Positional characterisation of false positives from computational prediction of human splice sites

Nucleic Acids Research

Volumn 28, Issue 3, 2000, Pages 744-754

  Thanaraj, T A ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ARTICLE; COMPUTER ANALYSIS; COMPUTER PROGRAM; EXON; EXPRESSED SEQUENCE TAG; HUMAN GENETICS; PREDICTION; PRIORITY JOURNAL; RNA SPLICING;

EID: 0034142204     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/28.3.744     Document Type: Article

References (30)

1. Krogh, A. (1997) In Gaasterland,T. et al. (eds), Proceedings of the Fifth International Conference on Intelligent Systems for Molecular Biology. AAAI Press, Cambridge, UK, pp. 179-186.
2. Krogh, A. (1998) http://www.cbs.dtu.dk/services/HMMgene/
3. Guigo, R., Knudsen, S., Drake, N. and Smith, T. (1992) J. Mol. Biol., 226, 141-157.
4. Burset, M., Abrill, J.F. and Guigo, R. (1998) http://apolo.imim.es/ geneid.html
5. Solovyev, V.V., Salamov, A.A. and Lawrence, C.B. (1995) In Rawling, C., Clark, D., Altman, R., Hunter, L., Lengauer, T. and Wodak,S. (eds), Proceedings of the Third International Conference on Intelligent Systems for Molecular Biology. AAAI Press, Cambridge, UK, pp. 367-375.
6. Salamov, A.A. and Solovyev, V.V. (1999) http://genomic.sanger.ac.uk/gf/ gf.html
7. Burge, C. and Karlin, S. (1997) J. Mol. Biol., 268, 78-94.
8. Burge, C (1998) http://gnomic.stanford.edu/GENSCANW.html
9. Kulp, D., Haussler, D., Reese, M.G. and Eeckman, F.H. (1996) In States, D.J., Agarwal, P., Gaasterland, T., Hunter, L. and Smith, R.F. (eds) Proceedings of the Fourth International Conference on Intelligent Systems for Molecular Biology. AAAI Press, Cambridge, UK, pp. 134-142.
10. Kulp, D., Reese, M. and Harris, N. (1998) http://www-hgc.lbl.gov/projects/ genie.html
11. Snyder, E.E. and Stormo, G.D. (1995) J. Mol. Biol., 248, 1-18.
12. Milanesi, L., D'Angelo, D and Rogozin, I,B. (1999) http://125.itba.mi.cnr.it/ ~webgene/genebuilder.html
13. Li, W. (1999) http://linkage.rockefeller.edu/wli/gene/
14. Burset, M. and Guigó, R. (1996) Genomics, 34, 353-367.
15. Hubbard, T., Birney, E., Bruskiewich, R., Clamp, M., Gilbert, J., King, A., Pocock, M. and Wilming, L. (1999) Abstracts of Papers Presented at the 1999 Meeting on Genome Sequencing and Biology, May 19-May 23, 1999. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 114-114 [see also http://genomic.sanger.ac.uk/gf/gf.html].
16. Mironov, A.A. and Gelfand, M.S. (1998) In Proceedings of the First International Conference on Bioinformatics of Genome Regulation and Structure, BGRS'98, Institute of Cytology and Genetics, Novosibirsk, Russia. Institute of Cytology and Genetics, Novosibirsk, Russia, Vol. 2, pp. 249-250.
17. Burge, C.B. and Karlin, S. (1998) Curr. Opin. Struct. Biol., 8, 346-354.
18. Thanaraj, T.A. (1999) Nucleic Acids Res., 27, 2627-2637.
19. Brunak, S., Engelbrecht, J. and Knudsen, S. (1991) J. Mol. Biol., 220, 49-65.
20. Brunak, S. and Rouze, P. (1999) http://www.cbs.dtu.dk/services/ NetGene2/
21. Reese, M.G., Eeckman, F.H., Kulp, D. and Haussler, D. (1997) J. Comp. Biol., 4, 311-323.
22. Reese, M. and Harris, N. (1999) http://www-hgc.lbl.gov/projects/ splice.html
23. Solovyev, V.V., Salamov, A.A. and Lawrence, C.B. (1994) Nucleic Acids Res., 22, 5156-5163.
24. Rogozin, I.B. and Milanesi, L. (1997) J. Mol. Evol., 45, 50-59.
25. Rogozin, I.B. and Milanesi, L. (1999) http://125.itha.mi.cnr.it/~webgene/ wwwspliceview.html
26. Uberbacher, E.C. and Mural, R.J. (1991) Proc. Natl Acad. Sci. USA, 88, 11261-11265.
27. Uberbacher, E.C. and Mural, R.J. (1999) http://compbio.ornl.gov/ Grail-bin/EmptyGrailForm
28. Zhang, M.Q. (1997) Proc. Natl Acad. Sci. USA, 94, 565-568.
29. Zhang, M.Q. (1999) http://sciclio.cshl.org/genefinder/
30. Deutsch, M. and Long, M. (1999) Nucleic Acids Res., 27, 3219-3228.