Using the SERV applet to detect tandem repeats in DNA sequences and to predict their variability

Cold Spring Harbor Protocols

Volumn 3, Issue 1, 2008, Pages

  Legendre, Matthieu ^a   Verstrepen, Kevin J ^a,b  

^a HARVARD UNIVERSITY   (United States)

^b UNIVERSITY OF LEUVEN   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPUTER PROGRAM; DNA DETERMINATION; DNA SEQUENCE; FUNGAL GENE; GENETIC ALGORITHM; GENETIC CONSERVATION; GENETIC VARIABILITY; GENOTYPE; INFORMATION PROCESSING; MACHINE LEARNING; MOLECULAR MODEL; NONHUMAN; POINT MUTATION; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; TANDEM REPEAT;

EID: 44949201902     PISSN: None     EISSN: 15596095     Source Type: Journal    
DOI: 10.1101/pdb.ip50     Document Type: Article

References (12)

1. Benson, G. 1999. Tandem repeats finder: A program to analyze DNA sequences. Nucleic Acids Res. 27: 573-580.
2. Butler, J.M. 2006. Genetics and genomics of core short tandem repeat loci used in human identity testing. J. Forensic Sci. 51: 253-265.
3. Caburet, S., Cocquet, J., Vaiman, D., and Veitia, R.A. 2005. Coding repeats and evolutionary "agility." Bioessays 27: 581-587.
4. Fondon III, J.W. and Garner, H.R. 2004. Molecular origins of rapid and continuous morphological evolution. Proc. Natl. Acad. Sci. 101: 18058-18063.
5. Gatchel, J.R. and Zoghbi, H.Y. 2005. Diseases of unstable repeat expansion: Mechanisms and common principles. Nat. Rev. Genet. 6: 743-755.
6. Lander, E.S., Linton, L.M., Birren, B., Nusbaum, C., Zody, M.C., Baldwin, J., Devon, K., Dewar, K., Doyle, M., FitzHugh, W., et al. International Human Genome Sequencing Consortium. 2001. Initial sequencing and analysis of the human genome. Nature 409: 860-921.
7. Legendre, M., Pochet, N., Pak, T., and Verstrepen, K.J. 2007. Sequence-based estimation of minisatellite and microsatellite repeat variability. Genome Res. 17: 1787-1796.
8. Orlov, Y.L., Te Boekhorst, R., and Abnizova, I.I. 2006. Statistical measures of the structure of genomic sequences: Entropy, complexity, and position information. J. Bioinform. Comput. Biol. 4: 523-536.
9. Rando, O.J. and Verstrepen, K.J. 2007. Timescales of genetic and epigenetic inheritance. Cell 128: 655-668.
10. Russell, B., Suwanarusk, R., and Lek-Uthai, U. 2006. Plasmodium vivax genetic diversity: Microsatellite length matters. Trends Parasitol. 22: 399-401.
11. Schmitt, A.O. and Herzel, H. 1997. Estimating the entropy of DNA sequences. J. Theor. Biol. 188: 369-377.
12. Verstrepen, K.J., Jansen, A., Lewitter, F., and Fink, G.R. 2005. Intragenic tandem repeats generate functional variability. Nat. Genet. 37: 986-990.