IEEE Transactions on Signal Processing

Issue 6  Part 2 • June 2006

 This issue contains several parts.Go to:  Part 1 

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  • Table of contents

    Publication Year: 2006, Page(s): c1
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  • IEEE Transactions on Signal Processing publication information

    Publication Year: 2006, Page(s): c2
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  • Guest Editorial Genomic Signal Processing

    Publication Year: 2006, Page(s):2373 - 2374
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  • Optimal infinite-horizon control for probabilistic Boolean networks

    Publication Year: 2006, Page(s):2375 - 2387
    Cited by:  Papers (135)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (856 KB) | HTML iconHTML

    External control of a genetic regulatory network is used for the purpose of avoiding undesirable states, such as those associated with disease. Heretofore, intervention has focused on finite-horizon control, i.e., control over a small number of stages. This paper considers the design of optimal infinite-horizon control for context-sensitive probabilistic Boolean networks (PBNs). It can also be app... View full abstract»

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  • Detection-theoretic analysis of MatInspector

    Publication Year: 2006, Page(s):2388 - 2393
    Cited by:  Papers (2)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (272 KB) | HTML iconHTML

    The goal of this paper is twofold. First, we wish to raise awareness in the signal processing community of research problems related to transcription factor binding site (TFBS) finding. This class of problems is important in the study of gene expression and regulation and is similar to the problems studied in statistical signal processing and detection theory. Second, we analyze one of the very po... View full abstract»

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  • Nonlinear modeling of protein expressions in protein arrays

    Publication Year: 2006, Page(s):2394 - 2407
    Cited by:  Papers (12)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (1616 KB) | HTML iconHTML

    This paper addresses the problem of estimating the expressions or concentrations of proteins from measurements obtained from protein arrays and illustrates the methodology on lysate microarray data. With several families of parametric models we design a number of algorithms for the estimation of a highly nonlinear calibration curve as well as the concentrations themselves. The model families inclu... View full abstract»

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  • Parallel identification of gene biclusters with coherent evolutions

    Publication Year: 2006, Page(s):2408 - 2417
    Cited by:  Papers (9)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (640 KB) | HTML iconHTML

    Finding clusters of genes with expression levels that evolve coherently under subsets of conditions can help uncover genetic pathways. This can be done by applying a biclustering procedure to gene expression data. Given a microarray data set with M genes and N conditions, we define a bicluster with coherent evolution as a subset of genes with expression levels that are nondecreasing as a function ... View full abstract»

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  • Identifying differentially expressed genes in microarray experiments with model-based variance estimation

    Publication Year: 2006, Page(s):2418 - 2426
    Cited by:  Papers (5)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (848 KB) | HTML iconHTML

    Statistical tests have been employed to identify genes differentially expressed under different conditions using data from microarray experiments. The variance of gene expression levels is often required in various statistical tests; however, due to the small number of replicates, the variance estimated from the sample variance is not accurate, which causes large false positive and negative errors... View full abstract»

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  • Joint learning of logic relationships for studying protein function using phylogenetic profiles and the rosetta stone method

    Publication Year: 2006, Page(s):2427 - 2435
    Cited by:  Papers (4)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (1016 KB) | HTML iconHTML

    Identifying logic relationships between proteins is essential for understanding their function within cells. Previous studies have been done to infer protein logic relationships using pairwise and triplet logic analysis on phylogenetic profiles. Other computational methods have also been developed using pairwise analysis on Rosetta Stone data to infer protein functional linkages. (Proteins that sh... View full abstract»

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  • Combining feature selection and DTW for time-varying functional genomics

    Publication Year: 2006, Page(s):2436 - 2443
    Cited by:  Papers (10)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (736 KB) | HTML iconHTML

    Given temporal high-throughput data defining a two-class functional genomic process, feature selection algorithms may be applied to extract a panel of discriminating gene time series. We aim to identify the main trends of activity through time. A reconstruction method based on stagewise boosting is endowed with a similarity measure based on the dynamic time warping (DTW) algorithm, defining a rank... View full abstract»

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  • A statistical model for microarrays, optimal estimation algorithms, and limits of performance

    Publication Year: 2006, Page(s):2444 - 2455
    Cited by:  Papers (13)  |  Patents (9)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (720 KB) | HTML iconHTML

    DNA microarray technology relies on the hybridization process, which is stochastic in nature. Currently, probabilistic cross hybridization of nonspecific targets, as well as the shot noise (Poisson noise) originating from specific targets binding, are among the main obstacles for achieving high accuracy in DNA microarray analysis. In this paper, statistical techniques are used to model the hybridi... View full abstract»

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  • Phase-only filtering for the masses (of DNA Data): a new approach to sequence alignment

    Publication Year: 2006, Page(s):2456 - 2466
    Cited by:  Papers (9)  |  Patents (1)
    Request permission for commercial reuse | Click to expandAbstract | PDF file iconPDF (1000 KB) | HTML iconHTML

    Alignment of DNA segments containing repetitive nucleotide base patterns is an important task in several genomics applications, including DNA sequencing, DNA fingerprinting, pathogen detection, and gene finding. One of the most efficient procedures used for this task is the cross correlation method. The main computations of the procedure are the discrete Fourier transform (DFT) and a pointwise mul... View full abstract»

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  • 2006 Workshop on Spoken Language Technology

    Publication Year: 2006, Page(s): 2467
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  • Special issue on content storage and delivery in peer-to-peer network

    Publication Year: 2006, Page(s): 2468
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  • IEEE Signal Processing Society Information

    Publication Year: 2006, Page(s): c3
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  • Blank page [back cover]

    Publication Year: 2006, Page(s): c4
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Aims & Scope

IEEE Transactions on Signal Processing covers novel theory, algorithms, performance analyses and applications of techniques for the processing, understanding, learning, retrieval, mining, and extraction of information from signals

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Meet Our Editors

Editor-in-Chief
Sergios Theodoridis
University of Athens