Information for the Coordinates of Exons (ICE): A human splice sites database

Genomics

Volumn 84, Issue 4, 2004, Pages 762-766

  Chong, Allen ^a   Zhang, Guanglan ^a   Bajic, Vladimir B ^a  

^a INSTITUTE FOR INFOCOMM RESEARCH   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA;

ARTICLE; DATA BASE; EXON; GENE SEQUENCE; GENETIC TRANSCRIPTION; MOLECULAR BIOLOGY; PRIORITY JOURNAL; RNA SPLICING;

COMPUTATIONAL BIOLOGY; CONSENSUS SEQUENCE; CONSERVED SEQUENCE; DATABASES; EXONS; GENOME, HUMAN; HUMANS; INTRONS; RNA SPLICE SITES; RNA SPLICING; SOFTWARE;

EID: 4744367570     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ygeno.2004.05.007     Document Type: Article

References (24)

1. A.J. Lopez Alternative splicing of pre-mRNA: developmental consequences and mechanisms of regulation Annu. Rev. Genet. 32 1998 279 305
2. L. Cartegni, S.L. Chew, and A.R. Krainer Listening to silence and understanding nonsense: exonic mutations that affect splicing Nat. Rev. Genet. 3 2002 285 298
3. T.A. Thanaraj, and F. Clark Human GC-AG alternative intron isoforms with weak donor sites show enhanced consensus at acceptor exon positions Nucleic Acids Res. 29 2001 2581 2593
4. F. Clark, and T.A. Thanaraj Categorization and characterization of transcript-confirmed constitutively and alternatively spliced introns and exons from human Hum. Mol. Genet. 11 2002 451 464
5. N. Gromak, and C.W.J. Smith A splicing silencer that regulates smooth muscle specific alternative splicing is active in multiple cell types Nucleic Acids Res. 30 2002 3548 3557
6. Y.-H. Huang, Y.-T. Chen, J.-J. Lai, S.-T. Yang, and U.-C. Yang PALS db: Putative Alternative Splicing database Nucleic Acids Res. 30 2002 186 190
7. Q. Xu, B. Modrek, and C. Lee Genome-wide detection of tissue-specific alternative splicing in the human transcriptome Nucleic Acids Res. 30 2002 3754 3766
8. C. Lee, L. Atanelov, B. Modrek, and Y. Xing ASAP: the Alternative Splicing Annotation Project Nucleic Acids Res. 31 2003 101 105
9. E. Miriami, H. Margalit, and R. Sperling Conserved sequence elements associated with exon skipping Nucleic Acids Res. 31 2003 1974 1983
10. G.C. Roberts, and C.W. Smith Alternative splicing: combinatorial output from the genome Curr. Opin. Chem. Biol. 6 2002 375 383
11. M. Nissim-Rafinia, and B. Kerem Splicing regulation as a potential genetic modifier Trends Genet. 18 2002 123 127
12. T.A. Thanaraj A clean data set of EST-confirmed splice sites from Homo sapiens and standards for clean-up procedures Nucleic Acids Res. 27 1999 2627 2637
13. M. Burset, I.A. Seledtsov, and V.V. Solovyev Analysis of canonical and non-canonical splice sites in mammalian genomes Nucleic Acids Res. 28 2000 4364 4375
14. M. Burset, I.A. Seledtsov, and V.V. Solovyev SpliceDB: database of canonical and non-canonical mammalian splice sites Nucleic Acids Res. 29 2001 255 259
15. K. Maruyama, and S. Sugano Oligo-capping: a simple method to replace the cap structure of eukaryotic mRNAs with oligoribonucleotides Gene 138 1994 171 174
16. V.B. Bajic Computer model for recognition of functional transcription start sites in polymerase II promoters of vertebrates J. Mol. Graphics Model. 21 2003 323 332
17. V.B. Bajic, A. Chong, S.H. Seah, and V. Brusic Intelligent system for vertebrate promoter recognition IEEE Intelligent Syst. Mag. 17 2002 64 70
18. D.R. Maglott, K.S. Katz, H. Sicotte, and K.D. Pruitt NCBI's LocusLink and RefSeq Nucleic Acids Res. 28 2000 126 128
19. K.D. Pruitt, K.S. Katz, H. Sicotte, and D.R. Maglott Introducing RefSeq and LocusLink: curated human genome resources at the NCBI Trends Genet. 16 2000 44 47
20. K.D. Pruitt, and D.R. Maglott RefSeq and LocusLink: NCBI gene-centered resources Nucleic Acids Res. 29 2001 137 140
21. E.S. Lander Initial sequencing and analysis of the human genome Nature 409 2001 860 921
22. J.C. Venter The sequence of the human genome Science 291 2001 1304 1351
23. F.S. Collins, E.D. Green, A.E. Guttmacher, and M.S. Guyer A vision for the future of genomics research Nature 24 2003 835
24. A. Chong, G. Zhang, and V.B. Bajic FIE2: a program for the extraction of genomic DNA sequences around the start and translation initiation site of human genes Nucleic Acids Res. 31 2003 3546 3553