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 *

210 related articles for article (PubMed ID: 36461907)

  • 1. RosettaDDGPrediction for high-throughput mutational scans: From stability to binding.
    Sora V; Laspiur AO; Degn K; Arnaudi M; Utichi M; Beltrame L; De Menezes D; Orlandi M; Stoltze UK; Rigina O; Sackett PW; Wadt K; Schmiegelow K; Tiberti M; Papaleo E
    Protein Sci; 2023 Jan; 32(1):e4527. PubMed ID: 36461907
    [TBL] [Abstract][Full Text] [Related]  

  • 2. MutateX: an automated pipeline for in silico saturation mutagenesis of protein structures and structural ensembles.
    Tiberti M; Terkelsen T; Degn K; Beltrame L; Cremers TC; da Piedade I; Di Marco M; Maiani E; Papaleo E
    Brief Bioinform; 2022 May; 23(3):. PubMed ID: 35323860
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Accurate protein stability predictions from homology models.
    Valanciute A; Nygaard L; Zschach H; Maglegaard Jepsen M; Lindorff-Larsen K; Stein A
    Comput Struct Biotechnol J; 2023; 21():66-73. PubMed ID: 36514339
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Accounting for conformational entropy in predicting binding free energies of protein-protein interactions.
    Kamisetty H; Ramanathan A; Bailey-Kellogg C; Langmead CJ
    Proteins; 2011 Feb; 79(2):444-62. PubMed ID: 21120864
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Best templates outperform homology models in predicting the impact of mutations on protein stability.
    Pak MA; Ivankov DN
    Bioinformatics; 2022 Sep; 38(18):4312-4320. PubMed ID: 35894930
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Modeling disordered regions in proteins using Rosetta.
    Wang RY; Han Y; Krassovsky K; Sheffler W; Tyka M; Baker D
    PLoS One; 2011; 6(7):e22060. PubMed ID: 21829444
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Alternative computational protocols for supercharging protein surfaces for reversible unfolding and retention of stability.
    Der BS; Kluwe C; Miklos AE; Jacak R; Lyskov S; Gray JJ; Georgiou G; Ellington AD; Kuhlman B
    PLoS One; 2013; 8(5):e64363. PubMed ID: 23741319
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Potts Hamiltonian Models and Molecular Dynamics Free Energy Simulations for Predicting the Impact of Mutations on Protein Kinase Stability.
    Thakur A; Gizzio J; Levy RM
    J Phys Chem B; 2024 Feb; 128(7):1656-1667. PubMed ID: 38350894
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).
    Foffi G; Pastore A; Piazza F; Temussi PA
    Phys Biol; 2013 Aug; 10(4):040301. PubMed ID: 23912807
    [TBL] [Abstract][Full Text] [Related]  

  • 10. InteractiveROSETTA: a graphical user interface for the PyRosetta protein modeling suite.
    Schenkelberg CD; Bystroff C
    Bioinformatics; 2015 Dec; 31(24):4023-5. PubMed ID: 26315900
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Integration of the Rosetta suite with the python software stack via reproducible packaging and core programming interfaces for distributed simulation.
    Ford AS; Weitzner BD; Bahl CD
    Protein Sci; 2020 Jan; 29(1):43-51. PubMed ID: 31495995
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Develop and test a solvent accessible surface area-based model in conformational entropy calculations.
    Wang J; Hou T
    J Chem Inf Model; 2012 May; 52(5):1199-212. PubMed ID: 22497310
    [TBL] [Abstract][Full Text] [Related]  

  • 13. SigProfilerMatrixGenerator: a tool for visualizing and exploring patterns of small mutational events.
    Bergstrom EN; Huang MN; Mahto U; Barnes M; Stratton MR; Rozen SG; Alexandrov LB
    BMC Genomics; 2019 Aug; 20(1):685. PubMed ID: 31470794
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Alchemical Free Energy Calculations for Nucleotide Mutations in Protein-DNA Complexes.
    Gapsys V; de Groot BL
    J Chem Theory Comput; 2017 Dec; 13(12):6275-6289. PubMed ID: 29125747
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Folic acid supplementation and malaria susceptibility and severity among people taking antifolate antimalarial drugs in endemic areas.
    Crider K; Williams J; Qi YP; Gutman J; Yeung L; Mai C; Finkelstain J; Mehta S; Pons-Duran C; Menéndez C; Moraleda C; Rogers L; Daniels K; Green P
    Cochrane Database Syst Rev; 2022 Feb; 2(2022):. PubMed ID: 36321557
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Unraveling membrane properties at the organelle-level with LipidDyn.
    Scrima S; Tiberti M; Campo A; Corcelle-Termeau E; Judith D; Foged MM; Clemmensen KKB; Tooze SA; Jäättelä M; Maeda K; Lambrughi M; Papaleo E
    Comput Struct Biotechnol J; 2022; 20():3604-3614. PubMed ID: 35860415
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Accurately Predicting Disordered Regions of Proteins Using Rosetta ResidueDisorder Application.
    Kim SS; Seffernick JT; Lindert S
    J Phys Chem B; 2018 Apr; 122(14):3920-3930. PubMed ID: 29595057
    [TBL] [Abstract][Full Text] [Related]  

  • 18. PyRosetta: a script-based interface for implementing molecular modeling algorithms using Rosetta.
    Chaudhury S; Lyskov S; Gray JJ
    Bioinformatics; 2010 Mar; 26(5):689-91. PubMed ID: 20061306
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Application of an alchemical free energy method for the prediction of thermostable DuraPETase variants.
    Schreiber S; Gercke D; Lenz F; Jose J
    Appl Microbiol Biotechnol; 2024 Apr; 108(1):305. PubMed ID: 38643427
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Predicting binding affinity changes from long-distance mutations using molecular dynamics simulations and Rosetta.
    Wells NGM; Smith CA
    Proteins; 2023 Jul; 91(7):920-932. PubMed ID: 36757060
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 11.