Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information

Nucleic Acids Research

Volumn 24, Issue 17, 1996, Pages 3439-3452

  Hebsgaard, Stefan M ^a   Korning, Peter G ^a   Tolstrup, Niels ^a   Engelbrecht, Jacob ^a,c   Rouzé, Pierre ^a,b   Brunak, Søren ^a  

^a TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^b GHENT UNIVERSITY   (Belgium)

^c NOVO NORDISK A S   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

FLUORESCENT DYE; MESSENGER RNA; RNA PRECURSOR;

ALTERNATIVE RNA SPLICING; ARABIDOPSIS; ARTICLE; ARTIFICIAL NEURAL NETWORK; INTRON; JELLYFISH; NONHUMAN; PREDICTION; PRIORITY JOURNAL; RNA SEQUENCE; RNA SPLICING;

ARABIDOPSIS THALIANA;

EID: 0029791403     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/24.17.3439     Document Type: Article

References (33)

1. Carle-Urioste, J. C., Ko, C. H., Benito, M., and Walbot, V. (1994) Plant Mol. Biol. 26, 1785-1795.
2. Filipowicz, W., Gniadkowski, M., Klahre, U., and Liu, H. (1994) chapter title: Pre-mRNA Splicing in Plants. In Lamond,A.I. (ed.) Pre-mRNA Processing. R.G. Landes Company, Austin, TX, USA pp. 65-77.
3. Robberson, B. L., Cote, G. J., and Berget, S. M. (1990) Mol. Cell. Biol. 10, 84-94.
4. Goodall, G. J. and Filipowicz, W. (1989) Cell 58, 473-483.
5. Csank, C., Taylor, F. M., and Martindale, D. W. (1990) Nucleic Acids Res. 18, 5133-5141.
6. Goodall, G. J. and Filipowicz, W. (1990) Plant Mol. Biol. 14, 727-733.
7. Wiebauer, K., Herrero, J., and Filipowicz, W. (1988) Mol. Cell. Biol. 8, 2042-2051.
8. Keith, B. and Chua, N. H. (1986) EMBO J. 5, 2419-2425.
9. Lou, H., McCullough, A. J., and Schuler, M. A. (1993) Plant J. 3, 393-403.
10. Waigmann, E. and Bartha, A. (1992) Nucleic Acids Res. 20, 75-81.
11. Brunak, S., Engelbrecht, J., and Knudsen, S. (1991) J. Mol. Biol. 220, 49-65.
12. Korning, P. G., Hebsgaard, S. M., Rouze, P., and Brunak, S. (1996) Nucleic Acids Res. 24, 316-320.
13. Hertz, J., Krogh, A., and Palmer, R. G. (1991) Introduction to the Theory of Neural Computation, Addison Wesley, Reading.
14. Mathews, B. W. (1975) Biochim. Biophys. Acta 405, 442-451.
15. Schneider, T. D. and Stephens, R. M. (1990) Nucleic Acids Res. 18, 6097-6100.
16. Shannon, C. E. (1948) Bell System Tech. J. 27, 379-423/623-656.
17. Hamming, R. W. (1980) Coding and Information Theory, Prentice-Hall, Englewood Cliffs NJ.
18. White, O., Soderlund, C., Shanmugan, P., and Fields, C. (1992) Plant Mol. Biol. 19, 1057-1064.
19. Umen, J. G. and Guthrie, C. (1995) RNA 1, 869-885.
20. Smith, C. W., Chu, T. T., and Nadal-Ginard, B. (1993) Mol. Cell. Biol. 13, 4939-52.
21. Lou, H., McCullough, A. J., and Schuler, M. A. (1993) Mol. Cell. Biol. 13, 4485-4493.
22. Tolstrup, N. (1995) Int. J. Neural Sys. 6, 31-42.
23. Cun, Y. L., Denker, J. S., and Solla, S. A. (1989) In Advances in Neural Information Processing Systems II. San Mateo Morgan Kaufmann, pp. 396-404.
24. Zhi-Wang (1994) Nature Struct. Biol. 1, 144-145.
25. Borodovsky, M. and McIninch, J. D. (1993) Computers Chem. 17, 123-133.
26. Green, P. (1995) Genefinder. Unpublished.
27. Werneke, J., Chatfield, J., and Ogren, W. (1989) Plant Cell 1, 815-825.
28. Hayashi, M., Tsugeki, R., Kondo, M., Mori, H., and Nishimura, M. (1996) Plant Mol. Biol. 30, 183-189.
29. Kopriva, S., Cossu, R., and Bauwe, H. (1995) Plant J. 8, 435-441.
30. Hirose, T., Sugita, M., and Sugiura, M. (1993) Nucleic Acids Res. 21, 3981-3987.
31. Haseloff, J. and Amos, B. (1995) Trends Genet. 11, 328-329.
32. Maquat, L. E. (1995) RNA 1, 453-465.
33. Trifonov, E. (1987) J. Mol. Biol. 194, 643-652.