RNA motif search with data-driven element ordering

Author:

Rampášek Ladislav,Jimenez Randi M.,Lupták Andrej,Vinař Tomáš,Brejová Broňa

Funder

Vedecká Grantová Agentúra MŠVVaŠ SR a SAV

Agentúra na Podporu Výskumu a Vývoja

Pew Charitable Trusts

National Institutes of Health

National Science Foundation

Publisher

Springer Science and Business Media LLC

Subject

Applied Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Structural Biology

Reference51 articles.

1. Griffiths-Jones S, Bateman A, Marshall M, Khanna A, Eddy SR. Rfam: an RNA family database. Nucleic Acids Res. 2003; 31(1):439–41.

2. Yao Z, Weinberg Z, Ruzzo WL. CMfinder–a covariance model based RNA motif finding algorithm. Bioinformatics. 2006; 22(4):445–52.

3. Nawrocki EP, Kolbe DL, Eddy SR. Infernal 1.0: inference of RNA alignments. Bioinformatics. 2009; 25(10):1335–7.

4. Gautheret D, Major F, Cedergren R. Pattern searching/alignment with RNA primary and secondary structures: an effective descriptor for tRNA. Comput Appl Biosci. 1990; 6(4):325–1.

5. Eddy SR. RNABob: a program to search for RNA secondary structure motifs in sequence databases. 1996. unpublished.

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