Projects funded by the NCN

Information on the principal investigator and host institution

Information of the project and the call

Keywords

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Compression of large-scale genomic data collections

2017/25/B/ST6/01525

Keywords:

data compression genomic data genome sequencing

Descriptors:

  • ST6_6: Algorithms, parallel, distributed and network algorithms, algorithmic game theory
  • ST6_13: Bioinformatics, biocomputing, DNA and molecular computation

Panel:

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

Host institution :

Politechnika Śląska, Wydział Automatyki, Elektroniki i Informatyki

woj. śląskie

Other projects carried out by the institution 

Principal investigator (from the host institution):

prof. Sebastian Deorowicz 

Number of co-investigators in the project: 4

Call: OPUS 13 - announced on 2017-03-15

Amount awarded: 457 800 PLN

Project start date (Y-m-d): 2018-02-14

Project end date (Y-m-d): 2022-02-13

Project duration:: 48 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. Mobilna stacja robocza 2 (14 000 PLN)
  2. Mobilna stacja robocza 1 (14 000 PLN)

Information in the final report

  • Publication in academic press/journals (4)
  1. VCFShark: how to squeeze a VCF file
    Authors:
    Sebastian Deorowicz, Agnieszka Danek, Marek Kokot
    Academic press:
    Bioinformatics (rok: 2021, tom: 37, strony: 3358-3360), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/bioinformatics/btab211 - link to the publication
  2. GTShark: Genotype compression in large project
    Authors:
    Sebastian Deorowicz, Agnieszka Danek
    Academic press:
    Bioinformatics (rok: 2019, tom: 35, strony: 4791-4793), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/bioinformatics/btz508 - link to the publication
  3. AGC: Compact representation of assembled genomes
    Authors:
    Sebastian Deorowicz, Agnieszka Danek, Heng Li
    Academic press:
    Nature Biotechnology , Wydawca: Nature Publishing Group
    Status:
    Submitted
    DOI:
    brak - link to the publication
  4. FQSqueezer: k-mer-based compression of sequencing data
    Authors:
    Sebastian Deorowicz
    Academic press:
    Scientific Reports (rok: 2020, tom: 10, strony: 578), Wydawca: Springer Nature
    Status:
    Published
    DOI:
    10.1038/s41598-020-57452-6 - link to the publication

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