Projects funded by the NCN

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A coarse-grained method for RNA 3D structure modeling, with emphasis on non-canonical base pairing.

2016/23/B/ST6/03433

Keywords:

RNA structure non-canonical basepairing RNA coarse-grained models statistical potentials Monte Carlo methods

Descriptors:

  • ST6_12:
  • ST6_13:
  • NZ1_4:

Panel:

ST6 - Computer science and informatics: informatics and information systems, computer science, scientific computing, intelligent systems

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 Michał Boniecki 

Number of co-investigators in the project: 4

Call: OPUS 12 - announced on 2016-09-15

Amount awarded: 741 250 PLN

Project start date (Y-m-d): 2017-09-01

Project end date (Y-m-d): 2021-12-31

Project duration:: 52 months (the same as in the proposal)

Project status: Project settled

Project description

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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 (2)
  • Book publications / chapters in book publications (1)
  1. SimRNAweb v2.0: a web server for RNA folding simulations and 3D structure modeling, with optional restraints and enhanced analysis of folding trajectories
    Authors:
    S. Naeim Moafinejad , Belisa R.H. de Aquino, MichałJ. Boniecki, Iswarya P.N. Pandar anadar Je y er am, Grig ory Nikolaev, Mar cin Magnus, Masoud Amir i F arsani, Nagendar Goud Badepally, Tomasz K. Wirecki, Filip Stefaniak and Janusz M. Bujnicki
    Academic press:
    Nucleic Acids Research (rok: 2024, tom: 52, strony: W368–W373), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkae356 - link to the publication
  2. SimRNAweb v2.0: a web server for RNA folding simulations and 3D structure modeling, with optional restraints and enhanced analysis of folding trajectories
    Authors:
    S. Naeim Moafinejad , Belisa R.H. de Aquino, MichałJ. Boniecki, Iswarya P.N. Pandar anadar Je y er am, Grig ory Nikolaev, Mar cin Magnus, Masoud Amir i F arsani, Nagendar Goud Badepally, Tomasz K. Wirecki, Filip Stefaniak and Janusz M. Bujnicki
    Academic press:
    Nucleic Acids Research (rok: 2024, tom: 52, strony: W368–W373), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkae356 - link to the publication
  1. Modeling of three-dimensional RNA structures using SimRNA
    Authors:
    Tomasz K. Wirecki, Chandran Nithin, Sunandan Mukherjee, Janusz M. Bujnicki, Michał J. Boniecki
    Book:
    Protein Structure Prediction (4th edition), Methods in Molecular Biology (rok: 2020, tom: 2165, strony: 103-125), Wydawca: Springer
    Status:
    Published

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