SPIRIT-ML: A Machine Learning Platform for Deriving Knowledge from Biomedical Datasets

Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 9162)

Abstract

SPIRIT-ML (Software Platform for Integrated Research Information and Transformation - Machine Learning) is a synergistic and flexible machine learning component of integrated research informatics platform, SPIRIT, being developed at City of Hope. SPIRIT-ML is being developed to analyze varied data analysis problems in biomedical and clinical datasets to further translational research. An interactive interface, broad spectrum of data driven learning models, multiple cross-validation techniques, visualization methods and reporting metrics constitute the platform.

Keywords

Machine learning Translational research Platform 

Notes

Acknowledgments

The authors would like to thank Dr. Joyce Niland, Dr. Haiqing Li and Dr. Weizhong Zhu for their input and feedback.

References

  1. 1.
    Ross, M.E., Zhou, X., et al.: Classification of pediatric acute lymphoblastic leukemia by gene expression profiling. Blood 102(8), 2951–2959 (2003)CrossRefGoogle Scholar
  2. 2.
    Cleophas, T.J., Zwinderman, A.H.: Machine Learning in Medicine. Springer, Netherlands (2013)CrossRefGoogle Scholar
  3. 3.
    Wolberg, W.H., Mangasarian, O.L.: Multisurface method of pattern separation for medical diagnosis applied to breast cytology. PNAS 87, 9193–9196 (1990)CrossRefMATHGoogle Scholar
  4. 4.
    Zhang, J.: Selecting typical instances in instance-based learning. In: Proceedings of the Ninth International Machine Learning Conference, Aberdeen, Scotland, pp. 470–479. Morgan Kaufmann (1992)Google Scholar
  5. 5.
    Friedman, N., Geiger, D., Goldszmidt, M.: Bayesian network classifiers. Mach. Learn. 29(2–3), 131–163 (1997)CrossRefMATHGoogle Scholar
  6. 6.
    Kaufman, L., Rousseeuw, P.J.: Finding Groups in Data: An Introduction to Cluster Analysis. Wiley, New York (1990)CrossRefGoogle Scholar
  7. 7.
    Hartigan, J.A.: Clustering Algorithms. Wiley, New York (1975)MATHGoogle Scholar
  8. 8.
    Breiman, L., Freidman, J., Stone, C.J., Olshen, R.A.: Classification and Regression Trees. Chapman and Hall/CRC, Boca Raton (1984)MATHGoogle Scholar
  9. 9.
    Kuhn, M., Johnson, K.: Applied Predictive Modeling. Springer, New York (2013)CrossRefMATHGoogle Scholar
  10. 10.
    Cortes, C., Vapnik, V.: Support-vector network. Mach. Learn. 20, 1–25 (1995)Google Scholar
  11. 11.
    Werbos, P.J.: Beyond Regression: New Tools for Prediction and Analysis in the Behavioral Sciences. Ph.D. thesis, Harvard University (1974)Google Scholar
  12. 12.
    Breiman, L.: Random forests. Mach. Learn. 45(1), 5–32 (2001)CrossRefMATHGoogle Scholar
  13. 13.
    Nagarajan, R., Scutari, M., Lebre, S.: Bayesian Networks in R: with Applications in Systems Biology. Springer, New York (2013)CrossRefGoogle Scholar
  14. 14.
    Kohavi, R.: A study of cross-validation and bootstrap for accuracy estimation and model selection. In: Proceedings of the Fourteenth International Joint Conference on Artificial Intelliegence, vol. 2(12), pp. 1137–1143 (1995)Google Scholar
  15. 15.
    Powers, D.M.W.: Evaluation: from precision, recall and F-measure to ROC, informedness, markedness and correlation. J. Mach. Learn. Technol. 2(1), 37–63 (2011)MathSciNetGoogle Scholar
  16. 16.
    Amazon Web Services Machine Learning. http://aws.amazon.com/machine-learning/
  17. 17.
    H\(_2\)O - the open source predictive analytics platform. http://0xdata.com/product/
  18. 18.
    The Apache Mahout. http://mahout.apache.org/
  19. 19.
    Waikato Environment for Knowledge Analysis (WEKA). http://www.cs.waikato.ac.nz/ml/weka/
  20. 20.
  21. 21.

Copyright information

© Springer International Publishing Switzerland 2015

Authors and Affiliations

  1. 1.Division of Research Informatics and Systems, Department of Information SciencesCity of Hope National Medical CenterDuarteUSA

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