A novel signal processing measure to identify exact and inexact tandem repeat patterns in DNA sequences

Eurasip Journal on Bioinformatics and Systems Biology

Volumn 2007, Issue , 2007, Pages

  Gupta, Ravi ^a   Sarthi, Divya ^a   Mittal, Ankush ^a   Singh, Kuldip ^a  

^a INDIAN INSTITUTE OF TECHNOLOGY ROORKEE   (India)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 34247236699     PISSN: 16874145     EISSN: 16874153     Source Type: Journal    
DOI: 10.1155/2007/43596     Document Type: Article

References (20)

1. W. C. Hahn Telomerase and cancer: where and when? Clinical Cancer Research 7 10 2001 2953 2954
2. R. R. Sinden V. N. Potaman E. A. Oussatcheva C. E. Pearson Y. L. Lyubchenko L. S. Shlyakhtenko Triplet repeat DNA structures and human genetic disease: dynamic mutations from dynamic DNA. Journal of Biosciences 27 1, supplement 1 2002 53 65
3. E. Y. Siyanova S. M. Mirkin Expansion of trinucleotide repeats. Molecular Biology 35 2 2001 168 182
4. K. Tamaki ktamaki@legal.med.kyoto-u.ac.jp A. J. Jeffreys Human tandem repeat sequences in forensic DNA typing. Legal Medicine 7 4 2005 244 250
5. G. Benson benson@ecology.biomath.mssm.edu Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Research 27 2 1999 573 580
6. S. Kurtz J. V. Choudhuri E. Ohlebusch C. Schleiermacher J. Stoye R. Giegerich REPuter: the manifold applications of repeat analysis on a genomic scale. Nucleic Acids Research 29 22 2001 4633 4642
7. R. Kolpakov G. Bana G. Kucherov gregory.kucherov@loria.fr mreps: efficient and flexible detection of tandem repeats in DNA. Nucleic Acids Research 31 13 2003 3672 3678
8. G. M. Landau J. P. Schmidt D. Sokol An algorithm for approximate tandem repeats. Journal of Computational Biology 8 1 2001 1 18
9. E. F. Adebiyi adebiyi@informatik.uni-tuebingen.de T. Jiang M. Kaufmann An efficient algorithm for finding short approximate non-tandem repeats. Bioinformatics 17, supplement 1 2001 S5 S12
10. A. M. Hauth kryder@cs.wisc.edu D. A. Joseph joseph@cs.wisc.edu Beyond tandem repeats: complex pattern structures and distant regions of similarity. Bioinformatics 18, supplement 1 2002 S31 S37
11. D. Sharma B. Issac G. P. S. Raghava R. Ramaswamy r.ramaswamy@mail.jnu.ac. in Spectral repeat finders (SRF): identification of repetitive sequences using Fourier transformation. Bioinformatics 20 9 2004 1405 1412
12. T. T. Tran V. A. Emanuele II G. T. Zhou Techniques for detecting approximate tandem repeats in DNA. Proceedings of IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP '04) Montreal, Quebec, Canada 5 2004 449 452
13. M. Buchner mxb11@po.cwru.edu S. Janjarasjitt sxj44@po.cwru.edu Detection and visualization of tandem repeats in DNA sequences. IEEE Transactions on Signal Processing 51 9 2003 2280 2287
14. D. D. Muresan darian@dmmd.net T. W. Parks parks@ece.cornell.edu Orthogonal, exactly periodic subspace decomposition. IEEE Transactions on Signal Processing 51 9 2003 2270 2279
15. D. Anastassiou Genomic signal processing. IEEE Signal Processing Magazine 18 4 2001 8 20
16. S. Tiwari S. Ramachandran A. Bhattacharya S. Bhattacharya R. Ramaswamy rama@jnuniv.ernet.in Prediction of probable genes by Fourier analysis of genomic sequences. Computer Applications in the Biosciences 13 3 1997 263 270
17. A. D. Otten S. J. Tapscott Triplet repeat expansion in myotonic dystrophy alters the adjacent chromatin structure. Proceedings of the National Academy of Sciences of the United States of America 92 12 1995 5465 5469
18. G. Benson Tandem Repeat Finder. http://tandem.bu.edu/trf/trf.html
19. A. M. Hauth Identification of tandem repeats simple and complex pattern structures in DNA. University of Wisconsin-Madison Madison, Wis, USA 2002 Ph.D. dissertation
20. H. Bussey D. B. Kaback W. Zhong The nucleotide sequence of chromosome I from Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America 92 9 1995 3809 3813