BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

147 related articles for article (PubMed ID: 27913358)

  • 1. Conformational Sampling of a Biomolecular Rugged Energy Landscape.
    Rydzewski J; Jakubowski R; Nicosia G; Nowak W
    IEEE/ACM Trans Comput Biol Bioinform; 2018; 15(3):732-739. PubMed ID: 27913358
    [TBL] [Abstract][Full Text] [Related]  

  • 2. A population-based evolutionary search approach to the multiple minima problem in de novo protein structure prediction.
    Saleh S; Olson B; Shehu A
    BMC Struct Biol; 2013; 13 Suppl 1(Suppl 1):S4. PubMed ID: 24565020
    [TBL] [Abstract][Full Text] [Related]  

  • 3. From Extraction of Local Structures of Protein Energy Landscapes to Improved Decoy Selection in Template-Free Protein Structure Prediction.
    Akhter N; Shehu A
    Molecules; 2018 Jan; 23(1):. PubMed ID: 29351266
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Balancing multiple objectives in conformation sampling to control decoy diversity in template-free protein structure prediction.
    Zaman AB; Shehu A
    BMC Bioinformatics; 2019 Apr; 20(1):211. PubMed ID: 31023237
    [TBL] [Abstract][Full Text] [Related]  

  • 5. A novel approach to decoy set generation: designing a physical energy function having local minima with native structure characteristics.
    Keasar C; Levitt M
    J Mol Biol; 2003 May; 329(1):159-74. PubMed ID: 12742025
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Enhancing Protein Conformational Space Sampling Using Distance Profile-Guided Differential Evolution.
    Zhang GJ; Zhou XG; Yu XF; Hao XH; Yu L
    IEEE/ACM Trans Comput Biol Bioinform; 2017; 14(6):1288-1301. PubMed ID: 28113726
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Protein structure refinement by optimization.
    Carlsen M; Røgen P
    Proteins; 2015 Sep; 83(9):1616-24. PubMed ID: 26095680
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Docking with PIPER and refinement with SDU in rounds 6-11 of CAPRI.
    Shen Y; Brenke R; Kozakov D; Comeau SR; Beglov D; Vajda S
    Proteins; 2007 Dec; 69(4):734-42. PubMed ID: 17853451
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Conformational analysis of macrocycles: comparing general and specialized methods.
    Olanders G; Alogheli H; Brandt P; Karlén A
    J Comput Aided Mol Des; 2020 Mar; 34(3):231-252. PubMed ID: 31965404
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Comparison between self-guided Langevin dynamics and molecular dynamics simulations for structure refinement of protein loop conformations.
    Olson MA; Chaudhury S; Lee MS
    J Comput Chem; 2011 Nov; 32(14):3014-22. PubMed ID: 21793008
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Structure refinement of protein model decoys requires accurate side-chain placement.
    Olson MA; Lee MS
    Proteins; 2013 Mar; 81(3):469-78. PubMed ID: 23070940
    [TBL] [Abstract][Full Text] [Related]  

  • 12. On the multiple-minima problem in the conformational analysis of polypeptides. V. Application of the self-consistent electrostatic field and the electrostatically driven Monte Carlo methods to bovine pancreatic trypsin inhibitor.
    Ripoll DR; Piela L; Vásquez M; Scheraga HA
    Proteins; 1991; 10(3):188-98. PubMed ID: 1715563
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Fast and accurate side-chain topology and energy refinement (FASTER) as a new method for protein structure optimization.
    Desmet J; Spriet J; Lasters I
    Proteins; 2002 Jul; 48(1):31-43. PubMed ID: 12012335
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Computational techniques for efficient conformational sampling of proteins.
    Liwo A; Czaplewski C; Ołdziej S; Scheraga HA
    Curr Opin Struct Biol; 2008 Apr; 18(2):134-9. PubMed ID: 18215513
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Application of replica exchange umbrella sampling to protein structure refinement of nontemplate models.
    Olson MA; Lee MS
    J Comput Chem; 2013 Jul; 34(20):1785-93. PubMed ID: 23703032
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Conformational search of peptides and proteins: Monte Carlo minimization with an adaptive bias method applied to the heptapeptide deltorphin.
    Ozkan SB; Meirovitch H
    J Comput Chem; 2004 Mar; 25(4):565-72. PubMed ID: 14735574
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Minimization-Aware Recursive
    Jou JD; Holt GT; Lowegard AU; Donald BR
    J Comput Biol; 2020 Apr; 27(4):550-564. PubMed ID: 31855059
    [TBL] [Abstract][Full Text] [Related]  

  • 18. The multiple-minima problem in the conformational analysis of polypeptides. III. An electrostatically driven Monte Carlo method: tests on enkephalin.
    Ripoll DR; Scheraga HA
    J Protein Chem; 1989 Apr; 8(2):263-87. PubMed ID: 2736043
    [TBL] [Abstract][Full Text] [Related]  

  • 19. A method for optimizing potential-energy functions by a hierarchical design of the potential-energy landscape: application to the UNRES force field.
    Liwo A; Arłukowicz P; Czaplewski C; Ołdziej S; Pillardy J; Scheraga HA
    Proc Natl Acad Sci U S A; 2002 Feb; 99(4):1937-42. PubMed ID: 11854494
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Fast de novo discovery of low-energy protein loop conformations.
    Wong SWK; Liu JS; Kou SC
    Proteins; 2017 Aug; 85(8):1402-1412. PubMed ID: 28378911
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 8.