ABSTRACT The Z curve is a very useful method for visual-izing and analyzing DNA sequences. It is a three-dimensional space curve that constitutes a unique representation of a given DNA se-quence. It becomes more and more important to study non-coding regions in the recent years. Using Z curve method, 15 disease-related ncRNAs and some snoRNAs and miRNAs sequences are selected from the NONCODE database in this paper, which relate to Alzheimer Disease. The corresponding Z curves of the studied ncRNAs, sequences have been mapped and compared. The statistical features of the Z curves are ob-tained. These features indicate that the ncRNAs sequences playing same roles in the celluar process have almost the same Z-curves. And the base content in these sequences is almost same too.
Cite this paper
nullYang, Y. and Wang, J. (2009) Geometrical study on diseaserelated ncRNAs based on Z-curve method. Health, 1, 24-30. doi: 10.4236/health.2009.11005.
 R. Hershberg, S. Altuvia, and H. Margalit, (2003) A survey of small RNA-encoding genes in Escherichia coli, Nucleic Acids Res., 31, 1813-1820.
V. T. Nguyen, T. Kiss, A. A. Michels, and O. Bensaude, (2001) 7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes, Nature, 414, 322-325.
Z. Yang, Q. Zhu, K. Luo, and Q. Zhou, (2001) The 7SK small nuclear RNA inhibits the CDK9/cyclin T1 kinase to control transcription, Nature, 414, 317-322.
S. R. Eddy, (2001) Non-coding RNA genes and the modern RNA world, Nature Rev. Genet., 2, 919-929.
T. Wu, J. Wang, C. N. Liu, Y. Zhang, B. C. Shi, X. P. Zhu, Z. H. Zhang, G. Skogerbo, L. Chen, H. C. Lu, Y. Zhao, and R. S. Chen, (2006) NP Inter: The non-coding RNAs and protein related biomacromolecules database, Nucleic Acids Res., 34, D150-D152.
J. R. Neilson, G. X. Zheng, C. B. Burge, and P. A. Sharp, (2007) Dynamic regulation of miRNA expression in ordered stages of cellular development, Genes & Dev., 21, 578–589.
G. Storz, (2002) An expanding universe of noncoding RNAs, Science, 296, 1260-1263.
T. Zhang, Z. H. Zhang, L. J. Ling, B. C. Shi, and R. S. Chen, (2004) Conservation analysis of small RNA genes in Escherichia coli, Bioinformatics, 20, 599-603.
G. Casadesus, M. A. Smith, S. Basu, J. Hua, D. E. Capobianco, S. L. Siedlak, X. Zhu, and G. Perry, (2007) Increased isoprostane and prostaglandin are prominent in neurons in Alzheimer disease, Mol Neurodegener, 2(2).
K. E. Webster, J. R. Merory, and J. E. Wittwer, (2006) Gait variability in community dwelling adults with Alzheimer disease, Alzheimer Dis Assoc Disord., 20(1), 37-40.
R. Zhang and C. T. Zhang, (1994) Z curves, an intuitive tool for visualizing and analyzing DNA sequences, J. Biomol. Struc. Dyn., 767-782.
C. T. Zhang, R. Zhang, and H. Y. Ou, (2003) The z curve database: A graphic representation of genome sequences, Bioinformatics, 19, 593-599.
F. B. Guo, H. Y. Ou, and C. T. Zhang, (2003) ZCURVE: A new system for recognizing protein-coding genes in bacterial and archaeal genomes., Nucleic Acids Res., 31, 1780-1789.
J. H. Wang, B. Q. Wang, and L. S. Zhang, (2004) Theoretical Study on the Z Curve, J. Biomol., 19(2), 129-135.
C. N. Liu, B. Y. Bai, G. Skogerbo, L. Cai, W. Deng, Y. Zhang, D. B. Bu, Y. Zhao, and R. S. Chen, (2005) NONECODE: An integrated knowledge database of non-coding RNAs, Nucleic Acids Res, 33, D112-D115.
M. Szymanski, V. A. Erdmann, and J. Barciszewski, (2003) Noncoding regulatory RNAs database, Nucleic Acids Res., 31, 429-431.
C. Zwieb, J. Gorodkin, B. Knudsen, J. Burks, and J. Wower, (2003) tmRDB (tmRNA database), Nucleic Acids Res., 31, 446-447.
T. Wu, J. Wang, C. N. Liu, Y. Zhang, B. C. Shi, X. P. Zhu, Z. H. Zhang, G. Skogerbo, L. Chen, H. C. Lu, Y. Zhao, and R. S. Chen, (2006) NP Inter: The non-coding RNAs and protein related biomacromolecules interaction database, Nucleic Acids Res., 34, D150-D152.