Find significant gene information based on changing points of microarray data

IEEE Transactions on Biomedical Engineering

Volumn 56, Issue 4, 2009, Pages 1108-1116

  Liu, Yihui ^a   Bai, Li ^b  

^a QILU UNIVERSITY OF TECHNOLOGY   (China)

^b UNIVERSITY OF NOTTINGHAM   (United Kingdom)

Author keywords

Feature optimization; Features extraction; Microarray data; Wavelet analysis

Indexed keywords

CROSS VALIDATION; DATA SETS; DATA SPACE; DETAIL COEFFICIENTS; FEATURE OPTIMIZATION; FEATURES EXTRACTION; GENE INFORMATION; HIGH-ORDER; LOCALIZED FEATURES; MICROARRAY DATA; THIRD LEVEL; WAVELET BASIS; WAVELET FEATURES; WAVELET SPACE;

SET THEORY; WAVELET ANALYSIS; WAVELET TRANSFORMS;

FEATURE EXTRACTION;

ALGORITHM; ARTICLE; CONTROLLED STUDY; DATA ANALYSIS; DNA MICROARRAY; HUMAN; MEDICAL INFORMATICS; PROSTATE CANCER; WAVEFORM;

ALGORITHMS; HUMANS; LEUKEMIA, MYELOID, ACUTE; LUNG NEOPLASMS; MALE; MODELS, GENETIC; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PATTERN RECOGNITION, AUTOMATED; PRECURSOR CELL LYMPHOBLASTIC LEUKEMIA-LYMPHOMA; PROSTATIC NEOPLASMS;

EID: 67149136352     PISSN: 00189294     EISSN: None     Source Type: Journal    
DOI: 10.1109/TBME.2008.2009543     Document Type: Article

References (24)

1. C. Campbell, "New analytical techniques for the interpretation of microarray data," Bioinformatics, vol. 19, p. 1045, 2003.
2. T. R. Golub, D. K. Slonim, P. Tamayo, C. Huard, M. Gaasenbeeck, J. P. Mesirov, H. Coller, M. L. Loh, J. R. Downing, and M. A. Caligiuri, "Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring," Science, vol. 286, pp. 531-537, 1999.
3. V. N. Danh and M. R. David, "Tumor classification by partial least squares using microarray gene expression data," Bioinformatics, vol. 18, pp. 39-50, 2002.
4. M. Xiong, L. Jin, W. Li, and E. Boerwinkle, "Computational methods for gene expression-based tumor classification," Biotechniques, vol. 29, pp. 1264-1270, 2000.
5. P. Baldi and A. D. Long, "A Bayesian framework for the analysis of microarray expression data: Regularized t-test and statistical inferences of gene changes," Bionformatics, vol. 17, pp. 509-519, 2001.
6. M. Dettling, "BagBoosting for tumor classification with gene expression data," Bioinformatics, vol. 20, pp. 3583-3593, 2004.
7. J. Li, H. Liu, S. K. Ng, and L. Wong, "Discovery of significant rules for classifying cancer diagnosis data," Bioinformatics, vol. 19, pp. 93-102, 2003.
8. A. C. Tan and D. Gilbert, "Ensemble machine learning on gene expression data for cancer classification," Appl. Bioinf., vol. 2, pp. S75-S83, 2003.
9. D. S. Huang and C. H. Zheng, "Independent component analysis-based penalized discriminant method for tumor classification using gene expression data," Bioinformatics, vol. 22, pp. 1855-1862, 2006.
10. X. Zhou, X. Wang, and E. R. Dougherty, "Nonlinear-probit gene classification using mutual-information and wavelet based feature selection," Biol. Syst., vol. 12, pp. 371-386, 2004.
11. Y. Liu, "Wavelet feature selection for microarray data," in Proc. 3rd IEEE/NIH Life Sci. Syst. Appl. Workshop, Bethesda, MD, 2007, pp. 205-208.
12. Y. Liu, "Feature extraction for DNA microarray data," in Proc. 20th IEEE Int. Symp. Comput.-BasedMed. Syst., 2007, pp. 371-376.
13. Y. Liu, J. Shen, and J. Cheng, "Cancer classification based on the 'fingerprint' of microarray data," in Proc. 1st Int. Conf. Bioinf. Biomed. Eng., 2007, pp. 180-183.
14. Y. Liu, "Detect key genes information in classification of microarray data," EURASIP J. Adv. Signal Process., vol. 2008, pp. 612397-1-612397-10, 2008 (doi:10.1155/2008/612397).
15. Y. Liu, "Wavelet feature extraction for high-dimensional microarray data,"Neurocomputing, vol. 72, pp. 985-990, 2009.
16. A. Grossmann and J. Morlet, "Decomposition of Hardy functions into square integrable wavelets of constant shape SIAM," J. Math. Anal., vol. 15, pp. 723-736, 1984.
17. S. Mallat, "A theory for multiresolution signal decomposition: The wavelet representation," IEEE Trans. Pattern Anal. Mach. Intell., vol. 11, no. 7, pp. 674-693, Jul. 1989.
18. I. Daubechies, "Orthonormal bases of compactly supported wavelets," Commun. Pure Appl. Math., vol. 41, pp. 909-996, 1988.
19. D. Singh, P. G. Febbo1, K. Ross, D. G. Jackson, J. Manola, C. Ladd, P. Tamayo, A. A. Renshaw, A. V. D'Amico, J. P. Richie, E. S. Lander, M. Loda, P. W. Kantoff, T. R. Golub, and W. R. Sellers, "Gene expression correlates of clinical prostate cancer behavior," Cancer Cell,vol.1, pp. 203-209, 2002.
20. G. J. Gordon, R. V. Jensen, L. L. Hsiao, S. R. Gullans, J. E. Blumenstock, S. Ramaswamy, W. G. Richards, D. J. Sugarbaker, and R. Bueno, "Translation of microarray data into clinically relevant cancer diagnostic tests using gene expression ratios in lung cancer and mesothelioma," Cancer Res., vol. 62, pp. 4963-4967, 2002.
21. S. A. Armstrong, J. E. Staunton, L. B. Silverman, R. Pieters, M. L. den Boer, M. D. Minden, S. E. Sallan, E. S. Lander, T. R. Golub, and S. J. Korsmeyer, "MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia," Nature Genet., vol. 30, pp. 41-47, 2002.
22. E. L. Kyeong, N. Sha, E. R. Dougherty, M. Vannucci, and B. K. Mallick, "Gene selection: A Bayesian variable selection approach," Bioinformatics, vol. 19, pp. 90-97, 2003.
23. S. Bicciato, A. Luchini, and C. Di Bello, "PCA disjoint models for multi- class cancer analysis using gene expression data," Bioinformatics, vol. 19, pp. 571-578, 2003.
24. C. C. Aedin, P. Guy, C. C. Elizabeth, G. C. Thomas, and G. H. Desmond, "Between group analysis of microarray data," Bioinformatics, vol. 18, pp. 1600-1608, 2002.