These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

132 related articles for article (PubMed ID: 26722970)

  • 1. Predicting RNA Duplex Dimerization Free-Energy Changes upon Mutations Using Molecular Dynamics Simulations.
    Sakuraba S; Asai K; Kameda T
    J Phys Chem Lett; 2015 Nov; 6(21):4348-51. PubMed ID: 26722970
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Interplay of LNA and 2'-O-methyl RNA in the structure and thermodynamics of RNA hybrid systems: a molecular dynamics study using the revised AMBER force field and comparison with experimental results.
    Yildirim I; Kierzek E; Kierzek R; Schatz GC
    J Phys Chem B; 2014 Dec; 118(49):14177-87. PubMed ID: 25268896
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Inclusion of methoxy groups inverts the thermodynamic stabilities of DNA-RNA hybrid duplexes: A molecular dynamics simulation study.
    Suresh G; Priyakumar UD
    J Mol Graph Model; 2015 Sep; 61():150-9. PubMed ID: 26254870
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Conformational flexibility influences degree of hydration of nucleic acid hybrids.
    Pramanik S; Nagatoishi S; Saxena S; Bhattacharyya J; Sugimoto N
    J Phys Chem B; 2011 Dec; 115(47):13862-72. PubMed ID: 21992117
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Chemically Accurate Relative Folding Stability of RNA Hairpins from Molecular Simulations.
    Smith LG; Tan Z; Spasic A; Dutta D; Salas-Estrada LA; Grossfield A; Mathews DH
    J Chem Theory Comput; 2018 Dec; 14(12):6598-6612. PubMed ID: 30375860
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Absolute binding free energy calculations of CBClip host-guest systems in the SAMPL5 blind challenge.
    Lee J; Tofoleanu F; Pickard FC; König G; Huang J; Damjanović A; Baek M; Seok C; Brooks BR
    J Comput Aided Mol Des; 2017 Jan; 31(1):71-85. PubMed ID: 27677749
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Comparison of intrinsic stacking energies of ten unique dinucleotide steps in A-RNA and B-DNA duplexes. Can we determine correct order of stability by quantum-chemical calculations?
    Svozil D; Hobza P; Sponer J
    J Phys Chem B; 2010 Jan; 114(2):1191-203. PubMed ID: 20000584
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Simulation of DNA double-strand dissociation and formation during replica-exchange molecular dynamics simulations.
    Kannan S; Zacharias M
    Phys Chem Chem Phys; 2009 Dec; 11(45):10589-95. PubMed ID: 20145803
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Stabilization of duplex DNA and RNA by dangling ends studied by free energy simulations.
    Kara M; Zacharias M
    Biopolymers; 2014 Apr; 101(4):418-27. PubMed ID: 23982924
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Atomistic investigation of the effect of incremental modification of deoxyribose sugars by locked nucleic acid (β-D-LNA and α-L-LNA) moieties on the structures and thermodynamics of DNA-RNA hybrid duplexes.
    Suresh G; Priyakumar UD
    J Phys Chem B; 2014 Jun; 118(22):5853-63. PubMed ID: 24845216
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Evaluation of the Gibbs Free Energy Changes and Melting Temperatures of DNA/DNA Duplexes Using Hybridization Enthalpy Calculated by Molecular Dynamics Simulation.
    Lomzov AA; Vorobjev YN; Pyshnyi DV
    J Phys Chem B; 2015 Dec; 119(49):15221-34. PubMed ID: 26569147
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Estimating Energy Parameters for RNA Secondary Structure Predictions Using Both Experimental and Computational Data.
    Nishida S; Sakuraba S; Asai K; Hamada M
    IEEE/ACM Trans Comput Biol Bioinform; 2019; 16(5):1645-1655. PubMed ID: 29994069
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Nanoscale Dynamics and Energetics of Proteins and Protein-Nucleic Acid Complexes in Classical Molecular Dynamics Simulations.
    Gorle S; Vuković L
    Methods Mol Biol; 2018; 1814():579-592. PubMed ID: 29956256
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Conformational determinants of tandem GU mismatches in RNA: insights from molecular dynamics simulations and quantum mechanical calculations.
    Pan Y; Priyakumar UD; MacKerell AD
    Biochemistry; 2005 Feb; 44(5):1433-43. PubMed ID: 15683228
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Structures, dynamics, and stabilities of fully modified locked nucleic acid (β-D-LNA and α-L-LNA) duplexes in comparison to pure DNA and RNA duplexes.
    Suresh G; Priyakumar UD
    J Phys Chem B; 2013 May; 117(18):5556-64. PubMed ID: 23617391
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Thermodynamics of RNA duplexes with tandem mismatches containing a uracil-uracil pair flanked by C.G/G.C or G.C/A.U closing base pairs.
    Bourdélat-Parks BN; Wartell RM
    Biochemistry; 2005 Dec; 44(50):16710-7. PubMed ID: 16342961
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Determining equilibrium constants for dimerization reactions from molecular dynamics simulations.
    De Jong DH; Schäfer LV; De Vries AH; Marrink SJ; Berendsen HJ; Grubmüller H
    J Comput Chem; 2011 Jul; 32(9):1919-28. PubMed ID: 21469160
    [TBL] [Abstract][Full Text] [Related]  

  • 18. HiRE-RNA: a high resolution coarse-grained energy model for RNA.
    Pasquali S; Derreumaux P
    J Phys Chem B; 2010 Sep; 114(37):11957-66. PubMed ID: 20795690
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Sequence dependence of the stability of RNA hairpin molecules with six nucleotide loops.
    Vecenie CJ; Morrow CV; Zyra A; Serra MJ
    Biochemistry; 2006 Feb; 45(5):1400-7. PubMed ID: 16445282
    [TBL] [Abstract][Full Text] [Related]  

  • 20. RNA force field with accuracy comparable to state-of-the-art protein force fields.
    Tan D; Piana S; Dirks RM; Shaw DE
    Proc Natl Acad Sci U S A; 2018 Feb; 115(7):E1346-E1355. PubMed ID: 29378935
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 7.