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 *

101 related articles for article (PubMed ID: 34499117)

  • 1. INTERCAAT: identifying interface residues between macromolecules.
    Grudman S; Fajardo JE; Fiser A
    Bioinformatics; 2022 Jan; 38(2):554-555. PubMed ID: 34499117
    [TBL] [Abstract][Full Text] [Related]  

  • 2. VoroContacts: a tool for the analysis of interatomic contacts in macromolecular structures.
    Olechnovič K; Venclovas Č
    Bioinformatics; 2021 Dec; 37(24):4873-4875. PubMed ID: 34132767
    [TBL] [Abstract][Full Text] [Related]  

  • 3. A set of van der Waals and coulombic radii of protein atoms for molecular and solvent-accessible surface calculation, packing evaluation, and docking.
    Li AJ; Nussinov R
    Proteins; 1998 Jul; 32(1):111-27. PubMed ID: 9672047
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Voronota: A fast and reliable tool for computing the vertices of the Voronoi diagram of atomic balls.
    Olechnovič K; Venclovas C
    J Comput Chem; 2014 Mar; 35(8):672-81. PubMed ID: 24523197
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Modeling macro-molecular interfaces with Intervor.
    Loriot S; Cazals F
    Bioinformatics; 2010 Apr; 26(7):964-5. PubMed ID: 20139468
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Calculation of accurate interatomic contact surface areas for the quantitative analysis of non-bonded molecular interactions.
    Ribeiro J; Ríos-Vera C; Melo F; Schüller A
    Bioinformatics; 2019 Sep; 35(18):3499-3501. PubMed ID: 30698657
    [TBL] [Abstract][Full Text] [Related]  

  • 7. A Cytoscape app for motif enumeration with ISMAGS.
    Van Parys T; Melckenbeeck I; Houbraken M; Audenaert P; Colle D; Pickavet M; Demeester P; Van de Peer Y
    Bioinformatics; 2017 Feb; 33(3):461-463. PubMed ID: 28158465
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Goldilocks: a tool for identifying genomic regions that are 'just right'.
    Nicholls SM; Clare A; Randall JC
    Bioinformatics; 2016 Jul; 32(13):2047-9. PubMed ID: 27153673
    [TBL] [Abstract][Full Text] [Related]  

  • 9. RCSB Protein Data Bank 1D3D module: displaying positional features on macromolecular assemblies.
    Segura J; Rose Y; Bittrich S; Burley SK; Duarte JM
    Bioinformatics; 2022 Jun; 38(12):3304-3305. PubMed ID: 35543462
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Jwalk and MNXL web server: model validation using restraints from crosslinking mass spectrometry.
    Bullock JMA; Thalassinos K; Topf M
    Bioinformatics; 2018 Oct; 34(20):3584-3585. PubMed ID: 29741581
    [TBL] [Abstract][Full Text] [Related]  

  • 11. VRmol: an integrative web-based virtual reality system to explore macromolecular structure.
    Xu K; Liu N; Xu J; Guo C; Zhao L; Wang HW; Zhang QC
    Bioinformatics; 2021 May; 37(7):1029-1031. PubMed ID: 32745209
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Optimized Atomic Partial Charges and Radii Defined by Radical Voronoi Tessellation of Bulk Phase Simulations.
    Brehm M; Thomas M
    Molecules; 2021 Mar; 26(7):. PubMed ID: 33810337
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Fast calculation of van der Waals volume as a sum of atomic and bond contributions and its application to drug compounds.
    Zhao YH; Abraham MH; Zissimos AM
    J Org Chem; 2003 Sep; 68(19):7368-73. PubMed ID: 12968888
    [TBL] [Abstract][Full Text] [Related]  

  • 14. VoroMQA: Assessment of protein structure quality using interatomic contact areas.
    Olechnovič K; Venclovas Č
    Proteins; 2017 Jun; 85(6):1131-1145. PubMed ID: 28263393
    [TBL] [Abstract][Full Text] [Related]  

  • 15. The PPI3D web server for searching, analyzing and modeling protein-protein interactions in the context of 3D structures.
    Dapkunas J; Timinskas A; Olechnovic K; Margelevicius M; Diciunas R; Venclovas C
    Bioinformatics; 2017 Mar; 33(6):935-937. PubMed ID: 28011769
    [TBL] [Abstract][Full Text] [Related]  

  • 16. MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes.
    Davis IW; Murray LW; Richardson JS; Richardson DC
    Nucleic Acids Res; 2004 Jul; 32(Web Server issue):W615-9. PubMed ID: 15215462
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Visualizing and quantifying molecular goodness-of-fit: small-probe contact dots with explicit hydrogen atoms.
    Word JM; Lovell SC; LaBean TH; Taylor HC; Zalis ME; Presley BK; Richardson JS; Richardson DC
    J Mol Biol; 1999 Jan; 285(4):1711-33. PubMed ID: 9917407
    [TBL] [Abstract][Full Text] [Related]  

  • 18. PDIviz: analysis and visualization of protein-DNA binding interfaces.
    Ribeiro J; Melo F; Schüller A
    Bioinformatics; 2015 Aug; 31(16):2751-3. PubMed ID: 25886981
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Quantification of protein surfaces, volumes and atom-atom contacts using a constrained Voronoi procedure.
    McConkey BJ; Sobolev V; Edelman M
    Bioinformatics; 2002 Oct; 18(10):1365-73. PubMed ID: 12376381
    [TBL] [Abstract][Full Text] [Related]  

  • 20. DISPOT: a simple knowledge-based protein domain interaction statistical potential.
    Narykov O; Bogatov D; Korkin D
    Bioinformatics; 2019 Dec; 35(24):5374-5378. PubMed ID: 31350874
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 6.