Segmenting Microarray Image Spots using an Active Contour Approach

Inspired by Paragious and Deriche's work, which unifies boundary-based and region-based image partition approaches, we integrate the active contour(snake) model and the Fisher criterion to capture, respectively, the boundary and region information of microarray images. We then use the proposed algorithm to automatically segment the spots in the microarray images, and compare our results with those obtained by commercial software.

[1]  T. Speed,et al.  Statistical issues in cDNA microarray data analysis. , 2003, Methods in molecular biology.

[2]  Rachid Deriche,et al.  A Review of Statistical Approaches to Level Set Segmentation: Integrating Color, Texture, Motion and Shape , 2007, International Journal of Computer Vision.

[3]  Y. Chen,et al.  Ratio-based decisions and the quantitative analysis of cDNA microarray images. , 1997, Journal of biomedical optics.

[4]  G. Sagerer,et al.  Methods for automatic microarray image segmentation , 2003, IEEE Transactions on NanoBioscience.

[5]  Bruno Torrésani,et al.  Multiridge detection and time-frequency reconstruction , 1999, IEEE Trans. Signal Process..

[6]  Jeremy Buhler,et al.  Dapple: Improved Techniques for Finding Spots on DNA Microarrays , 2000 .

[7]  Laurent D. Cohen,et al.  On active contour models and balloons , 1991, CVGIP Image Underst..

[8]  Terence P. Speed,et al.  Comparison of Methods for Image Analysis on cDNA Microarray Data , 2002 .

[9]  David Botstein,et al.  The Stanford Microarray Database: data access and quality assessment tools , 2003, Nucleic Acids Res..

[10]  Demetri Terzopoulos,et al.  Snakes: Active contour models , 2004, International Journal of Computer Vision.

[11]  P. Brown,et al.  DNA arrays for analysis of gene expression. , 1999, Methods in enzymology.

[12]  Radhakrishnan Nagarajan,et al.  Intensity-based segmentation of microarray images , 2003, IEEE Transactions on Medical Imaging.

[13]  Ronald W. Davis,et al.  Quantitative Monitoring of Gene Expression Patterns with a Complementary DNA Microarray , 1995, Science.

[14]  Pavel Pudil,et al.  Introduction to Statistical Pattern Recognition , 2006 .

[15]  Wen-Liang Hwang,et al.  Gridding spot centers of smoothly distorted microarray images , 2006, IEEE Transactions on Image Processing.