280 related articles for article (PubMed ID: 16204111)
1. RNA secondary structural alignment with conditional random fields.
Sato K; Sakakibara Y
Bioinformatics; 2005 Sep; 21 Suppl 2():ii237-42. PubMed ID: 16204111
[TBL] [Abstract][Full Text] [Related]
2. A local multiple alignment method for detection of non-coding RNA sequences.
Tabei Y; Asai K
Bioinformatics; 2009 Jun; 25(12):1498-505. PubMed ID: 19376823
[TBL] [Abstract][Full Text] [Related]
3. Considerations in the identification of functional RNA structural elements in genomic alignments.
Babak T; Blencowe BJ; Hughes TR
BMC Bioinformatics; 2007 Jan; 8():33. PubMed ID: 17263882
[TBL] [Abstract][Full Text] [Related]
4. SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments.
Tabei Y; Tsuda K; Kin T; Asai K
Bioinformatics; 2006 Jul; 22(14):1723-9. PubMed ID: 16690634
[TBL] [Abstract][Full Text] [Related]
5. Robust prediction of consensus secondary structures using averaged base pairing probability matrices.
Kiryu H; Kin T; Asai K
Bioinformatics; 2007 Feb; 23(4):434-41. PubMed ID: 17182698
[TBL] [Abstract][Full Text] [Related]
6. A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences.
Ji Y; Xu X; Stormo GD
Bioinformatics; 2004 Jul; 20(10):1591-602. PubMed ID: 14962926
[TBL] [Abstract][Full Text] [Related]
7. Alignment of RNA base pairing probability matrices.
Hofacker IL; Bernhart SH; Stadler PF
Bioinformatics; 2004 Sep; 20(14):2222-7. PubMed ID: 15073017
[TBL] [Abstract][Full Text] [Related]
8. Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%.
Havgaard JH; Lyngsø RB; Stormo GD; Gorodkin J
Bioinformatics; 2005 May; 21(9):1815-24. PubMed ID: 15657094
[TBL] [Abstract][Full Text] [Related]
9. Murlet: a practical multiple alignment tool for structural RNA sequences.
Kiryu H; Tabei Y; Kin T; Asai K
Bioinformatics; 2007 Jul; 23(13):1588-98. PubMed ID: 17459961
[TBL] [Abstract][Full Text] [Related]
10. NcDNAlign: plausible multiple alignments of non-protein-coding genomic sequences.
Rose D; Hertel J; Reiche K; Stadler PF; Hackermüller J
Genomics; 2008 Jul; 92(1):65-74. PubMed ID: 18511233
[TBL] [Abstract][Full Text] [Related]
11. CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs score.
Hamada M; Sato K; Kiryu H; Mituyama T; Asai K
Bioinformatics; 2009 Dec; 25(24):3236-43. PubMed ID: 19808876
[TBL] [Abstract][Full Text] [Related]
12. CONTRAfold: RNA secondary structure prediction without physics-based models.
Do CB; Woods DA; Batzoglou S
Bioinformatics; 2006 Jul; 22(14):e90-8. PubMed ID: 16873527
[TBL] [Abstract][Full Text] [Related]
13. ARTS: alignment of RNA tertiary structures.
Dror O; Nussinov R; Wolfson H
Bioinformatics; 2005 Sep; 21 Suppl 2():ii47-53. PubMed ID: 16204124
[TBL] [Abstract][Full Text] [Related]
14. PALMA: mRNA to genome alignments using large margin algorithms.
Schulze U; Hepp B; Ong CS; Rätsch G
Bioinformatics; 2007 Aug; 23(15):1892-900. PubMed ID: 17537755
[TBL] [Abstract][Full Text] [Related]
15. RNA structure alignment by a unit-vector approach.
Capriotti E; Marti-Renom MA
Bioinformatics; 2008 Aug; 24(16):i112-8. PubMed ID: 18689811
[TBL] [Abstract][Full Text] [Related]
16. Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures.
Matsui H; Sato K; Sakakibara Y
Proc IEEE Comput Syst Bioinform Conf; 2004; ():290-9. PubMed ID: 16448022
[TBL] [Abstract][Full Text] [Related]
17. Multiple structural alignment and clustering of RNA sequences.
Torarinsson E; Havgaard JH; Gorodkin J
Bioinformatics; 2007 Apr; 23(8):926-32. PubMed ID: 17324941
[TBL] [Abstract][Full Text] [Related]
18. MASTR: multiple alignment and structure prediction of non-coding RNAs using simulated annealing.
Lindgreen S; Gardner PP; Krogh A
Bioinformatics; 2007 Dec; 23(24):3304-11. PubMed ID: 18006551
[TBL] [Abstract][Full Text] [Related]
19. StructMiner: a tool for alignment and detection of conserved secondary structure.
Yang Q; Blanchette M
Genome Inform; 2004; 15(2):102-11. PubMed ID: 15706496
[TBL] [Abstract][Full Text] [Related]
20. Pair stochastic tree adjoining grammars for aligning and predicting pseudoknot RNA structures.
Matsui H; Sato K; Sakakibara Y
Bioinformatics; 2005 Jun; 21(11):2611-7. PubMed ID: 15784748
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]