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Results: 1 to 20 of 78

Similar articles for PubMed (Select 19257906)

1.

RNAslider: a faster engine for consecutive windows folding and its application to the analysis of genomic folding asymmetry.

Horesh Y, Wexler Y, Lebenthal I, Ziv-Ukelson M, Unger R.

BMC Bioinformatics. 2009 Mar 4;10:76. doi: 10.1186/1471-2105-10-76.

2.
3.

An efficient alignment algorithm for searching simple pseudoknots over long genomic sequence.

Ma C, Wong TK, Lam TW, Hon WK, Sadakane K, Yiu SM.

IEEE/ACM Trans Comput Biol Bioinform. 2012 Nov-Dec;9(6):1629-38.

PMID:
22848134
4.

A study of accessible motifs and RNA folding complexity.

Wexler Y, Zilberstein C, Ziv-Ukelson M.

J Comput Biol. 2007 Jul-Aug;14(6):856-72.

PMID:
17691898
5.

Rnall: an efficient algorithm for predicting RNA local secondary structural landscape in genomes.

Wan XF, Lin G, Xu D.

J Bioinform Comput Biol. 2006 Oct;4(5):1015-31.

PMID:
17099939
6.
7.

pknotsRG: RNA pseudoknot folding including near-optimal structures and sliding windows.

Reeder J, Steffen P, Giegerich R.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W320-4. Epub 2007 May 3.

8.

Variations on RNA folding and alignment: lessons from Benasque.

Bompfünewerer AF, Backofen R, Bernhart SH, Hertel J, Hofacker IL, Stadler PF, Will S.

J Math Biol. 2008 Jan;56(1-2):129-44. Epub 2007 Jul 5.

PMID:
17611759
9.

Computing folding pathways between RNA secondary structures.

Dotu I, Lorenz WA, Van Hentenryck P, Clote P.

Nucleic Acids Res. 2010 Mar;38(5):1711-22. doi: 10.1093/nar/gkp1054. Epub 2009 Dec 30.

10.

Prediction of locally stable RNA secondary structures for genome-wide surveys.

Hofacker IL, Priwitzer B, Stadler PF.

Bioinformatics. 2004 Jan 22;20(2):186-90.

11.

A comparison of RNA folding measures.

Freyhult E, Gardner PP, Moulton V.

BMC Bioinformatics. 2005 Oct 3;6:241.

12.

Practicality and time complexity of a sparsified RNA folding algorithm.

Dimitrieva S, Bucher P.

J Bioinform Comput Biol. 2012 Apr;10(2):1241007. doi: 10.1142/S0219720012410077.

PMID:
22809342
13.

Structural RNA has lower folding energy than random RNA of the same dinucleotide frequency.

Clote P, Ferré F, Kranakis E, Krizanc D.

RNA. 2005 May;11(5):578-91.

14.

Structural alignment of pseudoknotted RNA.

Han B, Dost B, Bafna V, Zhang S.

J Comput Biol. 2008 Jun;15(5):489-504. doi: 10.1089/cmb.2007.0214.

PMID:
18549303
15.

On the combinatorics of sparsification.

Huang FW, Reidys CM.

Algorithms Mol Biol. 2012 Oct 22;7(1):28. doi: 10.1186/1748-7188-7-28.

16.
17.

RNAspa: a shortest path approach for comparative prediction of the secondary structure of ncRNA molecules.

Horesh Y, Doniger T, Michaeli S, Unger R.

BMC Bioinformatics. 2007 Oct 1;8:366.

18.

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. doi: 10.1371/journal.pcbi.1000124.

19.

Discretized torsional dynamics and the folding of an RNA chain.

Fernández A, Salthú R, Cendra H.

Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1999 Aug;60(2 Pt B):2105-19.

PMID:
11970003
20.

Designing filters for fast-known NcRNA identification.

Sun Y, Buhler J, Yuan C.

IEEE/ACM Trans Comput Biol Bioinform. 2012 May-Jun;9(3):774-87. doi: 10.1109/TCBB.2011.149.

PMID:
22084145
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