Incorporating genomic variation information into DNA sequencing data analysis
2016/21/B/ST6/01471
Keywords
Descriptors
- ST6_13: Bioinformatyka, bioobliczenia, obliczenia DNA i molekularne
- ST6_12: Obliczenia naukowe, narzędzia modelowania i symulacji
- NZ2_2: Genomika, transkryptomika i epigenomika
Panel
ST6 – Computer science and informatics: informatics and information systems, computer science, scientific computing, intelligent systems
Host institution
Uniwersytet Warszawski, Wydział Matematyki, Informatyki i Mechaniki
Voivodeship: mazowieckie
Principal investigator (from the host institution)
Number of co-investigators in the project: 7
Call
OPUS 11 – announced on 2016-03-15
- Amount awarded
- 637 600 PLN
- Project start date
- 2017-02-06
- Project end date
- 2022-02-05
- Project duration
- 60 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]
- komputer - laptop. Cost: 12 595 PLN
- komputer - laptop (2 pcs). Cost: 16 000 PLN
- komputer - laptop (3 pcs). Cost: 18 000 PLN
- komputer - stacja robocza. Cost: 13 900 PLN
- monitory komputerowe. Cost: 3 500 PLN
- projektor.
- serwer obliczeniowy. Cost: 50 000 PLN
- urządzenie wielofunkcyjne. Cost: 3 959 PLN
Information in the final report
Publication in academic press/journals (6)
-
Linking De Novo Assembly Results with Long DNA Reads Using the dnaasm-link Application
- Authors:
- Wiktor Kuśmirek, Wiktor Franus, Robert Nowak
- Academic press:
- BioMed Research International (year: 2019, volume: 2019, pages: 7847064), Publisher: Hindawi
- Status:
- Published
- DOI:
- 10.1155/2019/7847064 – link to the publication
-
Linearization of genome sequence graphs revisited
- Authors:
- Anna Lisiecka, Norbert Dojer
- Academic press:
- iScience (year: 2021, volume: 1,00486111111111, pages: 102755:1 - 102755:14), Publisher: Cell Press
- Status:
- Published
- DOI:
- 10.1016/j.isci.2021.102755 – link to the publication
-
Getting insight into the pan-genome structure with PangTree
- Authors:
- Paulina Dziadkiewicz, Norbert Dojer
- Academic press:
- BMC Genomics (year: 2020, volume: 21, pages: 274), Publisher: BioMed Central
- Status:
- Published
- DOI:
- 10.1186/s12864-020-6610-4 – link to the publication
-
qDSB-Seq is a general method for genome-wide quantification of DNA double-strand breaks using sequencing
- Authors:
- Yingjie Zhu, Anna Biernacka, Benjamin Pardo, Norbert Dojer, Romain Forey, Magdalena Skrzypczak, Bernard Fongang, Jules Nde, Razie Yousefi, Philippe Pasero, Krzysztof Ginalski, Maga Rowicka
- Academic press:
- Nature Communications (year: 2019, volume: 10(1), pages: 2313), Publisher: Nature Publishing Group UK
- Status:
- Published
- DOI:
- 10.1038/s41467-019-10332-8 – link to the publication
-
Comprehensive mapping of histone modifications at DNA double-strand breaks deciphers repair pathway chromatin signatures
- Authors:
- Thomas Clouaire, Vincent Rocher, Anahita Lashgari, Coline Arnould, Marion Aguirrebengoa, Anna Biernacka, Magdalena Skrzypczak, Franćcois Aymard, Bernard Fongang, Norbert Dojer, Jason Iacovoni, Maga Rowicka, Krzysztof Ginalski, Jacques Côté, Gaëlle Legube
- Academic press:
- MOLECULAR CELL (year: 2018, volume: 72, pages: 250-262), Publisher: Cell Press
- Status:
- Published
- DOI:
- 10.1016/j.molcel.2018.08.020 – link to the publication
-
Defective XRN3-mediated transcription termination in Arabidopsis affects the expression of protein-coding genes
- Authors:
- Krzyszton, M., Zakrzewska-Placzek, M., Kwasnik, A., Dojer, N., Karlowski, W. and Kufel, J.
- Academic press:
- The Plant Journal (year: 2018, volume: 93, pages: 1017–1031), Publisher: John Wiley & Sons, Ltd
- Status:
- Published
- DOI:
- 10.1111/tpj.13826 – link to the publication