Evaluation of segmentation algorithms on cell populations using CDF curves

IEEE Transactions on Medical Imaging

Volumn 31, Issue 2, 2012, Pages 380-390

  Hagwood, Charles ^a   Bernal, Javier ^a   Halter, Michael ^a   Elliott, John ^a  

^a NATIONAL INSTITUTE OF STANDARDS AND TECHNOLOGY   (United States)

Author keywords

Cell morphology; cumulative distribution function (CDF); flow cytometry; image cytometry; misclassification errors; segmentation

Indexed keywords

CELL MORPHOLOGY; CELL POPULATIONS; CELL SEGMENTATION; CRITICAL STEPS; CUMULATIVE DISTRIBUTION FUNCTION; CYTOMETRY; DESCRIPTORS; EVALUATION OF SEGMENTATION; IMAGE CYTOMETRY; MISCLASSIFICATION ERROR; PIXEL COUNT; PROJECTED AREA; SEGMENTATION ALGORITHMS; SEGMENTATION PERFORMANCE; STOCHASTIC PROPERTIES;

ASPECT RATIO; CELL CULTURE; CELL PROLIFERATION; ERRORS; FLOW CYTOMETRY; IMAGE SEGMENTATION; MORPHOLOGY; PIXELS;

ALGORITHMS;

ALGORITHM; ARTICLE; AUTOMATED PATTERN RECOGNITION; CELL TRACKING; COMPARATIVE STUDY; COMPUTER ASSISTED DIAGNOSIS; EVALUATION; FLOW CYTOMETRY; IMAGE ENHANCEMENT; IMAGE SUBTRACTION; METHODOLOGY; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; STATISTICAL ANALYSIS; VIDEO MICROSCOPY;

ALGORITHMS; CELL TRACKING; DATA INTERPRETATION, STATISTICAL; FLOW CYTOMETRY; IMAGE ENHANCEMENT; IMAGE INTERPRETATION, COMPUTER-ASSISTED; MICROSCOPY, VIDEO; PATTERN RECOGNITION, AUTOMATED; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SUBTRACTION TECHNIQUE;

EID: 84856701135     PISSN: 02780062     EISSN: None     Source Type: Journal    
DOI: 10.1109/TMI.2011.2169806     Document Type: Article

References (26)

1. V. Abraham, D. Taylor, and J. Hastings, "High content screening applied to large-scale cell biology," Trends Biotechnol., vol. 22, no. 1, pp. 15-22, Jan. 2004. (Pubitemid 38030316)
2. A. Carpenter, "Image-based chemical screening," Nature Chem. Biol., vol. 3, no. 8, pp. 461-465, Aug. 2007. (Pubitemid 47080372)
3. M. Halter, A. Plant, J. Tona, and J. Elliott, "Cell volume distributions reveal cell growth rates and division times," J. Theoretical Biol., vol. 257, no. 1, pp. 124-130, 2009.
4. J. Elliott, A. Tona, and A. Plant, "Comparison of reagents for shape analyis of fixed cells by automated fluorescence microscopy," Cytometry, vol. 52A, no. 2, pp. 90-100, 2003. (Pubitemid 37521507)
5. M. James, Classification Algorithms. New York: Wiley, 1985.
6. L. Coelho, A. Shariff, and R. Murphy, "Nuclear segmentation in microscope cell images: A hand segmented dataset and comparison of algorithms," in Proc. IEEE Int. Symp. Biomed. Imag., 2009, pp. 518-521.
7. P. Bamford, "Empirical comparison of cell segmentation algorithms using an annotated dataset," in Proc. 2003 Int. Conf. Image Process., 2003, vol. 3, p. II-1073.
8. D. Hodneland, N. V. Burkoreshtliev, T. Eichler, X. Tai, S. Furke, A. Lundervold, and H. Gerdes, "A unified framework for automated 3-d segmentation of surface-stained living cells and a comprehensive segmentation evaluation," IEEE Trans. Med. Imag., vol. 28, no. 5, pp. 720-738, May 2009.
9. E. Gelasca, B. Obara, K. D. Fedorov, Kvilekval, and B. Manjunath, "Biosegmentation benchmark for evaluation of bioimage analysis methods," BMC Bioinformatics, vol. 10, pp. 1-12, 2009.
10. B. S. Database[Online]. Available: http//www. eecs. berkeley. edu/Research/Projects/CS/vision/bsds/, 2001
11. C. Pantofaru and M. Hebert, A comparison of image segmentation algorithms Carnegie Mellon, Pittsburgh, PA, Tech. Rep. CMU-RI-TR 05-40 666/1999, 2005.
12. A. Dima, J. Elliott, J. Filliben, M. Halter, A. Peskin, J. Bernal, M. Kociolek, M. Brady, H. Tang, and A. Plant, "Comparison of segmentation algorithms for fluorescence microscopy images of cells," Cytometry, vol. 79A, no. 7, pp. 545-559, Jul. 2011.
13. , D. L. Taylor, J. R. Haskins, and K. G., Eds., Methods in Molecular Biology. Totowa, NJ: Humana, 2006, vol. 356.
14. M. P. do Carmo, Differential Geometry of Curves and Surfaces. Englewood Cliffs, NJ: Prentice Hall, 1976.
15. K. Bowyer, C. Kranenburg, and S. Dougherty, "Edge detector evaluation using empirical roc curves," Semiconductors, vol. 84, pp. 77-103, 2001. (Pubitemid 34228382)
16. J. Canny, "A computational approach to edge detection," IEEE Trans. Trans. Pattern Anal. Mach. Intell., vol. 8, no. 6, pp. 679-698, Nov. 1986.
17. L. P. Coelho et al., Nuclear segmentation in microscope cell images: A hand-segmented dataset and comparison of algorithms 2009[Online]. Available: http://murphylab. web. cmu. edu/publications/157-coelho2009. pdf
18. R. Gonzalez and R. Woods, Digital Image Processing. Upper Saddle River, NJ: Pearson Prentice Hall, 2008.
19. D. J. Hand, Construction and Assessment of Classification Rules. Chichester, U. K.: Wiley, 1997.
20. J. MacQueen, "Some methods for classification and analysis of multivariate observations," in Proc. 5th Berkeley Symp. Math. Stat. Probabil., 1967, vol. 1, pp. 281-297.
21. T. Nattkemper, "Automatic segmentation of digital micrographs: A survey," in MEDINFO, M. Fieschi, Ed. et al., Amsterdam, The Netherlands, 2004.
22. N. Otsu, "A threshold selection method from gray-level histograms," IEEE Trans. Syst. Man Cybern., vol. 9, no. 1, pp. 62-66, 1979. (Pubitemid 9413341)
23. Z. Perlman, M. Slack, Y. Mitchison, L. Wu, and S. Altschuler, "Multidimensional drug profiling by automated microscopy," Science, vol. 306, no. 5699, pp. 1194-1198, 2004. (Pubitemid 39489001)
24. J. Russ, The Image Processing Handbook, 4th Ed. . Boca Raton, FL: CRC Press, 2002.
25. D. Scott, "On optimal and data-based histograms," Biometrika, vol. 66, pp. 605-610, 1979. (Pubitemid 10218411)
26. Y. Zhang, "Evaluation and comparison of different segmentation algorithms," Pattern Recognit. Lett., vol. 18, pp. 1335-1346, 1997.