Log on / register
Feedback | Support | My details
RSEARCH: finding homologs of single structured RNA sequences.
Klein RJ, Eddy SR
BMC Bioinformatics 2003 Sep 22, 4:44
[Full text] [PubMed] [Related articles] [Cited on BioMed Central]


printer friendly 
to  [Help]

PubMed Central articles that cite the above article:

1.
A benchmark of multiple sequence alignment programs upon structural RNAs.
Gardner PP, Wilm A, Washietl S
Nucleic Acids Res 2005, 33:2433-9
 [PubMed Central] [PubMed] [Related articles]
2.
Human microRNA prediction through a probabilistic co-learning model of sequence and structure.
Nam JW, Shin KR, Han J, Lee Y, Kim VN, Zhang BT
Nucleic Acids Res 2005, 33:3570-81
 [PubMed Central] [PubMed] [Related articles]
3.
Exploring genomic dark matter: a critical assessment of the performance of homology search methods on noncoding RNA.
Freyhult EK, Bollback JP, Gardner PP
Genome Res 2007 Jan, 17:117-25
 [PubMed Central] [PubMed] [Related articles]
4.
Query-dependent banding (QDB) for faster RNA similarity searches.
Nawrocki EP, Eddy SR
PLoS Comput Biol 2007 Mar 30, 3:e56
 [PubMed Central] [PubMed] [Related articles]
5.
Using RNA secondary structures to guide sequence motif finding towards single-stranded regions.
Hiller M, Pudimat R, Busch A, Backofen R
Nucleic Acids Res 2006, 34:e117
 [PubMed Central] [PubMed] [Related articles]
6.
A computational pipeline for high- throughput discovery of cis-regulatory noncoding RNA in prokaryotes.
Yao Z, Barrick J, Weinberg Z, Neph S, Breaker R, Tompa M, Ruzzo WL
PLoS Comput Biol 2007 Jul, 3:e126
 [PubMed Central] [PubMed] [Related articles]
7.
*** Unable to retrieve article 17616982 ***

 [PubMed Central] [PubMed] [Related articles]
8.
A search for structurally similar cellular internal ribosome entry sites.
Baird SD, Lewis SM, Turcotte M, Holcik M
Nucleic Acids Res 2007, 35:4664-77
 [PubMed Central] [PubMed] [Related articles]
9.
Identification of 22 candidate structured RNAs in bacteria using the CMfinder comparative genomics pipeline.
Weinberg Z, Barrick JE, Yao Z, Roth A, Kim JN, Gore J, Wang JX, Lee ER, Block KF, Sudarsan N, Neph S, Tompa M, Ruzzo WL, Breaker RR
Nucleic Acids Res 2007, 35:4809-19
 [PubMed Central] [PubMed] [Related articles]
10.
Fast pairwise structural RNA alignments by pruning of the dynamical programming matrix.
Havgaard JH, Torarinsson E, Gorodkin J
PLoS Comput Biol 2007 Oct, 3:1896-908
 [PubMed Central] [PubMed] [Related articles]
11.
*** Unable to retrieve article 17937495 ***

 [PubMed Central] [PubMed] [Related articles]
12.
Genome-wide searching with base-pairing kernel functions for noncoding RNAs: computational and expression analysis of snoRNA families in Caenorhabditis elegans.
Morita K, Saito Y, Sato K, Oka K, Hotta K, Sakakibara Y
Nucleic Acids Res 2009 Feb, 37:999-1009
 [PubMed Central] [PubMed] [Related articles]
13.
A bioinformatics search pipeline, RNA2DSearch, identifies RNA localization elements in Drosophila retrotransposons.
Hamilton RS, Hartswood E, Vendra G, Jones C, Van De Bor V, Finnegan D, Davis I
RNA 2009 Feb, 15:200-7
 [PubMed Central] [PubMed] [Related articles]
14.
Local RNA structure alignment with incomplete sequence.
Kolbe DL, Eddy SR
Bioinformatics 2009 May 15, 25:1236-43
 [PubMed Central] [PubMed] [Related articles]
15.
Informatic resources for identifying and annotating structural RNA motifs.
George AD, Tenenbaum SA
Mol Biotechnol 2009 Feb, 41:180-93
 [PubMed Central] [PubMed] [Related articles]
16.
Systematic identification and characterization of chicken (Gallus gallus) ncRNAs.
Zhang Y, Wang J, Huang S, Zhu X, Liu J, Yang N, Song D, Wu R, Deng W, Skogerbø G, Wang XJ, Chen R, Zhu D
Nucleic Acids Res 2009 Oct, 37:6562-74
 [PubMed Central] [PubMed] [Related articles]

This article is also cited by 16 articles in BioMed Central


You can also check ISI Web of Science for additional citations (subscription required)
printer friendly 
to  [Help]
Terms and Conditions Privacy statement Information for advertisers Jobs at BMC Contact us
© 1999-2009 BioMed Central Ltd unless otherwise stated. Part of Springer Science+Business Media.