Multi-objective evolutionary algorithm for mining 3D clusters in gene-sample-time microarray data

2008 IEEE International Conference on Granular Computing, GRC 2008

Volumn , Issue , 2008, Pages 442-447

  Liu, Junwan ^a   Li, Zhoujun ^b   Hu, Xiaohua ^c   Chen, Yiming ^d  

^a CENTRAL SOUTH UNIVERSITY OF FORESTRY AND TECHNOLOGY   (China)

^b BEIHANG UNIVERSITY   (China)

^c DREXEL UNIVERSITY   (United States)

^d HUNAN AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

3D CLUSTERS; BIOMEDICAL APPLICATIONS; DATA SETS; EXPRESSION LEVELS; HIGH QUALITIES; MICROARRAY DATUMS; TIME POINTS;

BIOINFORMATICS; CLUSTERING ALGORITHMS; EVOLUTIONARY ALGORITHMS; MINING; MULTIOBJECTIVE OPTIMIZATION; SYSTEM THEORY;

THREE DIMENSIONAL;

EID: 57949100269     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/GRC.2008.4664735     Document Type: Conference Paper

References (18)

1. D. Jiang, et al., "Cluster analysis for gene expression data: a survey," Knowledge and Data Engineering, IEEE Transactions on, vol. 16, no. 11, 2004, pp. 1370-1386.
2. F. De Smet, et al., "Adaptive quality-based clustering of gene expression profiles," Book Adaptive quality-based clustering of gene expression profiles, Series Adaptive quality-based clustering of gene expression profiles 18, ed., Editor ed.∧eds., Oxford Univ Press, 2002, pp. 735-746.
3. M.B. Eisen, et al., "Cluster analysis and display of genome-wide expression patterns," Proceedings of the National Academy of Sciences, vol. 95, no. 25, 1998, pp. 14863.
4. P. Tamayo, et al., "Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation," Proc Natl Acad Sci US A, vol. 96, no. 6, 1999, pp. 2907-2912.
5. M.P.S. Brown, et al., "Knowledge-based analysis of microarray gene expression data by using support vector machines," Proceedings of the National Academy of Sciences, vol. 97, no. 1, 2000, pp. 262.
6. Y. Cheng and G.M. Church, "Biclustering of expression data," Proc Int Conf Intell Syst Mol Biol, vol. 8, 2000, pp. 93-103.
7. S.C. Madeira and A.L. Oliveira, "Biclustering algorithms for biological data analysis: a survey," IEEE/ACM Trans Comput Biol Bioinform, vol. 1, no. 1, 2004, pp. 24-45; DOI 10.1109/TCBB.2004.2.
8. D. Jiang, et al., "Mining coherent gene clusters from gene-sample-time microarray data," Proceedings of the 2004 ACM SIGKDD international conference on Knowledge discovery and data mining, 2004, pp. 430-439.
9. L. Zhao and M.J. Zaki, "TRICLUSTER: an effective algorithm for mining coherent clusters in 3D microarray data," Proceedings of the 2005 ACM SIGMOD international conference on Management of data, 2005, pp. 694-705.
10. H. Jiang, et al., "gTRICLUSTER: A More General and Effective 3D Clustering Algorithm for Gene-Sample-Time Microarray Data," Data Mining for Biomedical Applications: PAKDD 2006 Workshop, BioDM 2006, Singapore, April 9, 2006: Proceedings, vol. 1, 2006, pp. 34.
11. J.S. Aguilar-Ruiz and F. Divina, "Evolutionary Biclustering of Microarray Data," Applications of Evolutionary Computing: EvoWorkshops 2005, EvoBIO, EvoCOMNET, EvoHOT, EvoIASP, EvoMUSART, and EvoSTOC, Lausanne, Switzerland, March 30-April 1, 2005: Proceedings, 2005.
12. S. Bleuler, et al., "An EA framework for biclustering of gene expression data," Evolutionary Computation, 2004. CEC2004. Congress on, vol. 1, 2004.
13. F. Divina and J.S. Aguilar-Ruiz, "Biclustering of expression data with evolutionary computation," IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING, vol. 18, no. 5, 2006, pp. 590-602.
14. F. Divina and J.S. Aguilar-Ruiz, "A multi-objective approach to discover biclusters in microarray data," Proceedings of the 9th annual conference on Genetic and evolutionary computation, 2007, pp. 385-392.
15. S. Mitra and H. Banka, "Multi-objective evolutionary biclustering of gene expression data," Pattern Recognition, vol. 39, no. 12, 2006, pp. 2464-2477.
16. K. Deb, Multi-Objective Optimization Using Evolutionary Algorithms, Wiley, 2001.
17. M. Laumanns, et al., "Combining Convergence and Diversity in Evolutionary Multiobjective Optimization," Evolutionary Computation, vol. 10, no. 3, 2002, pp. 263-282.
18. P.T. Spellman, et al., "Comprehensive Identification of Cell Cycle-regulated Genes of the Yeast Saccharomyces cerevisiae by Microarray Hybridization," Molecular Biology of the Cell, vol. 9, no. 12, 1998, pp. 3273-3297.