BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

208 related articles for article (PubMed ID: 22051375)

  • 1. Lost in folding space? Comparing four variants of the thermodynamic model for RNA secondary structure prediction.
    Janssen S; Schudoma C; Steger G; Giegerich R
    BMC Bioinformatics; 2011 Nov; 12():429. PubMed ID: 22051375
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Abstract shape analysis of RNA.
    Janssen S; Giegerich R
    Methods Mol Biol; 2014; 1097():215-45. PubMed ID: 24639162
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Complete probabilistic analysis of RNA shapes.
    Voss B; Giegerich R; Rehmsmeier M
    BMC Biol; 2006 Feb; 4():5. PubMed ID: 16480488
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Faster computation of exact RNA shape probabilities.
    Janssen S; Giegerich R
    Bioinformatics; 2010 Mar; 26(5):632-9. PubMed ID: 20080511
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Evaluation of a sophisticated SCFG design for RNA secondary structure prediction.
    Nebel ME; Scheid A
    Theory Biosci; 2011 Dec; 130(4):313-36. PubMed ID: 22135038
    [TBL] [Abstract][Full Text] [Related]  

  • 6. 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]  

  • 7. Computing the probability of RNA hairpin and multiloop formation.
    Ding Y; Lorenz WA; Dotu I; Senter E; Clote P
    J Comput Biol; 2014 Mar; 21(3):201-18. PubMed ID: 24559086
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Classified Dynamic Programming in RNA Structure Analysis.
    Voß B
    Methods Mol Biol; 2024; 2726():125-141. PubMed ID: 38780730
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Swellix: a computational tool to explore RNA conformational space.
    Sloat N; Liu JW; Schroeder SJ
    BMC Bioinformatics; 2017 Nov; 18(1):504. PubMed ID: 29157200
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments.
    Seemann SE; Gorodkin J; Backofen R
    Nucleic Acids Res; 2008 Nov; 36(20):6355-62. PubMed ID: 18836192
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Evaluating the effect of disturbed ensemble distributions on SCFG based statistical sampling of RNA secondary structures.
    Scheid A; Nebel ME
    BMC Bioinformatics; 2012 Jul; 13():159. PubMed ID: 22776037
    [TBL] [Abstract][Full Text] [Related]  

  • 12. RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction.
    Washietl S; Hofacker IL; Stadler PF; Kellis M
    Nucleic Acids Res; 2012 May; 40(10):4261-72. PubMed ID: 22287623
    [TBL] [Abstract][Full Text] [Related]  

  • 13. A statistical analysis of RNA folding algorithms through thermodynamic parameter perturbation.
    Layton DM; Bundschuh R
    Nucleic Acids Res; 2005; 33(2):519-24. PubMed ID: 15673712
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Predicting RNA structure: advances and limitations.
    Hofacker IL; Lorenz R
    Methods Mol Biol; 2014; 1086():1-19. PubMed ID: 24136595
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Modeling RNA secondary structure folding ensembles using SHAPE mapping data.
    Spasic A; Assmann SM; Bevilacqua PC; Mathews DH
    Nucleic Acids Res; 2018 Jan; 46(1):314-323. PubMed ID: 29177466
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Rtools: a web server for various secondary structural analyses on single RNA sequences.
    Hamada M; Ono Y; Kiryu H; Sato K; Kato Y; Fukunaga T; Mori R; Asai K
    Nucleic Acids Res; 2016 Jul; 44(W1):W302-7. PubMed ID: 27131356
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Free energy minimization to predict RNA secondary structures and computational RNA design.
    Churkin A; Weinbrand L; Barash D
    Methods Mol Biol; 2015; 1269():3-16. PubMed ID: 25577369
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Crumple: a method for complete enumeration of all possible pseudoknot-free RNA secondary structures.
    Bleckley S; Stone JW; Schroeder SJ
    PLoS One; 2012; 7(12):e52414. PubMed ID: 23300665
    [TBL] [Abstract][Full Text] [Related]  

  • 19. On quantitative effects of RNA shape abstraction.
    Nebel ME; Scheid A
    Theory Biosci; 2009 Nov; 128(4):211-25. PubMed ID: 19756808
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Abstract shapes of RNA.
    Giegerich R; Voss B; Rehmsmeier M
    Nucleic Acids Res; 2004; 32(16):4843-51. PubMed ID: 15371549
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 11.