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The new methodology for better understanding of ligand-RNA interactions.

2020/39/B/NZ2/03127

Keywords:

RNA,small molecules RNA-ligand interactions rational drug design

Descriptors:

  • NZ2_007:
  • ST6_012:
  • ST6_013:

Panel:

NZ2 - Genetics, genomics: molecular genetics, genomics, proteomics, bioinformatics, systems biology, genetic epidemiology

Host institution :

Międzynarodowy Instytut Biologii Molekularnej i Komórkowej w Warszawie

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

dr Filip Artur Stefaniak 

Number of co-investigators in the project: 2

Call: OPUS 20 - announced on 2020-09-15

Amount awarded: 671 000 PLN

Project start date (Y-m-d): 2021-11-02

Project end date (Y-m-d): 2025-11-01

Project duration:: 48 months (the same as in the proposal)

Project status: Pending project

Project description

Download the project description in a pdf file

Note - project descriptions were prepared by the authors of the applications themselves and placed in the system in an unchanged form.

Information in the final report

  • Publication in academic press/journals (6)
  1. RNA-Puzzles Round V: blind predictions of 23 RNA structures
    Authors:
    Bu, F., Adam, Y., Adamiak, R.W. et al.
    Academic press:
    Nature Methods (rok: 2025, tom: 22, strony: 399–411), Wydawca: Springer Nature Limited
    Status:
    Published
    DOI:
    10.1038/s41592-024-02543-9 - link to the publication
  2. DEGRONOPEDIA: a web server for proteome-wide inspection of degrons
    Authors:
    Natalia A Szulc, Filip Stefaniak, Małgorzata Piechota, Anna Soszyńska, Gabriela Piórkowska, Andrea Cappannini, Janusz M Bujnicki, Chiara Maniaci, Wojciech Pokrzywa
    Academic press:
    Nucleic Acids Research (rok: 2024, tom: 52, strony: W221–W232), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkae238 - link to the publication
  3. MODOMICS: a database of RNA modifications and related information. 2023 update
    Authors:
    Andrea Cappannini, Angana Ray, Elżbieta Purta, Sunandan Mukherjee, Pietro Boccaletto, S. Naeim Moafinejad, Antony Lechner, Charles Barchet, Bruno Klaholz, Filip Stefaniak, Janusz M. Bujnicki
    Academic press:
    Nucleic Acids Research (rok: 2023, tom: 52, strony: D239–D244), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkad1083 - link to the publication
  4. RNA tertiary structure prediction in CASP15 by the GeneSilico group: Folding simulations based on statistical potentials and spatial restraints
    Authors:
    Eugene F. Baulin; Sunandan Mukherjee; S. Naeim Moafinejad; Tomasz K. Wirecki; Nagendar Goud Badepally; Farhang Jaryani; Filip Stefaniak; Masoud Amiri Farsani; Angana Ray; Tales Rocha de Moura; Janusz M. Bujnicki
    Academic press:
    Proteins: Structure, Function, and Bioinformatics (rok: 2023, tom: 91, strony: 1800-1810), Wydawca: John Wiley & Sons, Inc
    Status:
    Published
    DOI:
    10.1002/prot.26575 - link to the publication
  5. Structural interaction fingerprints and machine learning for predicting and explaining binding of small molecule ligands to RNA
    Authors:
    Natalia A Szulc, Zuzanna Mackiewicz, Janusz M Bujnicki, Filip Stefaniak
    Academic press:
    Briefings in Bioinformatics (rok: 2023, tom: 24, strony: 45681), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/bib/bbad187 - link to the publication
  6. fingeRNAt—A novel tool for high-throughput analysis of nucleic acid-ligand interactions
    Authors:
    Natalia A. Szulc , Zuzanna Mackiewicz, Janusz M. Bujnicki , Filip Stefaniak
    Academic press:
    PLoS Computational Biology (rok: 2022, tom: 18(6), strony: 12785), Wydawca: Public Library of Science
    Status:
    Published
    DOI:
    10.1371/journal.pcbi.1009783 - link to the publication

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