Displaying the information contents of structural rna alignments: The structure logos

Bioinformatics

Volumn 13, Issue 6, 1997, Pages 583-586

  Gorodkin, J ^a   Heyer, L J ^b   Brunak, S ^a   Stormo, G D ^c  

^a TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

^b UNIVERSITY OF COLORADO   (United States)

^c UNIVERSITY OF COLORADO SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BASE PAIRING; COMPUTER PROGRAM; PRIORITY JOURNAL; RNA SEQUENCE; SEQUENCE ANALYSIS;

ALGORITHMS; BASE COMPOSITION; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; MATHEMATICS; NUCLEIC ACID CONFORMATION; NUCLEIC ACID HYBRIDIZATION; RNA; SEQUENCE ALIGNMENT;

EID: 0031473030     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/13.6.583     Document Type: Article

References (11)

1. Cover.T.M. and Thomas.J.A. (1991) Elements of Information Theory. Wiley Series in Telecommunications. John Wiley and Sons, USA.
2. Gorodkin J., Heyer L.J. and Stormo, G.D. (1997a) Finding common sequence and structure motifs in a set of RNA sequences. In Gaasterland, T. et al. (eds.): Proceedings of the Fifth International Conference on Intelligent Systems in Molecular Biology. AAA1 Press, Menlo Park, CA, pp. 120-123.
3. Gorodkin J., Heyer L.J. and Stormo, G.D. (1997b) Finding the most significant common sequence and structure motifs in a set of RNA sequences. Nucleic Acids Res. 25, 3724-3732.
4. Gutell.R.R.. Power.A., Hertz.G.Z.. Putz.E. and Stonno.G.D. (1992) Identifying constraints on the higher-order structure of RNA: Continued development and application of comparative sequence analysis methods. Nucleic Acids Res.. 20. 5785-5795.
5. Hertz.G.Z. and Stormo.G.D. (1995) Identification of consensus patterns in unaligned DNA and protein sequences: A large-deviation statistical basis for penalizing gaps. In Lim.H.A. and Cantor.C.R. (eds). Proceedings of the Third International Conference on Bioinformatics and Genome Research. WORLD Scientific Publishing Co. Ltd, Singapore, pp. 201-216.
6. Hertz G.Z., Hartzell G.W., III and Stormo G.D. (1990) Identification of consensus patterns in unaligned DNA sequences known to be functionally related. Comput. Applic. Biosci, 6. 81-92.
7. Le.S., Shapiro.B.A., Chen.J.. Nussinov.R. and Maizel.J.V. (1991) RNA pseudoknots downstream of the frameshift sites of retrovirus. Genet. Anal. Tech. Applic, 8, 191-205.
8. Schneider.D.. Tuerk, C. and Gold.L. (1992) Ligands to the bacteriophage R17 coat protein../. Mol. Bioi, 228, 862-869.
9. Schneider, T.D. and Stephens, R.M. (1990) Sequence logos: a new way to display consensus sequences. Nucleic Acids Res., 18,6097-6100.
10. Tuerk.C. and Gold, L. (1990) Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science, 249, 505-510.
11. Tuerk.C. MacDougal.S. and Gold, L. (1992) RNA pseudoknots that inhibit human immunodeficiency virus type 1 reverse transcriptase. Proc NatlAcad.Sci USA. 89. 6988-6992.