BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

223 related articles for article (PubMed ID: 18304945)

  • 1. PARTS: probabilistic alignment for RNA joinT secondary structure prediction.
    Harmanci AO; Sharma G; Mathews DH
    Nucleic Acids Res; 2008 Apr; 36(7):2406-17. PubMed ID: 18304945
    [TBL] [Abstract][Full Text] [Related]  

  • 2. TurboFold: iterative probabilistic estimation of secondary structures for multiple RNA sequences.
    Harmanci AO; Sharma G; Mathews DH
    BMC Bioinformatics; 2011 Apr; 12():108. PubMed ID: 21507242
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Stochastic sampling of the RNA structural alignment space.
    Harmanci AO; Sharma G; Mathews DH
    Nucleic Acids Res; 2009 Jul; 37(12):4063-75. PubMed ID: 19429694
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign.
    Harmanci AO; Sharma G; Mathews DH
    BMC Bioinformatics; 2007 Apr; 8():130. PubMed ID: 17445273
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Predicting a set of minimal free energy RNA secondary structures common to two sequences.
    Mathews DH
    Bioinformatics; 2005 May; 21(10):2246-53. PubMed ID: 15731207
    [TBL] [Abstract][Full Text] [Related]  

  • 6. TurboFold II: RNA structural alignment and secondary structure prediction informed by multiple homologs.
    Tan Z; Fu Y; Sharma G; Mathews DH
    Nucleic Acids Res; 2017 Nov; 45(20):11570-11581. PubMed ID: 29036420
    [TBL] [Abstract][Full Text] [Related]  

  • 7. 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]  

  • 8. RNA Sampler: a new sampling based algorithm for common RNA secondary structure prediction and structural alignment.
    Xu X; Ji Y; Stormo GD
    Bioinformatics; 2007 Aug; 23(15):1883-91. PubMed ID: 17537756
    [TBL] [Abstract][Full Text] [Related]  

  • 9. RNA structural alignments, part II: non-Sankoff approaches for structural alignments.
    Asai K; Hamada M
    Methods Mol Biol; 2014; 1097():291-301. PubMed ID: 24639165
    [TBL] [Abstract][Full Text] [Related]  

  • 10. DAFS: simultaneous aligning and folding of RNA sequences via dual decomposition.
    Sato K; Kato Y; Akutsu T; Asai K; Sakakibara Y
    Bioinformatics; 2012 Dec; 28(24):3218-24. PubMed ID: 23060618
    [TBL] [Abstract][Full Text] [Related]  

  • 11. 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]  

  • 12. DIAL: a web server for the pairwise alignment of two RNA three-dimensional structures using nucleotide, dihedral angle and base-pairing similarities.
    Ferrè F; Ponty Y; Lorenz WA; Clote P
    Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W659-68. PubMed ID: 17567620
    [TBL] [Abstract][Full Text] [Related]  

  • 13. RNAG: a new Gibbs sampler for predicting RNA secondary structure for unaligned sequences.
    Wei D; Alpert LV; Lawrence CE
    Bioinformatics; 2011 Sep; 27(18):2486-93. PubMed ID: 21788211
    [TBL] [Abstract][Full Text] [Related]  

  • 14. 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]  

  • 15. 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]  

  • 16. Accelerated probabilistic inference of RNA structure evolution.
    Holmes I
    BMC Bioinformatics; 2005 Mar; 6():73. PubMed ID: 15790387
    [TBL] [Abstract][Full Text] [Related]  

  • 17. An iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots.
    Ruan J; Stormo GD; Zhang W
    Bioinformatics; 2004 Jan; 20(1):58-66. PubMed ID: 14693809
    [TBL] [Abstract][Full Text] [Related]  

  • 18. R3D Align: global pairwise alignment of RNA 3D structures using local superpositions.
    Rahrig RR; Leontis NB; Zirbel CL
    Bioinformatics; 2010 Nov; 26(21):2689-97. PubMed ID: 20929913
    [TBL] [Abstract][Full Text] [Related]  

  • 19. 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]  

  • 20. A memory efficient method for structure-based RNA multiple alignment.
    DeBlasio D; Bruand J; Zhang S
    IEEE/ACM Trans Comput Biol Bioinform; 2012; 9(1):1-11. PubMed ID: 21576754
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 12.