Automated Segmentation of Cell Structure in Microscopy Images

Nicole Kerrison, Andy Bulpitt


Understanding cell movement is important in helping to prevent and cure damage and disease. Increasingly, this study is performed by obtaining video footage of cells in vitro. However, as the number of images obtained for cellular analysis increases, so does the need for automated segmentation of these images, since this is difficult and time consuming to perform manually. We propose to automate the process of segmenting all parts of a cell visible in DIC microscopy video frames by providing an efficient method for correcting the lighting bias and a novel combination of techniques to detect different cell areas and isolate parts of the cell vital to their movement. To the best of our knowledge we contribute the only method able to automatically detect the thin cellular membranes in DIC images. We show that the method can be used to isolate features in order to detect variations vital to motility in differently affected cells.


  1. Abramoff, M. D., Magelhaes, P. J., and Ram, S. J. (2004). Image processing with ImageJ. Biophotonics Int, 11(7):36-42.
  2. Becker, W., Kleinsmith, L., and Hardin, J. (2000). The world of the cell. Benjamin/Cummings series in the life sciences. Benjamin Cummings.
  3. Bise, R., Li, K., Eom, S., and Kanade, T. (2009). Reliably tracking partially overlapping neural stem cells in dic microscopy image sequences. In MICCAI Workshop on Optical Tissue Image Analysis in Microscopy, Histopathology and Endoscopy (OPTMHisE), pages 67-77.
  4. Dormann, D. and Weijer, C. J. (2006). Review: Imaging Of Cell Migration. European Molecular Biology Organization Journal, 25(15):3480 - 3493.
  5. Jiang, R., Crookes, D., Luo, N., and Davidson, M. (2010). Live-Cell Tracking Using SIFT Features in DIC Microscopic Videos. Biomedical Engineering, IEEE Transactions on, 57(9):2219-2228.
  6. Karp, G. (2010). Cell Biology. John Wiley and Sons, Asia, sixth edition.
  7. Keren, K., Pincus, Z., Allen, G., Barnhart, E., Marriott, G., Mogilner, A., and Theriot, J. (2008). Mechanism of shape determination in motile cells. Nature, 453(7194):475-480.
  8. Kolega, J. (2006). The Role of Myosin II Motor Activity in Distributing Myosin Asymmetrically and Coupling Protrusive Activity to Cell Translocation. Molecular Biology of the Cell, 17(10):4435-4445.
  9. Kuijper, A. and Heise, B. (2008). An automatic cell segmentation method for differential interference contrast microscopy. In ICPR 2008. 19th International Conference on Pattern Recognition, pages 1-4. IEEE.
  10. Lane, J. D. and Stebbings, H. (2006). Transmitted light imaging. In Stephens, D., editor, Cell Imaging, Methods Express. Scion, Bloxham, Oxfordshire.
  11. Li, K. and Kanade, T. (2009). Nonnegative mixed-norm preconditioning for microscopy image segmentation. In Proceedings of the 21st Biennial International Conference on Information Processing in Medical Imaging (IPMI), pages 362-373.
  12. Limouze, J., Straight, A. F., Mitchison, T., and Sellers, J. R. (2004). Specificity of blebbistatin, an inhibitor of myosin II. Journal of muscle research and cell motility, 25(4-5):337-341.
  13. Middleton, C. and Sharp, J. (1984). Cell Locomotion in Vitro: Techniques and Observations. Croom Helm Ltd, Kent.
  14. Murphy, D. B. (2001). Fundamentals of Light Microscopy and Electronic Imaging, chapter Differential Interference Contrast (DIC) Microscopy and Modulation Contrast Microscopy, pages 153 - 172. Wiley-Liss, New York, New York.
  15. Pincus, Z. and Theriot, J. A. (2007). Comparison of quantitative methods for cell-shape analysis. Journal of Microscopy, 227(2):140-156.
  16. Sacan, A., Ferhatosmanoglu, H., and Coskun, H. (2008). Celltrack: an open-source software for cell tracking and motility analysis. Bioinformatics, (14):1647- 1649.
  17. Salmon, E. D. and Tran, P. (2007). High-Resolution VideoEnhanced Differential Interference Contrast Light Microscopy. In Sluder, G. and Wolf, D. E., editors, Digital Microscopy, volume 81 of Methods in Cell Biology, pages 335 - 363. Academic Press, San Diego, California, third edition.
  18. Schwartz, S., Murphy, D., Spring, K., and Davidson, M. (2003). de sénarmont bias retardation in dic microscopy. DICMicroscopy.pdf. Nikon MicroscopyU.
  19. Simon, I., Pound, C. R., Partin, A. W., Clemens, J. Q., and Christens-Barry, W. A. (1998). Automated image analysis system for detecting boundaries of live prostate cancer cells. Cytometry, 31(4):287-294.
  20. Stephens, D. J. and Allan, V. J. (2003). Light Microscopy Techniques for Live Cell Imaging. Science, 300:82 - 86.
  21. Straight, A. F., Cheung, A., Limouze, J., Chen, I., Westwood, N. J., Sellers, J. R., and Mitchison, T. J. (2003). Dissecting Temporal and Spatial Control of Cytokinesis with a Myosin II Inhibitor. Science, 299(5613):1743-1747.
  22. Tsien, R. Y. (1998). The Green Fluorescent Protein. Annual Review of Biochemistry, 67:509 - 44.
  23. Wu, K., Gauthier, D., and Levine, M. D. (1995). Live cell image segmentation. Biomedical Engineering, IEEE Transactions on, 42(1):1-12.
  24. Young, D. and Gray, A. J. (1996). Cell identification in Differential Interference Contrast microscope images using edge detection. pages 66.1-66.10. 7th British Machine Vision Conference, BMVA Press.
  25. Zimmer, C., Zhang, B., Dufour, A., Thebaud, A., Berlemont, S., Meas-Yedid, V., and Marin, J.-C. (2006). On the digital trail of mobile cells. Signal Processing Magazine, IEEE, 23(3):54 -62.

Paper Citation

in Harvard Style

Kerrison N. and Bulpitt A. (2014). Automated Segmentation of Cell Structure in Microscopy Images . In Proceedings of the 9th International Conference on Computer Vision Theory and Applications - Volume 3: VISAPP, (VISIGRAPP 2014) ISBN 978-989-758-009-3, pages 98-105. DOI: 10.5220/0004659800980105

in Bibtex Style

author={Nicole Kerrison and Andy Bulpitt},
title={Automated Segmentation of Cell Structure in Microscopy Images},
booktitle={Proceedings of the 9th International Conference on Computer Vision Theory and Applications - Volume 3: VISAPP, (VISIGRAPP 2014)},

in EndNote Style

JO - Proceedings of the 9th International Conference on Computer Vision Theory and Applications - Volume 3: VISAPP, (VISIGRAPP 2014)
TI - Automated Segmentation of Cell Structure in Microscopy Images
SN - 978-989-758-009-3
AU - Kerrison N.
AU - Bulpitt A.
PY - 2014
SP - 98
EP - 105
DO - 10.5220/0004659800980105