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A New Method for DNA Microarray Image Segmentation

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Image Analysis and Recognition (ICIAR 2005)

Part of the book series: Lecture Notes in Computer Science ((LNIP,volume 3656))

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Abstract

One of the key issues in microarray analysis is to extract quantitative information from the spots, which represents gene expression levels in the experiments. The process of identifying the spots and separating the foreground from the background is known as microarray image segmentation. In this paper, we propose a new approach to microarray image segmentation, which we called the adaptive ellipse method, and shows various advantages when compared to the adaptive circle method. Our experiments on real-life microarray images show that adaptive ellipse is capable of extracting information from the images, which is ignored by the traditional adaptive circle method, and hence showing more flexibility.

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References

  1. Buhler, J., Ideker, T., Haynor, D.: Dapple: Improved Techniques for Finding Sports on DNA Microarrays. Technical Report UWTR 2000-08-05, University of Washington (2000)

    Google Scholar 

  2. Chen, Y., Dougherty, E., Bittner, M.: Ratio-based Decision and the Quantitative Analysis of cDNA Microarray Images. Journal of Biomedical Optics 2, 364–374 (1997)

    Article  Google Scholar 

  3. Dougherty, E.R.: Probability and statistics for the engineering, computing, and physical sciences. Prentice-Hall, Englewood Cliffs (1990)

    MATH  Google Scholar 

  4. Eisen, M.: ScanAlyze User’s Manual, M. Eisen (1999)

    Google Scholar 

  5. Axon Instruments. Genepix 4000A: User’s Manual. Axon Instruments Inc. (1999)

    Google Scholar 

  6. GSI Lumonics. QuantArray Analsyis Software: Operator’s Manual (1999)

    Google Scholar 

  7. Qin, L.: New Machine-learning-based Techniques for DNA Microarray Image Segmentation. Master’s thesis, School of Computer Science, University of Windsor, Canada, Electronically (2004), available at http://www.cs.uwindsor.ca/~lrueda/papers/LiThesis.pdf

  8. Rueda, L., Oommen, B.J.: On Optimal Pairwise Linear Classifiers for Normal Distributions: The Two-Dimensional Case. IEEE Transactions on Pattern Analysis and Machine Intelligence 24(2), 274–280 (2002)

    Article  Google Scholar 

  9. Rueda, L., Qin, L.: An Improved Clustering-based Approach for DNA Microarray Image Segmentation. In: Proc. of the International Conference on Image Analysis and Recognition, Porto, Portugal, pp. 17–24 (2004)

    Google Scholar 

  10. Rueda, L., Qin, L.: An Unsupervised Learning Scheme for DNA Microarray Image Spot Detection. In: Proc. of the First International Conference on Complex Medical Engineering, Takamatsu, Japan, pp. 996–1000 (2005)

    Google Scholar 

  11. Schena, M.: Microarray Analysis. John Wiley & Sons, Chichester (2002)

    Google Scholar 

  12. Wu, H., Yan, H.: Microarray Image processing Based on Clustering and Morphological Analysis. In: Proc. of the First Asia Pacific Bioinformatics Conference, Adelaide, Australia, pp. 111–118 (2003)

    Google Scholar 

  13. Yang, Y., Buckley, M., Dudoit, S., Speed, T.: Comparison of Methods for Image Analysis on cDNA Microarray Data. Journal of Computational and Graphical Statistics 11, 108–136 (2002)

    Article  MathSciNet  Google Scholar 

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© 2005 Springer-Verlag Berlin Heidelberg

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Rueda, L., Qin, L. (2005). A New Method for DNA Microarray Image Segmentation. In: Kamel, M., Campilho, A. (eds) Image Analysis and Recognition. ICIAR 2005. Lecture Notes in Computer Science, vol 3656. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11559573_108

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  • DOI: https://doi.org/10.1007/11559573_108

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-29069-8

  • Online ISBN: 978-3-540-31938-2

  • eBook Packages: Computer ScienceComputer Science (R0)

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