PubMed

An image processing approach to computing distances between RNA secondary structures dot plots.

Ivry T, Michal S, Avihoo A, Sapiro G, Barash D.

Algorithms Mol Biol. 2009 Feb 9;4:4.PMID: 19203377 [PubMed]Related articlesFree article

An efficient method for the prediction of deleterious multiple-point mutations in the secondary structure of RNAs using suboptimal folding solutions.

Churkin A, Barash D.

BMC Bioinformatics. 2008 Apr 29;9:222.PMID: 18445289 [PubMed - indexed for MEDLINE]Related articlesFree article

A new algorithm for RNA secondary structure design.

Andronescu M, Fejes AP, Hutter F, Hoos HH, Condon A.

J Mol Biol. 2004 Feb 20;336(3):607-24.PMID: 15095976 [PubMed - indexed for MEDLINE]Related articles

RNACompress: Grammar-based compression and informational complexity measurement of RNA secondary structure.

Liu Q, Yang Y, Chen C, Bu J, Zhang Y, Ye X.

BMC Bioinformatics. 2008 Mar 31;9:176.PMID: 18373878 [PubMed - indexed for MEDLINE]Related articlesFree article

Fuzzy kernel clustering of RNA secondary structure ensemble using a novel similarity metric.

Liu Q, Zhang Y, Xu Y, Ye X.

J Biomol Struct Dyn. 2008 Jun;25(6):685-96.PMID: 18399702 [PubMed - indexed for MEDLINE]Related articles

Deleterious mutation prediction in the secondary structure of RNAs.

Barash D.

Nucleic Acids Res. 2003 Nov 15;31(22):6578-84.PMID: 14602917 [PubMed - indexed for MEDLINE]Related articlesFree article

RNAmute: RNA secondary structure mutation analysis tool.

Churkin A, Barash D.

BMC Bioinformatics. 2006 Apr 25;7:221.PMID: 16638137 [PubMed - indexed for MEDLINE]Related articlesFree article

Using reliability information to annotate RNA secondary structures.

Zuker M, Jacobson AB.

RNA. 1998 Jun;4(6):669-79.PMID: 9622126 [PubMed - indexed for MEDLINE]Related articlesFree article

Efficient algorithms for probing the RNA mutation landscape.

Waldispühl J, Devadas S, Berger B, Clote P.

PLoS Comput Biol. 2008 Aug 8;4(8):e1000124.PMID: 18688270 [PubMed - indexed for MEDLINE]Related articlesFree article

Distance matrix-based approach to protein structure prediction.

Kloczkowski A, Jernigan RL, Wu Z, Song G, Yang L, Kolinski A, Pokarowski P.

J Struct Funct Genomics. 2009 Mar;10(1):67-81. Epub 2009 Feb 18.PMID: 19224393 [PubMed - indexed for MEDLINE]Related articles

Recognition of the folding consensus in RNA secondary structures by the topological-filtering method.

Benedetti G, Morosetti S.

Eur J Biochem. 1991 Dec 5;202(2):241-8.PMID: 1722147 [PubMed - indexed for MEDLINE]Related articlesFree article

RNACluster: An integrated tool for RNA secondary structure comparison and clustering.

Liu Q, Olman V, Liu H, Ye X, Qiu S, Xu Y.

J Comput Chem. 2008 Jul 15;29(9):1517-26.PMID: 18271070 [PubMed - indexed for MEDLINE]Related articles

A novel representation of RNA secondary structure based on element-contact graphs.

Shu W, Bo X, Zheng Z, Wang S.

BMC Bioinformatics. 2008 Apr 11;9:188.PMID: 18402706 [PubMed - indexed for MEDLINE]Related articlesFree article

Classification of RNA secondary structures using the techniques of cluster analysis.

Nakaya A, Yonezawa A, Yamamoto K.

J Theor Biol. 1996 Nov 7;183(1):105-17.PMID: 8959113 [PubMed - indexed for MEDLINE]Related articles

Statistics of RNA secondary structures.

Fontana W, Konings DA, Stadler PF, Schuster P.

Biopolymers. 1993 Sep;33(9):1389-404.PMID: 7691201 [PubMed - indexed for MEDLINE]Related articles

RNA STRAND: the RNA secondary structure and statistical analysis database.

Andronescu M, Bereg V, Hoos HH, Condon A.

BMC Bioinformatics. 2008 Aug 13;9:340.PMID: 18700982 [PubMed - indexed for MEDLINE]Related articlesFree article

Use of statistical measures for analyzing RNA secondary structures.

Dai Q, Wang TM.

J Comput Chem. 2008 Jun;29(8):1292-305.PMID: 18172840 [PubMed - indexed for MEDLINE]Related articles

A dynamic programming approach for finding common patterns in RNAs.

Siebert S, Backofen R.

J Comput Biol. 2007 Jan-Feb;14(1):33-44.PMID: 17381344 [PubMed - indexed for MEDLINE]Related articles

Prediction of RNA secondary structure with pseudoknots using integer programming.

Poolsap U, Kato Y, Akutsu T.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S38.PMID: 19208139 [PubMed - indexed for MEDLINE]Related articlesFree article

A graph-topological approach to recognition of pattern and similarity in RNA secondary structures.

Benedetti G, Morosetti S.

Biophys Chem. 1996 Mar 7;59(1-2):179-84.PMID: 8867337 [PubMed - indexed for MEDLINE]Related articles