BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

255 related articles for article (PubMed ID: 32949490)

  • 1. Modeling Loop Composition and Ion Concentration Effects in RNA Hairpin Folding Stability.
    Zhao C; Zhang D; Jiang Y; Chen SJ
    Biophys J; 2020 Oct; 119(7):1439-1455. PubMed ID: 32949490
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Vfold2D-MC: A Physics-Based Hybrid Model for Predicting RNA Secondary Structure Folding.
    Cheng Y; Zhang S; Xu X; Chen SJ
    J Phys Chem B; 2021 Sep; 125(36):10108-10118. PubMed ID: 34473508
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Predicting 3D Structure, Flexibility, and Stability of RNA Hairpins in Monovalent and Divalent Ion Solutions.
    Shi YZ; Jin L; Wang FH; Zhu XL; Tan ZJ
    Biophys J; 2015 Dec; 109(12):2654-2665. PubMed ID: 26682822
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Predicting 3D structure and stability of RNA pseudoknots in monovalent and divalent ion solutions.
    Shi YZ; Jin L; Feng CJ; Tan YL; Tan ZJ
    PLoS Comput Biol; 2018 Jun; 14(6):e1006222. PubMed ID: 29879103
    [TBL] [Abstract][Full Text] [Related]  

  • 5. SimRNA: a coarse-grained method for RNA folding simulations and 3D structure prediction.
    Boniecki MJ; Lach G; Dawson WK; Tomala K; Lukasz P; Soltysinski T; Rother KM; Bujnicki JM
    Nucleic Acids Res; 2016 Apr; 44(7):e63. PubMed ID: 26687716
    [TBL] [Abstract][Full Text] [Related]  

  • 6. A coarse-grained model with implicit salt for RNAs: predicting 3D structure, stability and salt effect.
    Shi YZ; Wang FH; Wu YY; Tan ZJ
    J Chem Phys; 2014 Sep; 141(10):105102. PubMed ID: 25217954
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Modeling of Three-Dimensional RNA Structures Using SimRNA.
    Wirecki TK; Nithin C; Mukherjee S; Bujnicki JM; Boniecki MJ
    Methods Mol Biol; 2020; 2165():103-125. PubMed ID: 32621221
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Free energy profile of RNA hairpins: a molecular dynamics simulation study.
    Deng NJ; Cieplak P
    Biophys J; 2010 Feb; 98(4):627-36. PubMed ID: 20159159
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Theoretical predictions of DNA hairpin loop conformations: correlations with thermodynamic and spectroscopic data.
    Erie DA; Suri AK; Breslauer KJ; Jones RA; Olson WK
    Biochemistry; 1993 Jan; 32(2):436-54. PubMed ID: 8422353
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Monovalent ions modulate the flux through multiple folding pathways of an RNA pseudoknot.
    Roca J; Hori N; Baral S; Velmurugu Y; Narayanan R; Narayanan P; Thirumalai D; Ansari A
    Proc Natl Acad Sci U S A; 2018 Jul; 115(31):E7313-E7322. PubMed ID: 30012621
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Coarse-grained modeling of RNA 3D structure.
    Dawson WK; Maciejczyk M; Jankowska EJ; Bujnicki JM
    Methods; 2016 Jul; 103():138-56. PubMed ID: 27125734
    [TBL] [Abstract][Full Text] [Related]  

  • 12. RNA G-quadruplex folding is a multi-pathway process driven by conformational entropy.
    Ugrina M; Burkhart I; Müller D; Schwalbe H; Schwierz N
    Nucleic Acids Res; 2024 Jan; 52(1):87-100. PubMed ID: 37986217
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Sequence-dependent base-stacking stabilities guide tRNA folding energy landscapes.
    Li R; Ge HW; Cho SS
    J Phys Chem B; 2013 Oct; 117(42):12943-52. PubMed ID: 23841777
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Vfold: a web server for RNA structure and folding thermodynamics prediction.
    Xu X; Zhao P; Chen SJ
    PLoS One; 2014; 9(9):e107504. PubMed ID: 25215508
    [TBL] [Abstract][Full Text] [Related]  

  • 15. IsRNA: An Iterative Simulated Reference State Approach to Modeling Correlated Interactions in RNA Folding.
    Zhang D; Chen SJ
    J Chem Theory Comput; 2018 Apr; 14(4):2230-2239. PubMed ID: 29499114
    [TBL] [Abstract][Full Text] [Related]  

  • 16. 3D structure stability of the HIV-1 TAR RNA in ion solutions: A coarse-grained model study.
    Zhang BG; Qiu HH; Jiang J; Liu J; Shi YZ
    J Chem Phys; 2019 Oct; 151(16):165101. PubMed ID: 31675878
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension.
    Hori N; Denesyuk NA; Thirumalai D
    J Mol Biol; 2016 Jul; 428(14):2847-59. PubMed ID: 27315694
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Coarse-grained prediction of RNA loop structures.
    Liu L; Chen SJ
    PLoS One; 2012; 7(11):e48460. PubMed ID: 23144887
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Salt dependence of nucleic acid hairpin stability.
    Tan ZJ; Chen SJ
    Biophys J; 2008 Jul; 95(2):738-52. PubMed ID: 18424500
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Molecular Simulations of Ion Effects on the Thermodynamics of RNA Folding.
    Denesyuk NA; Hori N; Thirumalai D
    J Phys Chem B; 2018 Dec; 122(50):11860-11867. PubMed ID: 30468380
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 13.