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 *

283 related articles for article (PubMed ID: 35900023)

  • 41. Dockground scoring benchmarks for protein docking.
    Kotthoff I; Kundrotas PJ; Vakser IA
    Proteins; 2022 Jun; 90(6):1259-1266. PubMed ID: 35072956
    [TBL] [Abstract][Full Text] [Related]  

  • 42. Modeling T cell receptor recognition of CD1-lipid and MR1-metabolite complexes.
    Pierce BG; Vreven T; Weng Z
    BMC Bioinformatics; 2014 Sep; 15(1):319. PubMed ID: 25260513
    [TBL] [Abstract][Full Text] [Related]  

  • 43. Addressing recent docking challenges: A hybrid strategy to integrate template-based and free protein-protein docking.
    Yan Y; Wen Z; Wang X; Huang SY
    Proteins; 2017 Mar; 85(3):497-512. PubMed ID: 28026062
    [TBL] [Abstract][Full Text] [Related]  

  • 44. Fully Blind Peptide-Protein Docking with pepATTRACT.
    Schindler CEM; de Vries SJ; Zacharias M
    Structure; 2015 Aug; 23(8):1507-1515. PubMed ID: 26146186
    [TBL] [Abstract][Full Text] [Related]  

  • 45. Exploring conformational landscapes and binding mechanisms of convergent evolution for the SARS-CoV-2 spike Omicron variant complexes with the ACE2 receptor using AlphaFold2-based structural ensembles and molecular dynamics simulations.
    Raisinghani N; Alshahrani M; Gupta G; Xiao S; Tao P; Verkhivker G
    Phys Chem Chem Phys; 2024 Jun; 26(25):17720-17744. PubMed ID: 38869513
    [TBL] [Abstract][Full Text] [Related]  

  • 46. A unified conformational selection and induced fit approach to protein-peptide docking.
    Trellet M; Melquiond AS; Bonvin AM
    PLoS One; 2013; 8(3):e58769. PubMed ID: 23516555
    [TBL] [Abstract][Full Text] [Related]  

  • 47. Applying and improving AlphaFold at CASP14.
    Jumper J; Evans R; Pritzel A; Green T; Figurnov M; Ronneberger O; Tunyasuvunakool K; Bates R; Žídek A; Potapenko A; Bridgland A; Meyer C; Kohl SAA; Ballard AJ; Cowie A; Romera-Paredes B; Nikolov S; Jain R; Adler J; Back T; Petersen S; Reiman D; Clancy E; Zielinski M; Steinegger M; Pacholska M; Berghammer T; Silver D; Vinyals O; Senior AW; Kavukcuoglu K; Kohli P; Hassabis D
    Proteins; 2021 Dec; 89(12):1711-1721. PubMed ID: 34599769
    [TBL] [Abstract][Full Text] [Related]  

  • 48. Lessons from (co-)evolution in the docking of proteins and peptides for CAPRI Rounds 28-35.
    Yu J; Andreani J; Ochsenbein F; Guerois R
    Proteins; 2017 Mar; 85(3):378-390. PubMed ID: 27701780
    [TBL] [Abstract][Full Text] [Related]  

  • 49. Performance of MDockPP in CAPRI rounds 28-29 and 31-35 including the prediction of water-mediated interactions.
    Xu X; Qiu L; Yan C; Ma Z; Grinter SZ; Zou X
    Proteins; 2017 Mar; 85(3):424-434. PubMed ID: 27802576
    [TBL] [Abstract][Full Text] [Related]  

  • 50. Updates to the Integrated Protein-Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2.
    Vreven T; Moal IH; Vangone A; Pierce BG; Kastritis PL; Torchala M; Chaleil R; Jiménez-García B; Bates PA; Fernandez-Recio J; Bonvin AM; Weng Z
    J Mol Biol; 2015 Sep; 427(19):3031-41. PubMed ID: 26231283
    [TBL] [Abstract][Full Text] [Related]  

  • 51. HPEPDOCK: a web server for blind peptide-protein docking based on a hierarchical algorithm.
    Zhou P; Jin B; Li H; Huang SY
    Nucleic Acids Res; 2018 Jul; 46(W1):W443-W450. PubMed ID: 29746661
    [TBL] [Abstract][Full Text] [Related]  

  • 52. TCRmodel2: high-resolution modeling of T cell receptor recognition using deep learning.
    Yin R; Ribeiro-Filho HV; Lin V; Gowthaman R; Cheung M; Pierce BG
    Nucleic Acids Res; 2023 Jul; 51(W1):W569-W576. PubMed ID: 37140040
    [TBL] [Abstract][Full Text] [Related]  

  • 53. DOCKGROUND system of databases for protein recognition studies: unbound structures for docking.
    Gao Y; Douguet D; Tovchigrechko A; Vakser IA
    Proteins; 2007 Dec; 69(4):845-51. PubMed ID: 17803215
    [TBL] [Abstract][Full Text] [Related]  

  • 54. Dockground Tool for Development and Benchmarking of Protein Docking Procedures.
    Kundrotas PJ; Kotthoff I; Choi SW; Copeland MM; Vakser IA
    Methods Mol Biol; 2020; 2165():289-300. PubMed ID: 32621232
    [TBL] [Abstract][Full Text] [Related]  

  • 55. Improved Peptide Docking with Privileged Knowledge Distillation using Deep Learning.
    Zhang Z; Verburgt J; Kagaya Y; Christoffer C; Kihara D
    bioRxiv; 2023 Dec; ():. PubMed ID: 38106114
    [TBL] [Abstract][Full Text] [Related]  

  • 56. RosettaCM for antibodies with very long HCDR3s and low template availability.
    Kodali P; Schoeder CT; Schmitz S; Crowe JE; Meiler J
    Proteins; 2021 Nov; 89(11):1458-1472. PubMed ID: 34176159
    [TBL] [Abstract][Full Text] [Related]  

  • 57. The structural coverage of the human proteome before and after AlphaFold.
    Porta-Pardo E; Ruiz-Serra V; Valentini S; Valencia A
    PLoS Comput Biol; 2022 Jan; 18(1):e1009818. PubMed ID: 35073311
    [TBL] [Abstract][Full Text] [Related]  

  • 58. Improved protein complex prediction with AlphaFold-multimer by denoising the MSA profile.
    Bryant P; Noé F
    PLoS Comput Biol; 2024 Jul; 20(7):e1012253. PubMed ID: 39052676
    [TBL] [Abstract][Full Text] [Related]  

  • 59. DPAM: A domain parser for AlphaFold models.
    Zhang J; Schaeffer RD; Durham J; Cong Q; Grishin NV
    Protein Sci; 2023 Feb; 32(2):e4548. PubMed ID: 36539305
    [TBL] [Abstract][Full Text] [Related]  

  • 60. Benchmarking of different molecular docking methods for protein-peptide docking.
    Agrawal P; Singh H; Srivastava HK; Singh S; Kishore G; Raghava GPS
    BMC Bioinformatics; 2019 Feb; 19(Suppl 13):426. PubMed ID: 30717654
    [TBL] [Abstract][Full Text] [Related]  

    [Previous]   [Next]    [New Search]
    of 15.