Projects funded by the NCN

Information on the principal investigator and host institution

Information of the project and the call

Keywords

Equipment

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Bridging the gap: DNA catalysis explained

2018/31/D/NZ2/01883

Keywords:

DNAzyme structural biology database crystallography molecular modeling comparative analysis

Descriptors:

  • NZ2_7: Bioinformatics
  • NZ1_1: Molecular biology
  • NZ1_4: Structural biology

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 Maria Ponce Salvatierra 

Number of co-investigators in the project: 3

Call: SONATA 14 - announced on 2018-09-14

Amount awarded: 1 247 150 PLN

Project start date (Y-m-d): 2019-07-01

Project end date (Y-m-d): 2022-12-31

Project duration:: 42 months (the same as in the proposal)

Project status: Project settled

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.

Equipment purchased [PL]

  1. Laptop (6 000 PLN)
  2. Pakiet office (500 PLN)
  3. Stacja dokująca (500 PLN)
  4. Monitor 27'' (2 szt.) (5 000 PLN)
  5. Pamięć dyskowa (2 000 PLN)

Information in the final report

  • Publication in academic press/journals (4)
  1. Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models
    Authors:
    Gumna J, Antczak M, Adamiak RW, Bujnicki JM, Chen SJ, Ding F, Ghosh P, Li J, Mukherjee S, Nithin C, Pachulska-Wieczorek K, Ponce-Salvatierra A, Popenda M, Sarzynska J, Wirecki T, Zhang D, Zhang S, Zok T, Westhof E, Miao Z, Szachniuk M, Rybarczyk A.
    Academic press:
    International journal of molecular sciences (rok: 2022, tom: 23, strony: 9630), Wydawca: MDPI
    Status:
    Published
    DOI:
    10.3390/ijms23179630 - link to the publication
  2. Genome-wide mapping of SARS-CoV-2 RNA structures identifies therapeutically-relevant elements
    Authors:
    Ilaria Manfredonia, Chandran Nithin, Almudena Ponce-Salvatierra, Pritha Ghosh, Tomasz K Wirecki, Tycho Marinus, Natacha S Ogando, Eric J Snijder, Martijn J van Hemert, Janusz M Bujnicki, and Danny Incarnato
    Academic press:
    Nucleic Acids Research (rok: 2020, tom: 48(22), strony: 12436-12452), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/nar/gkaa1053 - link to the publication
  3. DNAzymeBuilder, a web application for in situ generation of RNA/DNA-cleaving deoxyribozymes
    Authors:
    Razieh Mohammadi-Arani, Fatemeh Javadi-Zarnaghi, Pietro Boccaletto, Janusz M. Bujnicki, and Almudena Ponce-Salvatierra
    Academic press:
    Nucleic Acids Research (rok: 2022, tom: 50, strony: W261–W265), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/nar/gkac269 - link to the publication
  4. DNAmoreDB, a database of DNAzymes
    Authors:
    Almudena Ponce-Salvatierra, Pietro Boccaletto, Janusz M Bujnicki
    Academic press:
    Nucleic Acids Research (rok: 2021, tom: 49, strony: D76-D81), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/nar/gkaa867 - link to the publication

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