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Resolution Transfer in Cancer Classification Based on Amplification Patterns

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Part of the book series: Lecture Notes in Computer Science ((LNAI,volume 9356))

Abstract

In the current scientific age, the measurement technology has considerably improved and diversified producing data in different representations. Traditional machine learning and data mining algorithms can handle data only in a single representation in their standard form. In this contribution, we address an important challenge encountered in data analysis: what to do when the data to be analyzed are represented differently with regards to the resolution? Specifically, in classification, how to train a classifier when class labels are available only in one resolution and missing in the other resolutions? The proposed methodology learns a classifier in one data resolution and transfers it to learn the class labels in a different resolution. Furthermore, the methodology intuitively works as a dimensionality reduction method. The methodology is evaluated on a simulated dataset and finally used to classify cancers in a real–world multiresolution chromosomal aberration dataset producing plausible results.

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References

  1. Adhikari, P.R., Hollmén, J.: Patterns from multiresolution 0–1 data. In: UP 2010: Proceedings of the ACM SIGKDD Workshop on Useful Patterns, pp. 8–16. ACM, New York (2010)

    Google Scholar 

  2. Adhikari, P.R., Hollmén, J.: Multiresolution mixture modeling using merging of mixture components. In: Hoi, S., Buntine, W. (eds.) Proceedings of 4th Asian Conference on Machine Learning, volume 25 of ACML 2012. JMLR Workshop and Conference Proceedings, pp. 17–32 (2012)

    Google Scholar 

  3. Baudis, M.: Genomic imbalances in 5918 malignant epithelial tumors: an explorative meta-analysis of chromosomal CGH data. BMC Cancer 7(1), 226 (2007)

    Article  Google Scholar 

  4. Bellman, R.E.: Adaptive Control Processes - A Guided Tour. Princeton University Press, Princeton (1961)

    Book  MATH  Google Scholar 

  5. Blum, A., Mitchell, T.: Combining labeled and unlabeled data with cotraining. In: Proceedings of 11th Annual Conference on Computational Learning Theory, COLT 1998, pp. 92–100. ACM, New York (1998)

    Google Scholar 

  6. Hsu, C.-W., Chang, C.-C., Lin, C.-J.: A practical guide to support vector classification. National Taiwan University, Technical report, Department of Computer Science (2003)

    Google Scholar 

  7. Kyriakopoulou, A., Kalamboukis, T.: Clustering as a prior step to classification: an empirical study. Int. J. Artif. Intel. Tools 20(03), 531–548 (2011)

    Article  Google Scholar 

  8. Mardis, E.R.: A decade’s perspective on DNA sequencing technology. Nature 470(7333), 198–203 (2011)

    Article  Google Scholar 

  9. Myllykangas, S., Himberg, J., Böhling, T., Nagy, B., Hollmén, J., Knuutila, S.: DNA copy number amplification profiling of human neoplasms. Oncogene 25(55), 7324–7332 (2006)

    Article  Google Scholar 

  10. Pan, S.J., Yang, Q.: A survey on transfer learning. IEEE Trans. Knowl. Data Eng. 22(10), 1345–1359 (2010)

    Article  Google Scholar 

  11. Shaffer, L.G., Tommerup, N.: ISCN 2005: An International System for Human Cytogenetic Nomenclature (2005) Recommendations of the International Standing Committee on Human Cytogenetic Nomenclature. Karger (2005)

    Google Scholar 

  12. Smyth, P.: Model selection for probabilistic clustering using cross-validated likelihood. Stat. Comput. 10(1), 63–72 (2000)

    Article  Google Scholar 

  13. Willsky, A.S.: Multiresolution markov models for signal and image processing. Proceed. IEEE 90(8), 1396–1458 (2002)

    Article  Google Scholar 

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Correspondence to Prem Raj Adhikari .

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© 2015 Springer International Publishing Switzerland

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Adhikari, P.R., Hollmén, J. (2015). Resolution Transfer in Cancer Classification Based on Amplification Patterns. In: Japkowicz, N., Matwin, S. (eds) Discovery Science. DS 2015. Lecture Notes in Computer Science(), vol 9356. Springer, Cham. https://doi.org/10.1007/978-3-319-24282-8_1

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  • DOI: https://doi.org/10.1007/978-3-319-24282-8_1

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-24281-1

  • Online ISBN: 978-3-319-24282-8

  • eBook Packages: Computer ScienceComputer Science (R0)

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