simultaneously. The experimental results show that for deep trees, the GPU's performance advantage is significant.

This study introduces and examines the principle of accentuation as a novel mechanism in perceptual organization, analyzing its effects through the framework of Grossberg’s Adaptive Resonance Theory (ART). We demonstrate that localized accentuators, manifesting as minimal dissimilarities or discontinuities, can significantly modulate global perceptions, inducing illusions of geometric distortion, orientation shifts, and apparent motion. Through a series of phenomenological experiments, we establish that accentuation can supersede classical Gestalt principles, influencing figure-ground segregation, shape perception, and lexical processing. Our findings suggest that accentuation functions as an autonomous organizing principle, leveraging salience-driven attentional capture to generate perceptual effects. We then apply the ART model to elucidate these phenomena, focusing on its core constructs of complementary computing, boundary–surface interactions, and resonant states. Specifically, we show how accentuation-induced asymmetries in boundary signals within the boundary contour system (BCS) can propagate through laminar cortical circuits, biasing figure-ground assignments and shape representations. The interaction between these biased signals and top–down expectations, as modeled by ART’s resonance mechanisms, provides a neurally plausible account for the observed illusions. This integration of accentuation effects with ART offers novel insights into the neural substrates of visual perception and presents a unifying theoretical framework for a diverse array of perceptual phenomena, bridging low-level feature processing with high-level cognitive representations.

Adaptive Resonance Theory (ART) neural networks model real-time prediction, search, learning, and recognition. ART networks function both as models of human cognitive information processing [1,2,3] and as neural systems for technology transfer [4]. A neural computation central to both the scientific and the technological analyses is the ART matching rule [5], which models the interaction between top-down expectation and bottom-up input, thereby creating a focus of attention which, in turn, determines the nature of coded memories. Sites of early and ongoing transfer of ART-based technologies include industrial venues such as the Boeing Corporation [6] and government venues such as MIT Lincoln Laboratory [7]. A recent report on industrial uses of neural networks [8] states: ”[The] Boeing ... Neural Information Retrieval System is probably still the largest-scale manufacturing application of neural networks. It uses [ART] to cluster binary templates of aeroplane parts in a complex hierarchical network that covers over 100,000 items, grouped into thousands of self-organised clusters. Claimed savings in manufacturing costs are in millions of dollars per annum.” At Lincoln Lab, a team led by Waxman developed an image mining system which incorporates several models of vision and recognition developed in the Boston University Department of Cognitive and Neural Systems (BU/CNS). Over the years a dozen CNS graduates (Aguilar, Baloch, Baxter, Bomberger, Cunningham, Fay, Gove, Ivey, Mehanian, Ross, Rubin, Streilein) have contributed to this effort, which is now located at Alphatech, Inc. Customers for BU/CNS neural network technologies have attributed their selection of ART over alternative systems to the model’s defining design principles. In listing the advantages of its THOT(r) technology, for example, American Heuristics Corporation (AHC) cites several characteristic computational capabilities of this family of neural models, including fast on-line (one-pass) learning, “vigilant” detection of novel patterns, retention of rare patterns, improvement with experience, ”weights [which] are understandable in real world terms,” and scalability (www.heuristics.com). Design principles derived from scientific analyses and design constraints imposed by targeted applications have jointly guided the development of many variants of the basic networks, including fuzzy ARTMAP [9], ART-EMAP [10], ARTMAP-IC [11], Gaussian ARTMAP [12], and distributed ARTMAP [3,13]. Comparative analysis of these systems has led to the identification of a default ARTMAP network, which features simplicity of design and robust performance in many application domains [4,14]. Selection of one particular ARTMAP algorithm is intended to facilitate ongoing technology transfer. The default ARTMAP algorithm outlines a procedure for labeling an arbitrary number of output classes in a supervised learning problem. A critical aspect of this algorithm is the distributed nature of its internal code representation, which produces continuous-valued test set predictions distributed across output classes. The character of their code representations, distributed vs. winner-take-all, is, in fact, a primary factor differentiating various ARTMAP networks. The original models [9,15] employ winner-take-all coding during training and testing, as do many subsequent variations and the majority of ART systems that have been transferred to technology. ARTMAP variants with winner-take-all (WTA) coding and discrete target class predictions have, however, shown consistent deficits in labeling accuracy and post-processing adjustment capabilities. The talk will describe a recent application that relies on distributed code representations to exploit the ARTMAP capacity for one-to-many learning, which has enabled the development of self-organizing expert systems for multi-level object grouping, information fusion, and discovery of hierarchical knowledge structures. A pilot study has demonstrated the network’s ability to infer multi-level fused relationships among groups of objects in an image, without any supervised labeling of these relationships, thereby pointing to new methodologies for self-organizing knowledge discovery.

We combine neural networks (NNs) and hidden Markov models (HMMs) techniques in order to obtain the lithology identification of wells situated in the Triasic province (Sahara). For the same aim, two systems based on adaptive resonance theory (ART), ART1 and fuzzy ART, are also developed. Our objective is to facilitate the work of the geological experts by permitting them to obtain quickly the structure and the nature of lands around the drilling. Lithology identification supplies qualitative information about rocks. Lithofacies represent rock textures and are important components of hydrocarbon reservoir characterisation. In this paper, we show that it is interesting to combine the respective capacities of the HMMs and NNs to produce a new effective hybrid models that draw their source in the two formalisms and can provide us a more reliable reservoir model. Comparisons are established to show that the results obtained by the NN-HMM hybrid system are close to those obtained by the fuzzy ART approach applied to the same borehole with the same well logs

The feature cerebellar model arithmetic computer (FCMAC) is a multiple-input-single-output neural network which can provide three-degree-of-freedom (3-DOF) pose estimation for a robotic vision system. In this paper a new architecture is introduced which combines the FCMAC with an adaptive resonance theory (ART) network. The ART module clusters patterns observed during training into a set of prototypes that are used to build the FCMAC. As a result, the network no longer grows without bound, but constrains itself to a user-specified size. Pose estimates remain accurate since the ART tends to discard the least relevant information first. In some cases the smaller network is better for generalization, resulting in a reduction of error at recall time. The ART-C algorithm is extended to include initial filling with randomly selected patterns (referred to as ART-F). In experiments using a real-world data set, the new network performed equally well using less than one tenth the number of coarse patterns as a regular FCMAC. In validation experiments, the FCMAC system outperformed radial basis function (RBF) networks for the 3-DOF problem, and had comparable performance to principle component analysis (PCA) which estimates orientation only.

The adaptive resonance theory (ART) suggests a solution to the stability-plasticity dilemma facing designers of learning systems, namely how to design a learning system that will remain plastic, or adaptive, in response to significant events and yet remain stable in response to irrelevant events. ART architectures are discussed that are neural networks that self-organize stable recognition codes in real time in response to arbitrary sequences of input patterns. Within such an ART architecture, the process of adaptive pattern recognition is a special case of the more general cognitive process of hypothesis discovery, testing, search, classification, and learning. This property opens up the possibility of applying ART systems to more general problems of adaptively processing large abstract information sources and databases. The main computational properties of these ART architectures are outlined and contrasted with those of alternative learning and recognition systems.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>

Disadvantages of image proximity measure that is used in discrete neural network of adaptive resonance theory (ART) ART-1 are analyzed. The discrete network ART that uses the Hamming distance as an image proximity measure is proposed. Stable plastic Hamming neural network that is able to recognize the new information on its inputs is developed. Figs.: 2. Refs.: 9 titles. Keywords: neural network; adaptive resonance theory; Hamming distance; image proximity measure.

Mapping adaptive resonance theory onto ring and mesh architectures

Self-organizing large amounts of textual data in accordance to some topics structure is an increasingly important application of clustering. Adaptive resonance theory (ART) neural networks possess several interesting properties that make them appealing in this area. Although ART has been used in several research works as a text clustering tool, the level of quality of the resulting document clusters has not been clearly established yet. In this paper, we present experimental results with binary ART that address this issue by determining how close clustering quality is to an upper bound on clustering quality.

Neural networks based on adaptive resonance theory (ART) are capable of on-line learning. However, a limiting factor in on-line processing has been the need to preprocess input patterns so that features fall in the range [0.0, 1.0], typically done with scale-factors that depend on the input range of each feature. This paper demonstrates a method by which the scaling of features becomes adaptive, eliminating the need to batch-process patterns before presenting them to the ART network. The resulting network implementation for on-line learning does not call for any knowledge of the feature signals, ranges or otherwise. A variety of implications of this scheme are analyzed.