120
Views
6
CrossRef citations to date
0
Altmetric
Article

Hybrid Cuckoo Search with Clonal Selection for Triclustering Gene Expression Data of Breast Cancer

&

References

  • R. Henriques and S. C. Madeira, “Triclustering algorithms for three-dimensional data analysis: A comprehensive survey,” ACM. Comput. Surv., Vol. 51, no. 5, pp. 1–43, 2018.
  • Y. Cheng and G. M. Church, “Biclustering of expression data,” in Proceedings of International Conference on Intelligent Systems Molecular Biology, 2000, pp. 93–103.
  • J. R. Chen and Y. I. Chang, “A condition-enumeration tree method for mining biclusters from DNA microarray data sets,” Biosystems, Vol. 97, no. 1, pp. 44–59, 2009.
  • J. Feng, P. E. Barbano, and B. Mishra, “Time-frequency feature detection for timecourse microarray data,” in Proceedings of the ACM Symposium on Applied Computing, 2004, pp. 128–32.
  • L. Zhao and M. J. Zaki, “TRICLUSTER: An effective algorithm for mining coherent clusters in 3D microarray data,” in Proceedings of the 2015 ACM SIGMOD International Conference on Management of Data, 2015, pp. 694–705.
  • H. Jiang, S. Zhou, J. Guan, and Y. Zheng, “gTRICLUSTER: A more general and effective 3D clustering algorithm for gene-sample-time microarray data,” Data Min. Biomed. Appl., Vol. 3916, pp. 48–59, 2006.
  • Y. Yin, Y. Zhao, B. Zhang, and G. Wang, “Mining time-shifting co-regulation patterns from gene expression data,” Vol. 4505. Berlin: Springer, 2007, pp. 62–73.
  • Z. Hu and R. Bhatnagar, “Algorithm for discovering low-variance 3-clusters from real-valued datasets,” in IEEE International Conference on Data Mining, 2010, pp. 236–45.
  • A. B. Tchagang, S. Phan, F. Famili, H. Shearer, P. Fobert, and Y. Huang, “Mining biological information from 3D short time-series gene expression data: the OPTricluster algorithm,” Bioinformatics, Vol. 13, p. 54, 2012.
  • H. C. Kuo and P. C. Tsai, “Mining time-delayed gene regulation patterns from gene expression data,” GSTF J. Comput., Vol. 2, no. 1, pp. 68–72, 2012.
  • A. Bhar, M. Haubrock, A. Mukhopadhyay, U. Maulik, S. Bandyopadhyay, and E. Wingender, “δ-TRIMAX: Extracting triclusters and analysing coregulation in time series gene expression data,” Vol. 7534. Springer, 2012, pp. 165–77.
  • D. G. Aviles, C. R. Escudero, F. M. Alvarez, and J. C. Riquelme, “Trigen: A genetic algorithm to mine triclusters in temporal gene expression data,” Neurocomputing, Vol. 132, pp. 42–53, 2014.
  • A. Bhar, M. Haubrock, A. Mukhopadhyay, U. Maulik, S. Bandyopadhyay, and E. Wingender, “Multiobjective triclustering of time-series transcriptome data reveals key genes of biological processes,” Bioinformatics, Vol. 16, p. 200, 2015.
  • P. Swathypriyadharsini and K. Premalatha, “Tricuckoo: A multi-objective cuckoo search algorithm for ticlustering microarray gene expression data,” J. Inf. Sci. Eng., Vol. 39, pp. 1617–31, 2018.
  • P. Swathypriyadharsini and K. Premalatha, “Impact of fuzzy normalization on clustering microarray temporal datasets using cuckoo search,” Int. J. Comput. Syst. Sci. Eng., Vol. 35, no. 1, pp. 39–50, 2020.
  • I. J. Fister, X. S. Yang, D. Fister, and I. Fister, “Cuckoo search: A brief literature review, cuckoo search and firefly algorithm,” Stud. Comput. Intell., Vol. 516, pp. 49–62, 2014.
  • R. B. Payne, M. D. Sorenson, and K. Klitz, The Cuckoos. Oxford University Press, England, United Kingdom, 2005.
  • R. Balamurugan, N. Mathaiyan, and K. Premalatha, “Cuckoo search with mutation for biclustering of microarray gene expression data,” Int. Arab J. Inf. Technol., Vol. 14, pp. 300–6, 2017.
  • X. S. Yang, and S. Deb, “Cuckoo search via Levy flights,” in World Congress on Nature & Biologically Inspired Computing, 2009, pp. 210–14.
  • P. Swathypriyadharsini and K. Premalatha, “Comparison of cuckoo search and particle swarm optimisation in triclustering temporal gene expression data,” Int. J. Swarm Intell., Vol. 4, no. 1, pp. 55–72, 2019.
  • J. D. Farmer, N. H. Packard, and A. S. Perelson, “The immune system, adaptation, and machine learning,” Phys. D, Vol. 2, no. 1–3, pp. 187–204, 1986.
  • D. Castro and L. Timmis, Artificial Immune Systems: A New Computational Approach. London: Springer, 2002.
  • N. Arulanand, P. Swathypriyadharsini, and S. Subramanian, “Artificial immune system for bloom filter optimization,” Int. J. Comput. Appl., Vol. 41, no. 8, pp. 26–32, 2012.
  • C. Berek and M. Ziegner, “The maturation of the immune response,” Immunol. Today, Vol. 14, no. 8, pp. 400–2, 1993.
  • G. Kanagaraja, S. G. Ponnambalam, and N. Jawahar, “A hybrid cuckoo search and genetic algorithm for reliability – Redundancy allocation problems,” Comput. Ind. Eng., Vol. 66, no. 4, pp. 1115–24, 2013.
  • M. Srinivas and L. M. Patnaik, “Adaptive probabilities of crossover and mutation in genetic algorithms,” IEEE Trans. Syst. Man Cybern., Vol. 24, no. 4, pp. 656–67, 1994.
  • D. G. Aviles and C. R. Escudero, “MSL: A measure to evaluate three-dimensional patterns in gene expression data,” Evol. Bioinform., Vol. 11, pp. 121–35, 2015.
  • X. S. Yang and S. Deb, Multi Objective Optimization Using Evolutionary Algorithms. Wiley, New York, United States, 2001.
  • A. Bhar, M. Haubrock, A. Mukhopadhyay, U. Maulik, S. Bandyopadhyay, and E. Wingender, “Coexpression and coregulation analysis of time-series gene expression data in estrogen-induced breast cancer cell,” Algorithms Mol. Biol., Vol. 8, p. 9, 2013.
  • D. W. Huang, B. T. Sherman, and R. A. Lempicki, “Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources,” Nat. Protoc., Vol. 4, no. 1, pp. 44–57, 2009.
  • Y. Benjamini and Y. Hochberg, “Controlling the false discovery rate: A practical and powerful approach to multiple testing,” J. R. Stat. Soc. B, Vol. 57, no. 1, pp. 289–300, 1995.

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.