A methodology for automatic classification of breast cancer immunohistochemical data using semi-supervised Fuzzy c-means

Lai, Daphne Teck Ching; Garibaldi, Jonathan M.; Soria, Daniele; Roadknight, Christopher M.

Abstract

Previously, a semi-manual method was used to identify six novel and clinically useful classes in the Nottingham Tenovus Breast Cancer dataset. 663 out of 1,076 patients were classified. The objectives of our work is three folds. Firstly, our primary objective is to use one single automatic method (post-initialisation) to reproduce the six classes for the 663 patients and to classify the remaining 413 patients. Secondly, we explore using semi-supervised fuzzy c-means with various distance metrics and initialisation techniques to achieve this. Thirdly, the clinical characteristics of the 413 patients are examined by comparing with the 663 patients. Our experiments use various amount of labelled data and 10-fold cross validation to reproduce and evaluate the classification. ssFCM with Euclidean distance and initialisation technique by Katsavounidis et al. produced the best results. It is then used to classify the 413 patients. Visual evaluation of the 413 patients’ classifications revealed common characteristics as those previously reported. Examination of clinical characteristics indicates significant associations between classification and clinical parameters. More importantly, association between classification and survival based on the survival curves is shown.

Citation

Lai, D. T. C., Garibaldi, J. M., Soria, D., & Roadknight, C. M. (2014). A methodology for automatic classification of breast cancer immunohistochemical data using semi-supervised Fuzzy c-means. Central European Journal of Operations Research, 22(3), 475-499. https://doi.org/10.1007/s10100-013-0318-3

• Journal Article Type: Article
• Online Publication Date: Jul 28, 2013
• Publication Date: 2014-09
• Deposit Date: Jan 26, 2015
• Publicly Available Date: Jan 26, 2015
• Journal: Central European Journal of Operations Research
• Print ISSN: 1435-246X
• Electronic ISSN: 1613-9178
• Publisher: Springer Verlag
• Peer Reviewed: Peer Reviewed
• Volume: 22
• Issue: 3
• Pages: 475-499
• DOI: https://doi.org/10.1007/s10100-013-0318-3
• Keywords: Breast cancer, Fuzzy clustering, Molecular classification
• Public URL: https://nottingham-repository.worktribe.com/output/994532
• Publisher URL: http://link.springer.com/article/10.1007/s10100-013-0318-3
• Additional Information: The final publication is available at Springer via http://dx.doi.org/10.1007/s10100-013-0318-3
• Contract Date: Jan 26, 2015