MGAlignlt: A web service for the alignment of mRNA/EST and genomic sequences

Nucleic Acids Research

Volumn 31, Issue 13, 2003, Pages 3533-3536

  Lee, Bernett T K ^a   Tan, Tin Wee ^a   Ranganathan, Shoba ^a  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

ARTICLE; COMPUTER PROGRAM; COMPUTER SYSTEM; EXON; EXPRESSED SEQUENCE TAG; GENE SEQUENCE; GENE STRUCTURE; GENETIC CODE; GENETIC TRANSCRIPTION; INFORMATION PROCESSING; INFORMATION SERVICE; INTERNET; INTRON; PRIORITY JOURNAL; RNA SPLICING; RNA TRANSLATION; SEQUENCE ALIGNMENT; ALGORITHM; CHEMISTRY; COMPUTER GRAPHICS; DNA SEQUENCE; GENOME; GENOMICS; HUMAN; METHODOLOGY; SEQUENCE ANALYSIS;

ALGORITHMS; COMPUTER GRAPHICS; EXONS; EXPRESSED SEQUENCE TAGS; GENOME, HUMAN; GENOMICS; HUMANS; INTERNET; INTRONS; RNA SPLICING; RNA, MESSENGER; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SEQUENCE ANALYSIS, RNA; SOFTWARE;

EID: 0042121209     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg561     Document Type: Article

References (19)

1. 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. (2001) Initial sequencing and analysis of the human genome. Nature, 409, 860-921.
2. Venter,J.C., Adams,M.D., Myers,E.W., Li,P.W., Mural,R.J., Sutton,G.G., Smith,H.O., Yandell,M., Evans,C.A., Holt,R.A. et al. (2001) The sequence of the human genome. Science, 291, 1304-1351.
3. Blattner,F.R., Plunkett,G., III, Bloch,C.A., Perna,N.T., Burland,V., Riley,M., Collado-Vides,J., Glasner,J.D., Rode,C.K., Mayhew,G.F. et al. (1997) The complete genome sequence of Escherichia coli K-12. Science, 277, 1453-1474.
4. Cherry,J.M., Ball,C., Weng,S., Juvik,G., Schmidt,R., Adler,C., Dunn,B., Dwight,S., Riles,L., Mortimer,R.K. et al. (1997) Genetic and physical maps of Saccharomyces cerevisiae. Nature, 387, 67-73.
5. Holt,R.A., Subramanian,G.M., Halpern,A., Sutton,G.G., Charlab,R., Nusskern,D.R., Wincker,P., Clark,A.G., Ribeiro,J.M., Wides,R. et al. (2002) The genome sequence of the malaria mosquito Anopheles gambiae. Science, 298, 129-149.
6. The Arabidopsis Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature, 408, 796-815.
7. The C. elegans Sequencing Consortium (1998) Genome sequence of the nematode C. elegans: a platform for investigating biology. The C. elegans Sequencing Consortium. Science, 282, 2012-2018.
8. Wood,V., Gwilliam,R., Rajandream,M.A., Lyne,M., Lyne,R., Stewart,A., Sgouros,J., Peat,N., Hayles,J., Baker,S. et al. (2002) The genome sequence of Schizosaccharomyces pombe. Nature, 415, 871-880.
9. Maniatis,T. and Tasic,B. (2002) Alternative pre-mRNA splicing and proteome expansion in metazoans. Nature, 418, 236-243.
10. Black,D.L. (2000) Protein diversity from alternative splicing: a challenge for bioinformatics and post-genome biology. Cell, 103, 367-370.
11. Graveley,B.R. (2001) Alternative splicing: increasing diversity in the proteomic world. Trends Genet., 17, 100-107.
12. Clark,F. and Thanaraj,T.A. (2002) Categorization and characterization of transcript-confirmed constitutively and alternatively spliced introns and exons from human. Hum. Mol. Genet., 11. 451-464.
13. Strausberg,R.L., Feingold,E.A., Klausner,R.D. and Collins,F.S. (1999) The mammalian gene collection. Science, 286, 455-457.
14. Okazaki,Y., Furuno,M., Kasukawa,T., Adachi,J., Bono,H., Kondo,S., Nikaido,I., Osato,N., Saito,R., Suzuki,H. et al. (2002) Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature, 420, 563-573.
15. Boguski,M.S., Lowe,T.M. and Tolstoshev,C.M. (1993) dbEST - database for 'expressed sequence tags'. Nature Genet., 4, 332-333.
16. Altschul,S.F., Gish,W., Miller,W., Myers,E.W. and Lipman,D.J. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410.
17. Falquet,L., Pagni,M., Bucher,P., Hulo,N., Sigrist,C.J., Hofmann,K. and Bairoch,A. (2002) The PROSITE database, its status in 2002. Nucleic Acids Res., 30, 235-238.
18. Benson,D.A., Karsch-Mizrachi,I., Lipman,D.J., Ostell,J. and Wheeler,D.L. (2003) GenBank. Nucleic Acids Res., 31, 23-27.
19. Rutherford,K., Parkhill,J., Crook,J., Horsnell,T., Rice,P., Rajandream,M.A. and Barrell,B. (2000) Artemis: sequence visualization and annotation. Bioinformatics, 16, 944-945.