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Local structural transitions in DNA molecule upon damage and repair

2018/31/B/ST4/02292

Keywords

Descriptors

  • ST4_13: Chemia fizyczna układów biologicznych
  • ST4_3: Metody spektroskopowe i spektrometryczne
  • ST4_4: Struktura i architektura molekularna

Panel

ST4 – Chemistry: physical chemistry/chemical physics, theoretical chemistry, analytical chemistry, inorganic chemistry, organic chemistry, method development

Host institution

Uniwersytet Jagielloński, Wydział Fizyki, Astronomii i Informatyki Stosowanej

Voivodeship: małopolskie

Other projects carried out by the institution »

Principal investigator (from the host institution)

prof. Marek Leszek Szymoński

Number of co-investigators in the project: 8

Call

OPUS 16 – announced on 2018-09-14

Amount awarded
2 075 854 PLN
Project start date
2019-09-30
Project end date
2023-03-29
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. Kamera CCD z systemem chłodzenia. Cost: 130 000 PLN
  2. Mikroskop ze skanującą sondą wraz z akcesoriami, model "Omega Scope".
  3. Piezoelektryczny skaner do pozycjonowania wiązki lasera ramanowskiego, instalacja wymaga także zakupu nowego kontrolera AFM/STM. Cost: 243 500 PLN
  4. Skaner piezo XYZ pracujący w pętli zamkniętej wraz z akcesoriami.
  5. System do wytrawiania chemicznego srebrnych próbników STM. Cost: 22 500 PLN
  6. System to wytrawiania chemicznego złotych próbników STM. Cost: 22 500 PLN
  7. oprogramowanie PLS Toolbox, Mia Toolbox (Eigenvector) (4 pcs). Cost: 26 500 PLN
  8. program SPIP (Image metrology) (4 pcs). Cost: 55 000 PLN

Information in the final report

Publication in academic press/journals (8)

  1. Double-Strand Breaks Quantification by Statistical Length Analysis of DNA Fragments Imaged with AFM

    Authors:
    Kamila Sofińska, Michał Cieśla, Jakub Barbasz, Natalia Wilkosz, Ewelina Lipiec, Marek Szymoński, and Piotr Białas
    Academic press:
    Measurement (year: 2022, volume: 198, pages: 111362), Publisher: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.measurement.2022.111362 – link to the publication

  2. Detection of bleomycin-induced DNA strand breaks and repair processes in living cells by Raman microscopy

    Authors:
    Michał Czaja, Katarzyna Skirlińska-Nosek, Olga Adamczyk, Kamila Sofińska, Natalia Wilkosz, Zenon Rajfur, Marek Szymoński, Ewelina Lipiec
    Academic press:
    International Journal of Molecular Sciences (year: 2022, volume: 23, pages: 3524(1-21)), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/ijms23073524 – link to the publication

  3. Revealing DNA Structure at Liquid/Solid Interfaces by AFM-Based High-Resolution Imaging and Molecular Spectroscopy

    Authors:
    Ewelina Lipiec, Kamila Sofińska, Sara Seweryn, Natalia Wilkosz and Marek Szymoński
    Academic press:
    Molecules (year: 2021, volume: 26(21), pages: 6476), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/molecules26216476 – link to the publication

  4. Optimization of tip-enhanced Raman spectroscopy for probing the chemical structure of DNA

    Authors:
    Sara Seweryn, Katarzyna Skirlinska-Nosek, Kamila Sofinska, Konrad Szajna, Jan Kobierski, Kamil Awsiuk, Marek Szymonski, Ewelina Lipiec
    Academic press:
    Spectrochimica Acta Part A: Molecular and Biomolecular Spectroscopy (year: 2022, volume: 281, pages: 121595), Publisher: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.saa.2022.121595 – link to the publication

  5. Molecular Spectroscopic Markers of Abnormal Protein Aggregation

    Authors:
    Natalia Wilkosz, Michał Czaja, Sara Seweryn, Katarzyna Skirlinska-Nosek, Marek Szymonski, Ewelina Lipiec, Kamila Sofinska
    Academic press:
    Molecules (year: 2020, volume: 25, pages: 2498, 1-26), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/molecules25112498 – link to the publication

  6. Spectroscopic screening of pancreatic cancer

    Authors:
    Krzysztof Szymoński, Ewelina Lipiec, Kamila Sofińska, Katarzyna Skirlińska-Nosek, Katarzyna Milan-Ciesielska, Joanna Szporc, Michał Czaja, Sara Seweryn, Natalia Wilkosz, Giovanni Buarda, Federica Piccirilli, Lisa Vaccari, Marek Szymoński
    Academic press:
    Clinical Spectroscopy (year: 2021, volume: 3, pages: 100016(4)), Publisher: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.clispe.2021.100016 – link to the publication

  7. Plasmonic hot spots reveal local conformational transitions induced by DNA double-strand breaks

    Authors:
    Sara Seweryn, Katarzyna Skirlinska-Nosek, Natalia Wilkosz, Kamila Sofinska, David Perez-Guaita, Magdalena Ocwieja, Jakub Barbasz, Marek Szymonski, Ewelina Lipiec
    Academic press:
    Scientific Reports (year: 2022, volume: 12, pages: 12158), Publisher: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-022-15313-4 – link to the publication

  8. Molecular Spectroscopic Markers of DNA Damage

    Authors:
    Kamila Sofinska , Natalia Wilkosz, Marek Szymonski, Ewelina Lipiec
    Academic press:
    Molecules (year: 2020, volume: 25, pages: 561, 1-24), Publisher: MDPI
    Status:
    Published
    DOI:
    10.3390/molecules25030561 – link to the publication

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