Methods for automatic microarray image segmentation

Katzer M, Kummert F, Sagerer G (2003)
IEEE Transactions on Nanobioscience 2(4): 202-214.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Abstract / Bemerkung
This paper describes image processing methods for automatic spotted microarray image analysis. Automatic gridding is important to achieve constant data quality and is, therefore, especially interesting for large-scale experiments as well as for integration of microarray expression data from different sources. We propose a Markov random field (MRF) based approach to high-level grid segmentation, which is robust to common problems encountered with array images and does not require calibration. We also propose an active contour method for single-spot segmentation. Active contour models describe objects in images by properties of their boundaries. Both MRFs and active contour models have been used in various other computer vision applications. The traditional active contour model must be generalized for successful application to microarray spot segmentation. Our active contour model is employed for spot detection in the MRF score functions as well as for spot signal segmentation in quantitative array image analysis. An evaluation using several image series from different sources shows the robustness of our methods.
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Zeitschriftentitel
IEEE Transactions on Nanobioscience
Band
2
Zeitschriftennummer
4
Seite
202-214
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Katzer M, Kummert F, Sagerer G. Methods for automatic microarray image segmentation. IEEE Transactions on Nanobioscience. 2003;2(4):202-214.
Katzer, M., Kummert, F., & Sagerer, G. (2003). Methods for automatic microarray image segmentation. IEEE Transactions on Nanobioscience, 2(4), 202-214. doi:10.1109/TNB.2003.817023
Katzer, M., Kummert, F., and Sagerer, G. (2003). Methods for automatic microarray image segmentation. IEEE Transactions on Nanobioscience 2, 202-214.
Katzer, M., Kummert, F., & Sagerer, G., 2003. Methods for automatic microarray image segmentation. IEEE Transactions on Nanobioscience, 2(4), p 202-214.
M. Katzer, F. Kummert, and G. Sagerer, “Methods for automatic microarray image segmentation”, IEEE Transactions on Nanobioscience, vol. 2, 2003, pp. 202-214.
Katzer, M., Kummert, F., Sagerer, G.: Methods for automatic microarray image segmentation. IEEE Transactions on Nanobioscience. 2, 202-214 (2003).
Katzer, Mathias, Kummert, Franz, and Sagerer, Gerhard. “Methods for automatic microarray image segmentation”. IEEE Transactions on Nanobioscience 2.4 (2003): 202-214.

17 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

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The COP9 signalosome mediates transcriptional and metabolic response to hormones, oxidative stress protection and cell wall rearrangement during fungal development.
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PMID: 18541491
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Vector edge operators for cDNA microarray spot localization.
Lukac R, Plataniotis KN., Comput Med Imaging Graph 31(7), 2007
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Ryu M, Kim JD, Min BG, Kim J, Kim YY., J Biomed Opt 11(1), 2006
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Demirkaya O, Asyali MH, Shoukri MM., Bioinformatics 21(13), 2005
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Lukac R, Plataniotis KN, Smolka B, Venetsanopoulos AN., IEEE Trans Nanobioscience 3(4), 2004
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