5269850
Entropy-based criterion in categorical clustering
Entropy-type measures for the heterogeneity of clusters have been used for a long time. This paper studies the entropy-based criterion in clustering categorical data. It first shows that the entropy-based criterion can be derived in the formal framework of probabilistic clustering models and establishes the connection between the criterion and the approach based on dissimilarity co-efficients. An iterative Monte-Carlo procedure is then presented to search for the partitions minimizing the criterion. Experiments are conducted to show the effectiveness of the proposed procedure.
14819927
Gene functional classification by semi-supervised learning from heterogeneous data
Gene function discovery is an important and interesting problem in computational analysis of microarray data. In this paper, we investigate the use of a semi-supervised learning algorithm for inferring gene functional classifications from heterogeneous data set consisting of DNA microarray expression measurements and phylogenetic profiles from whole-genome sequence compassions. The semisupervised learning approach aims at minimizing the disagreement between individual models built from each separate information source by employing a co-updating method and making use of both labeled and unlabeled data. Our results suggest that the semisupervised approach could be used for gene functional classification. The data sets and the program code used for the experiments can be accessed from our webpage.
206784011
The Relationships Among Various Nonnegative Matrix Factorization Methods for Clustering
The nonnegative matrix factorization (NMF) has been shown recently to be useful for clustering and various extensions and variations of NMF have been proposed recently. Despite significant research progress in this area, few attempts have been made to establish the connections between various factorization methods while highlighting their differences. In this paper we aim to provide a comprehensive study on matrix factorization for clustering. In particular, we present an overview and summary on various matrix factorization algorithms and theoretically analyze the relationships among them. Experiments are also conducted to empirically evaluate and compare various factorization methods. In addition, our study also answers several previously unaddressed yet important questions for matrix factorizations including the interpretation and normalization of cluster posterior and the benefits and evaluation of simultaneous clustering. We expect our study would provide good insights on matrix factorization research for clustering.
8864863
Integrating Features from Different Sources for Music Information Retrieval
Efficient and intelligent music information retrieval is a very important topic of the 21st century. With the ultimate goal of building personal music information retrieval systems, this paper studies the problem of identifying "similar" artists using both lyrics and acoustic data. In this paper, we present a clustering algorithm that integrates features from both sources to perform bimodal learning. The algorithm is tested on a data set consisting of 570 songs from 53 albums of 41 artists using artist similarity provided by All Music Guide. Experimental results show that the accuracy of artist similarity classifiers can be significantly improved and that artist similarity can be efficiently identified.
1750917
A general model for clustering binary data
Clustering is the problem of identifying the distribution of patterns and intrinsic correlations in large data sets by partitioning the data points into similarity classes. This paper studies the problem of clustering binary data. This is the case for market basket datasets where the transactions contain items and for document datasets where the documents contain "bag of words". The contribution of the paper is three-fold. First a general binary data clustering model is presented. The model treats the data and features equally, based on their symmetric association relations, and explicitly describes the data assignments as well as feature assignments. We characterize several variations with different optimization procedures for the general model. Second, we also establish the connections between our clustering model with other existing clustering methods. Third, we also discuss the problem for determining the number of clusters for binary clustering. Experimental results show the effectiveness of the proposed clustering model.
9813108
CoFD : An Algorithm for Non-distance Based Clustering in High Dimensional Spaces
The clustering problem, which aims at identifying the distribution of patterns and intrinsic correlations in large data sets by partitioning the data points into similarity clusters, has been widely studied. Traditional clustering algorithms use distance functions to measure similarity and are not suitable for high dimensional spaces. In this paper, we propose CoFD algorithm, which is a non-distance based clustering algorithm for high dimensional spaces. Based on the maximum likelihood principle, CoFD is to optimize parameters to maximize the likelihood between data points and the model generated by the parameters. Experimental results on both synthetic data sets and a real data set show the efficiency and effectiveness of CoFD.
2949388
Optimal k-Anonymity with Flexible Generalization Schemes through Bottom-up Searching
In recent years, a major thread of research on k-anonymity has focused on developing more flexible generalization schemes that produce higher-quality datasets. In this paper we introduce three new generalization schemes that improve on existing schemes, as well as algorithms enumerating valid generalizations in these schemes. We also introduce a taxonomy for generalization schemes and a new cost metric for measuring information loss. We present a bottom-up search strategy for finding optimal anonymizations. This strategy works particularly well when the value of k is small. We show the feasibility of our approach through experiments on real census data
8716577
Blind identification and deconvolution of linear systems driven by binary random sequences
The problem of blind identification and deconvolution of linear systems with independent binary inputs is addressed. To solve the problem, a linear system is applied to the observed data and adjusted so as to produce binary outputs. It is proved that the system coincides with the inverse of the unknown system (with scale and shift ambiguities), whether it is minimum or nonminimum phase. These results are derived for nonstationary independent binary inputs of infinite or finite length. Based on these results, an identification method is proposed for parametric linear systems. It is shown that under some mild conditions, a consistent estimator of the parameter can be obtained by minimizing a binariness criterion for the output data. Unlike many other blind identification and deconvolution methods, this criterion handles nonstationary signals and does not utilize any moment information of the inputs. Three numerical examples are presented to demonstrate the effectiveness of the proposed method. >
14562465
Bioinformatics on Embedded Systems: A Case Study of Computational Biology Applications on VLIW Architecture
Bioinformatics applications represent the increasingly important workloads. Their characteristics and implications on the underlying hardware design, however, are largely unknown. Currently, biological data processing ubiquitously relies on the high-end systems equipped with expensive, general-purpose processors. The future generation of bioinformatics requires the more flexible and cost-effective computing platforms to meet its rapidly growing market. The programmable, application-specific embedded systems appear to be an attractive solution in terms of easy of programming, design cost, power, portability and time-to-market. The first step towards such systems is to characterize bioinformatics applications on the target architecture. Such studies can help in understanding the design issues and the trade-offs in specializing hardware and software systems to meet the needs of bioinformatics market. This paper evaluates several representative bioinformatics tools on the VLIW based embedded systems. We investigate the basic characteristics of the benchmarks, impact of function units, the efficiency of VLIW execution, cache behavior and the impact of compiler optimizations. The architectural implications observed from this study can be applied to the design optimizations. To the best of our knowledge, this is one of the first such studies that have ever been attempted.
206736471
Wavelet spectrum and its characterization property for random processes
The wavelet spectrum of a random process comprises the variances of the wavelet coefficients of the process computed within each scale. This paper investigates the possibility of using the wavelet spectrum, obtained from a continuous wavelet transform (CWT), to uniquely represent the second-order statistical properties of random processes-particularly, stationary processes and long-memory nonstationary processes. As is well known, the Fourier spectrum of a stationary process is mathematically equivalent to the autocovariance function (ACF) and thus uniquely determines the second-order statistics of the process. This characterization property is shown to be possessed also by the wavelet spectrum under very mild regularity conditions that are easily satisfied by many widely used wavelets. It is also shown that under suitable regularity conditions, the characterization property remains valid for processes with stationary increments including 1/f noise.
23492812
Singularity analysis of redundant parallel manipulators
The general methods of singularity analysis of a general parallel manipulator are not suitable for that of a redundant parallel manipulator, thereby This work presents a method for the identification of the singularities of redundant parallel manipulators. Firstly, the theory of singular value decomposition is employed to analyze the velocity equation of a mechanism, and the relationship between the generalized input velocities and the generalized output velocities is researched. Then the physical interpretation of the singularity of a redundant parallel manipulator is discussed, and the relationship between the singularity and the singularity values of the Jacobian matrix of a mechanism is studied. Finally, based on above analysis, the singularities of a redundant manipulator are divided into three basic types and a method for computing the singularity set is presented and formulated. As an example, a 3 degree-of-freedom redundant manipulator is researched through using this method, and all the singular configurations of this manipulator are found out and pictured.