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Genomic Signal Processing 2004

  1. A parametric signal processing approach for DNA sequence analysis based on autoregressive (AR) modeling is presented. AR model residual errors and AR model parameters are used as features. The AR residual erro...

    Authors: Niranjan Chakravarthy, A. Spanias, L. D. Iasemidis and K. Tsakalis

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:952689

    Content type: Research Article

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  2. Comparative genomics has been a valuable method for extracting and extrapolating genome information among closely related bacteria. The efficiency of the traditional methods is extremely influenced by the soft...

    Authors: Jiuzhou Song, Tony Ware, Shu-Lin Liu and M. Surette

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:890421

    Content type: Research Article

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  3. Authors: Xiaodong Wang, Edward R. Dougherty, Yidong Chen and Carsten O. Peterson

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:870241

    Content type: Research Article

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  4. Heterogeneous DNA sequences can be partitioned into homogeneous domains that are comprised of the four nucleotides A, C, G, and T and the stop-codons. Recursively, we apply a new entropic segmentation method o...

    Authors: Daniel Nicorici and Jaakko Astola

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:832471

    Content type: Research Article

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  5. This paper considers key issues in the emerging field of genomic signal processing and its relationship to functional genomics. It focuses on some of the biological mechanisms driving the development of genomi...

    Authors: Edward R Dougherty, Ilya Shmulevich and Michael L Bittner

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:832320

    Content type: Research Article

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  6. An unsupervised data clustering method, called the local maximum clustering (LMC) method, is proposed for identifying clusters in experiment data sets based on research interest. A magnitude property is define...

    Authors: Xiongwu Wu, Yidong Chen, Bernard R Brooks and Yan A Su

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:823191

    Content type: Research Article

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  7. Complex representation of nucleotides is used to convert DNA sequences into complex digital genomic signals. The analysis of the cumulated phase and unwrapped phase of DNA genomic signals reveals large-scale f...

    Authors: Paul Dan Cristea

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:804941

    Content type: Research Article

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  8. We performed frequency-domain analysis in the genomes of various organisms using tricolor spectrograms, identifying several types of distinct visual patterns characterizing specific DNA regions. We relate patt...

    Authors: David Sussillo, Anshul Kundaje and Dimitris Anastassiou

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:790248

    Content type: Research Article

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  9. This paper introduces a statistical methodology for the identification of differentially expressed genes in DNA microarray experiments based on multiple criteria. These criteria are false discovery rate (FDR),...

    Authors: Alfred O Hero, Gilles Fleury, Alan J Mears and Anand Swaroop

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:754506

    Content type: Research Article

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  10. A critical issue for the construction of genetic regulatory networks is the identification of network topology from data. In the context of deterministic and probabilistic Boolean networks, as well as their ex...

    Authors: Xiaobo Zhou, Xiaodong Wang and Edward R. Dougherty

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:624859

    Content type: Research Article

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  11. This paper presents microarray BASICA: an integrated image processing tool for background adjustment, segmentation, image compression, and analysis of cDNA microarray images. BASICA uses a fast Mann-Whitney te...

    Authors: Jianping Hua, Zhongmin Liu, Zixiang Xiong, Qiang Wu and Kenneth R. Castleman

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:482358

    Content type: Research Article

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  12. Probabilistic Boolean networks (PBNs) comprise a model describing a directed graph with rule-based dependences between its nodes. The rules are selected, based on a given probability distribution which provide...

    Authors: Ivan Ivanov and Edward R. Dougherty

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:314935

    Content type: Research Article

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  13. It has been observed that the protein-coding regions of DNA sequences exhibit period-three behaviour, which can be exploited to predict the location of coding regions within genes. Previously, discrete Fourier...

    Authors: Trevor W. Fox and Alex Carreira

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:187590

    Content type: Research Article

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  14. A novel approach to signal peptide identification is presented. We use an evolutionary algorithm for automatic evolution of classification programs, so-called programmatic motifs. The variant of evolutionary a...

    Authors: David Lennartsson and Peter Nordin

    Citation: EURASIP Journal on Advances in Signal Processing 2004 2004:153697

    Content type: Research Article

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