Stability analysis of feature ranking techniques on biological datasets

Proceedings - 2011 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2011

Volumn , Issue , 2011, Pages 252-256

  Dittman, David ^a   Khoshgoftaar, Taghi M ^a   Wald, Randall ^a   Wang, Huanjing ^b  

^a FLORIDA ATLANTIC UNIVERSITY   (United States)

^b WESTERN KENTUCKY UNIVERSITY   (United States)

Author keywords

DNA Microarray; Feature Selection; Stability

Indexed keywords

BEST CHOICE; CLASS IMBALANCE; DATA SETS; DNA MICRO-ARRAY; FEATURE RANKING; FEATURE SUBSET; GAIN RATIO; GINI INDEX; HIGH DIMENSIONALITY; IMBALANCED DATA-SETS; PROBABILITY RATIO; SIGNAL TO NOISE; STABILITY ANALYSIS; SVM-RFE;

BIOASSAY; BIOCHIPS; BIOINFORMATICS; CONVERGENCE OF NUMERICAL METHODS; STABILITY;

FEATURE EXTRACTION;

EID: 84862920659     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BIBM.2011.84     Document Type: Conference Paper

References (15)

1. National Center for Biotechnology Information, "Microarrays factsheet," 2007, http://www.ncbi.nlm.nih.gov/About/primer/microarrays.htm. [Online]. Available: http://www.ncbi.nlm.nih.gov/About/primer/microarrays.html
2. D. Dittman, T. Khoshgoftaar, R. Wald, and J. Van Hulse, "Comparative analysis of dna microarray data through the use of feature selection techniques," in Proceedings of the Ninth IEEE International Conference on Machine Learning and Applications (ICMLA). ICMLA, 2010, pp. 147-152.
3. T. Abeel, T. Helleputte, Y. Van de Peer, P. Dupont, and Y. Saeys, "Robust biomarker identification for cancer diagnosis with ensemble feature selection methods," Bioinformatics, vol. 26, no. 3, pp. 392-398, February 2010. [Online]. Available: http://www.ncbi.nlm.nih.gov/pubmed/19942583
4. H. Liu, J. Li, and L. Wong, "A comparative study on feature selection and classification methods using gene expression profiles and proteomic patterns," Genome Informatics, vol. 13, pp. 51-60, 2002.
5. R. Blagus and L. Lusa, "Class prediction for high-dimensional class-imbalanced data," BMC Bioinformatics, pp. 523-539, 2010. [Online]. Available: http://www.biomedcentral.com/1471-2105/11/523
6. A. Kamal, X. Zhu, A. Pandya, S. Hsu, and M. Shoaib, "The impact of gene selection on imbalanced microarray expression data," in Bioinformatics and Computational Biology, ser. Lecture Notes in Computer Science, S. Rajasekaran, Ed., 2009, vol. 5462, pp. 259-269. [Online]. Available: http://dx.doi.org/10.1007/978-3-642-00727-9-25
7. L. I. Kuncheva, "A stability index for feature selection,"in Proceedings of the 25th conference on Proceedings of the 25th IASTED International Multi-Conference: artificial intelligence and applications. Anaheim, CA, USA: ACTA Press, 2007, pp. 390-395. [Online]. Available: http://portal.acm.org/citation.cfm?id=1295303.1295370
8. I. H. Witten and E. Frank, Data Mining: Practical Machine Learning Tools and Techniques. Morgan Kaufmann, 2nd edition, 2005.
9. J. Van Hulse, T. M. Khoshgoftaar, A. Napolitano, and R. Wald, "A comparative evaluation of feature ranking methods for high dimensional bioinformatics data," in Proceedings of the IEEE International Conference on Information Reuse and Integration - IRI'11, August 2011, pp. 315-320.
10. D. G. Beer, S. L. Kardia, C.-C. Huang, T. J. Giordano, A. M. Levin, D. E. Misek, L. Lin, G. Chen, T. G. Gharib, D. G. Thomas, M. L. Lizyness, R. Kuick, S. Hayasaka, J. M. Taylor, M. D. Iannettoni, M. B. Orringer, and S. Hanash, "Gene-expression profiles predict survival of patients with lung adenocarcinoma," Nature Medicine, vol. 8, pp. 816-824, 2002. [Online]. Available: http://dx.doi.org/10.1038/nm733
11. X. Chen and M. Wasikowski, "Fast: a roc-based feature selection metric for small samples and imbalanced data classification problems," in Proceedings of the 14th ACM SIGKDD Int'l Conf. Knowldege Discovery and Data Mining (KDD '08). New York, NY: ACM, 2008, pp. 124-132.
12. G. Mulligan, C. Mitsiades, B. Bryant, F. Zhan, W. J. Chng, S. Roels, E. Koenig, A. Fergus, Y. Huang, P. Richardson, W. L. Trepicchio, A. Broyl, P. Sonneveld, J. Shaughnessy, John D., P. Leif Bergsagel, D. Schenkein, D.-L. Esseltine, A. Boral, and K. C. Anderson, "Gene expression profiling and correlation with outcome in clinical trials of the proteasome inhibitor bortezomib," Blood, pp. 3177-3188, 2007. (Pubitemid 46572502)
13. D. A. Wigle, I. Jurisica, N. Radulovich, M. Pintilie, J. Rossant, N. Liu, C. Lu, J. Woodgett, I. Seiden, M. Johnston, S. Keshavjee, G. Darling, T. Winton, and B.-J. Breitkreutz, "Molecular profiling of non-small cell lung cancer and correlation with disease-free survival1," Cancer Research, pp. 3005-3008, 2002. (Pubitemid 34602385)
14. M. Wasikowski and X. wen Chen, "Combating the small sample class imbalance problem using feature selection,"IEEE Transactions on Knowledge and Data Engineering, vol. 22, pp. 1388-1400, 2010.
15. M. L. Berenson, M. Goldstein, and D. Levine, Intermediate Statistical Methods and Applications: A Computer Package Approach 2nd Edition. Prentice Hall, 1983.