SEARCH

SEARCH BY CITATION

References

  • 1
    Ray T. 2011. FDA's Woodcock says personalized drug development entering ‘long slog’ phase. Pharmacogenomics Reporter, October.
  • 2
    Dougherty ER, Braga-Neto UM. 2006. Epistemology of computational biology: mathematical models and experimental prediction as the basis of their validity. Bio Syst 14: 6590.
  • 3
    van de Vijver MJ, He YD, van't Veer LJ, Dai H, et al. 2002. Gene expression signature as a predictor of survival in breast cancer. New Eng J Med 347: 19992009.
  • 4
    Devroye L, Gyorfi L, Lugosi G. 1996. A Probabilistic Theory of Pattern Recognition. New York: Springer-Verlag.
  • 5
    Dougherty ER, Sima C, Hua J, Hanczar B, et al. 2010. Performance of error estimators for classification. Curr Bioinform 5: 5367.
  • 6
    Braga-Neto UM, Dougherty ER. 2010. Exact correlation between actual and estimated errors in discrete classification. Pattern Recogn Lett 31: 40713.
  • 7
    Gilbert W. 2011. Discovering the Lac Operon. DNA Learning Center. New York: Cold Spring Harbor Laboratory, Cold Spring Harbor.
  • 8
    Braga-Neto UM, Dougherty ER. 2004. Is cross-validation valid for small-sample microarray classification. Bioinformatics 20: 37480.
  • 9
    Hanczar B, Hua J, Dougherty ER. 2007. Decorrelation of the true and estimated classifier errors in high-dimensional settings. EURASIP J Bioinfor Sys Bio: 38473.
  • 10
    Glick N. 1978. Additive estimators for probabilities of correct classification. Pattern Recogn 10: 21122.
  • 11
    Dougherty ER, Zollanvari A, Braga-Neto UM. 2011. The illusion of distribution-free small-sample classification in genomics. Curr Genomics 12: 33341.
  • 12
    Dalton LA, Dougherty ER. 2011. Application of the Bayesian MMSE error estimator for classification error to gene-expression microarray data. Bioinformatics 27: 182231.
  • 13
    Dalton LA, Dougherty ER. 2012. Optimal mean-square-error calibration of classifier error estimators under Bayesian models. Pattern Recogn, in press, DOI: 10.1016/j.patcog.2011.12.003.
  • 14
    Bacon F. 1952. Novum Organum Great Books of the Western World, 35. In Hutchins RM, Adler MJ, eds; Chicago: Encyclopedia Britannica (originally published 1620).
  • 15
    Boulesteix A-L. 2010. Over-optimism in bioinformatics research. Bioinformatics 26: 4379.
  • 16
    Rocke DM, Ideker T, Troyanskaya O, Quackenbush J, et al. 2009. Papers on normalization, variable selection, classification or clustering of microarray data. Bioinformatics 25: 7012.
  • 17
    Boulesteix A-L, Strobl C. 2009. Optimal classifier selection and negative bias in error rate estimation: an empirical study on high-dimensional prediction. BMC Med Res Meth 9: 85.
  • 18
    Yousefi MR, Hua J, Sima C, Dougherty ER. 2010. Reporting bias when using real data sets to analyze classification performance. Bioinformatics 26: 6876.
  • 19
    Mehta T, Murat T, Allison DB. 2004. Towards sound epistemological foundations of statistical methods for high-dimensional biology. Nat Genet 36: 9437.
  • 20
    Yousefi MR, Hua J, Dougherty ER. 2011. Multiple-rule bias in the comparison of classification rules. Bioinformatics 27: 167583.
  • 21
    Hanczar B, Hua J, Sima C, Weinstein J, et al. 2010. Small-sample precision of ROC-related estimates. Bioinformatics 26: 82230.
  • 22
    Dougherty ER, Bittner ML. 2011. Epistemology of the Cell: A Systems Perspective on Biological Knowledge IEEE Press Series on Biomedical Engineering. New York: John Wiley.
  • 23
    Einstein A. 1949. Einstein's Reply to Criticisms, in Albert Einstein: Philosopher Scientist. The Library of Living Philosophers Series. Cambridge: Cambridge University Press.