Artificial neural networks and support vector machine identify Alu elements as being associated with human housekeeping genes

Proceedings - 2011 4th International Conference on Biomedical Engineering and Informatics, BMEI 2011

Volumn 3, Issue , 2011, Pages 1664-1668

  Dharmasaroja, Permphan ^a  

^a MAHIDOL UNIVERSITY   (Thailand)

Author keywords

decision tree; genome; GEP; interspersed element; MLP; myocyte; neuron; PNN; RBF; SVM

Indexed keywords

GEP; INTERSPERSED ELEMENT; MLP; MYOCYTE; PNN; RBF; SVM;

BIOMEDICAL ENGINEERING; DECISION TREES; GENES; INFORMATION SCIENCE; MACHINERY; NEURONS; RADIAL BASIS FUNCTION NETWORKS; SUPPORT VECTOR MACHINES;

NEURAL NETWORKS;

EID: 84855820723     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BMEI.2011.6098522     Document Type: Conference Paper

References (13)

1. E.S. Lander, L.M. Linton, B. Birren, C. Nusbaum, M.C. Zody, J. Baldwin, et al., "Initial sequencing and analysis of the human genome," Nature, vol. 409, pp. 860-921, February 2001. (Pubitemid 32165345)
2. J. DeCerbo, and G.G. Carmichael, "SINEs point to abundant editing in the human genome," Genome Biol., vol. 6, pp. 216, March 2005.
3. J. Jurka, "Evolutionary impact of human Alu repetitive elements." Curr. Opin. Genet. Dev., vol. 14, pp. 603-608, December 2004. (Pubitemid 39505363)
4. J. Jurka, O. Kohany, A. Pavlicek, V.V. Kapitonov, and M.V. Jurka, "Duplication, coclustering, and selection of human Alu retrotransposons, " Proc. Natl. Acad. Sci. U S A, vol. 101, pp. 1268-1272, February 2004. (Pubitemid 38182678)
5. M. Babcock, A. Pavlicek, E. Spiteri, C.D. Kashork, I. Ioshikhes, L.G. Shaffer, et al., "Shuffling of genes within low-copy repeats on 22q11 (LCR22) by Alu-mediated recombination events during evolution," Genome Res., vol. 13, pp. 2519-2532, December 2003. (Pubitemid 37541141)
6. C.J. Shaw, and J.R. Lupski, "Implications of human genome architecture for rearrangement-based disorders: the genomic basis of disease," Hum. Mol. Genet., vol. 13, pp. R57-R64, April 2004. (Pubitemid 38443799)
7. Z. Zhang, N. Carriero, and M. Gerstein, "Comparative analysis of processed pseudogenes in the mouse and human genomes," Trends Genet., vol. 20, pp. 62-67, February 2004. (Pubitemid 38121355)
8. Z. Zhang, P.M. Harrison, Y. Liu, and M. Gerstein, "Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome," Genome Res., vol. 13, pp. 2541-2558, December 2003. (Pubitemid 37541143)
9. Z. Zhang, P. Harrison, and M. Gerstein, "Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome," Genome Res., vol. 12, pp. 1466-1482, October 2002. (Pubitemid 35189531)
10. A.F. Smit, and A.D. Riggs, "MIRs are classic, tRNA-derived SINEs that amplified before the mammalian radiation," Nucleic Acids Res., vol. 23, pp. 98-102, January 1995.
11. S. Lefebvre, L. Burglen, S. Reboullet, O. Clermont, P. Burlet, L. Viollet, et al., "Identification and characterization of a spinal muscular atrophy-determining gene," Cell, vol. 80, pp. 155-165, January 1995.
12. C.D. Eller, M. Regelson, B. Merriman, S. Nelson, S. Horvath, and Y. Marahrens, "Repetitive sequence environment distinguishes housekeeping genes," Gene, vol. 390, pp. 153-165, April 2007. (Pubitemid 46241747)
13. A.O. Urrutia, L.B. Ocana, and L.D. Hurst, "Do Alu repeats drive the evolution of the primate transcriptome?," Genome Biol., vol. 9, pp. R25, February 2008.