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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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)
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)
Dougherty, E.R.: Probability and statistics for the engineering, computing, and physical sciences. Prentice-Hall, Englewood Cliffs (1990)
Eisen, M.: ScanAlyze User’s Manual, M. Eisen (1999)
Axon Instruments. Genepix 4000A: User’s Manual. Axon Instruments Inc. (1999)
GSI Lumonics. QuantArray Analsyis Software: Operator’s Manual (1999)
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
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)
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)
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)
Schena, M.: Microarray Analysis. John Wiley & Sons, Chichester (2002)
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)
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)
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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
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