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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Genome-wide studies of double-strand DNA breaks in Saccharomyces cerevisiae

2015/17/D/NZ2/03711

Keywords:

BLESS method dsDNA breaks genome integrity replication forks S. cerevisiae next generation sequencing

Descriptors:

  • NZ2_2: Genomics, transcriptomics, epigenomics
  • NZ2_7: Bioinformatics
  • NZ1_1: Molecular biology

Panel:

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

Host institution :

Uniwersytet Warszawski, Centrum Nowych Technologii Uniwersytetu Warszawskiego

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

dr Magdalena Skrzypczak 

Number of co-investigators in the project: 3

Call: SONATA 9 - announced on 2015-03-16

Amount awarded: 914 000 PLN

Project start date (Y-m-d): 2016-03-16

Project end date (Y-m-d): 2019-09-15

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. Rozbudowa mikroskopu.
  2. Analizator komórek (95 000 PLN)
  3. Drobny sprzęt laboratoryjny (miniwirówka, kołyska) (9 000 PLN)
  4. Rozbudowa termomiksera.
  5. System oczyszczania wody.
  6. Pipetor ręczny.
  7. Wielokanałowe pipety o regulowanym rozstawie wylotów i objętości.
  8. Wirówko-worteks.

Information in the final report

  • Publication in academic press/journals (9)
  1. i-BLESS: ultra-sensitive method for detection of DNA double-strand breaks
    Authors:
    Biernacka, A., Zhu, Y., Skrzypczak, M., Forey, R., Pardo, B., Grzelak, M., Nde, J., Mitra, A., Kudlicki, A., Crosetto, N., Pasero, P., Rowicka, M., Ginalski, K.
    Academic press:
    Communications Biology (rok: 2018, tom: 1, strony: -), Wydawca: Springer Nature
    Status:
    Published
    DOI:
    10.1038/s42003-018-0165-9 - link to the publication
  2. qDSB-Seq: quantitative DNA double-strand break sequencing
    Authors:
    Zhu, Y., Biernacka, A., Pardo, B., Dojer, N., Forey, R., Skrzypczak, M., Fongang, B., Nde, J., Yousefi, R., Pasero, P., Ginalski, K. and Rowicka, M.
    Academic press:
    Nature Communications (rok: 2019, tom: 2,02291666666667, strony: 11), Wydawca: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41467-019-10332-8 - link to the publication
  3. Exome scale map of genetic alterations promoting metastasis in colorectal cancer
    Authors:
    Goryca, K., Kulecka, M., Paziewska, A., Dabrowska, M., Grzelak, M., Skrzypczak, M., Ginalski, K., Mroz, A., Rutkowski, A., Paczkowska, K., Mikula, M., Ostrowski, J.
    Academic press:
    BMC Genetics (rok: 2018, tom: 19, strony: -), Wydawca: Springer Nature
    Status:
    Published
    DOI:
    10.1186/s12863-018-0673-0 - link to the publication
  4. MRX increases chromatin accessibility at stalled replication forks to promote nascent DNA resection and cohesin loading
    Authors:
    Delamarre, A., Barthe, A., de la Roche Saint-André, C., Luciano, P., Forey, R., Padioleau, I., Skrzypczak, M., Ginalski, K., Géli, V., Lengronne, A. and Pasero, P.
    Academic press:
    Molecular Cell (rok: 2020, tom: 77, strony: 395-410.e3), Wydawca: Cell Press
    Status:
    Published
    DOI:
    10.029 - link to the publication
  5. Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cell function by resolving replicative stress in vivo
    Authors:
    Shi, W., Vu, T., Boucher, D., Biernacka, A., Nde, J., Pandita, R.K., Straube, J., Boyle, G.M., Al-Ejeh, F., Nag, P., Jeffery, J., Harris, J.L., Bain, A.L., Grzelak, M., Skrzypczak, M., Mitra, A., Dojer, N., Crosetto, N., Cloonan, N., Becherel, O.J., Finnie, J., Skaar, J.R., Walkley, C.R., Pandita, T.K., Rowicka, M., Ginalski, K., Lane, S.W., Khanna, K.K.
    Academic press:
    Blood (rok: 2017, tom: 129, strony: 2479–2492), Wydawca: American Society of Hematology
    Status:
    Published
    DOI:
    10.1182/blood-2016-06-725093 - link to the publication
  6. Comprehensive Mapping of Histone Modifications at DNA Double-Strand Breaks Deciphers Repair Pathway Chromatin Signatures
    Authors:
    Clouaire, T., Rocher, V., Lashgari, A., Arnould, C., Aguirrebengoa, M., Biernacka, A., Skrzypczak, M., Aymard, F., Fongang, B., Dojer, N., Iacovoni, J.S., Rowicka, M., Ginalski, K., Coté, J. and Legube, G.
    Academic press:
    Molecular Cell (rok: 2018, tom: 72, strony: 250-262), Wydawca: Cell Press
    Status:
    Published
    DOI:
    10.1016/j.molcel.2018.08.020 - link to the publication
  7. Hypermethylation of TRIM59 and KLF14 influences cell death signaling in familial Alzheimer's disease
    Authors:
    Wezyk, M., Spolnicka, M., Pospiech, E., Peplonska, B., Zbiec-Piekarska, R., Ilkowski, J., Styczynska, M., Barczak, A., Zboch, M., Filipek-Gliszczynska, A., Skrzypczak, M., Ginalski, K., Kabza, M., Makalowska, I., Barcikowska-Kotowicz, M., Branicki, W., Zekanowski, C.
    Academic press:
    Oxidative Medicine and Cellular Longevity (rok: 2018, tom: 2018, strony: 11), Wydawca: Hindawi
    Status:
    Published
    DOI:
    10.1155/2018/6918797 - link to the publication
  8. Genome wide mapping of long range contacts unveils DNA Double Strand Breaks clustering at damaged active genes
    Authors:
    Aymard, F., Aguirrebengoa, M., Guillou, E., Javierre, B.M., Bugler, B., Arnould, C., Rocher, V., Iacovoni, J.S., Biernacka, A., Skrzypczak, M., Ginalski, K., Rowicka, M., Fraser, P., Legube, G.
    Academic press:
    Nature Structural & Molecular Biology (rok: 2017, tom: 24, strony: 353–361), Wydawca: Springer Nature
    Status:
    Published
    DOI:
    10.1038/nsmb.3387 - link to the publication
  9. Overactive BRCA1 Affects Presenilin 1 in Induced Pluripotent Stem Cell-Derived Neurons in Alzheimer's Disease
    Authors:
    Wezyk, M., Szybinska, A., Wojsiat, J., Szczerba, M., Day, K., Ronnholm, H., Kele, M., Berdynski, M., Peplonska, B., Fichna, JP., Ilkowski, J., Styczynska, M., Barczak, A., Zboch, M., Filipek-Gliszczynska, A., Bojakowski, K., Skrzypczak, M., Ginalski, K., Kabza, M., Makalowska, I., Barcikowska-Kotowicz, M., Wojda, U., Falk, A. and Zekanowski, C.
    Academic press:
    Journal of Alzheimer's Disease (rok: 2018, tom: 62, strony: 175-202), Wydawca: IOS Press
    Status:
    Published
    DOI:
    10.3233/JAD-170830 - link to the publication

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