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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Methods and algorithms of discovering novel phenomena in genomes and transcriptomes with the statistical analysis of nucleotide precision data from next generation sequencers.

2014/13/N/ST6/01843

Keywords:

genomics transcriptomics statistics knowledge discovery cloud computing

Descriptors:

  • 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 Warszawska, Wydział Elektroniki i Technik Informacyjnych

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

Marek Wiewiórka 

Number of co-investigators in the project: 2

Call: PRELUDIUM 7 - announced on 2014-03-17

Amount awarded: 145 580 PLN

Project start date (Y-m-d): 2015-03-04

Project end date (Y-m-d): 2018-09-03

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

Project status: Project settled

Equipment purchased [PL]

  1. laptop z monitorem zewnętrznym (7 000 PLN)

Information in the final report

  • Publication in academic press/journals (3)
  • Articles in post-conference publications (5)
  1. Benchmarking distributed data warehouse solutions for storing genomic variant information
    Authors:
    Marek Wiewiórka, Dawid Wysakowicz, Michał Okoniewski, Tomasz Gambin
    Academic press:
    Database: The Journal of Biological Databases and Curation (rok: 2017, tom: 2017, strony: 1–16), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/database/bax049 - link to the publication
  2. SeQuiLa-cov: A fast and scalable library for depth of coverage calculations
    Authors:
    Marek Wiewiórka, Agnieszka Szmurło, Wiktor Kuśmirek, Tomasz Gambin
    Academic press:
    GigaScience (rok: 2019, tom: 8, strony: brak), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/gigascience/giz094 - link to the publication
  3. SeQuiLa: an elastic, fast and scalable SQL-oriented solution for processing and querying genomic intervals
    Authors:
    Wiewiorka, Marek S,Leśniewska, Anna,Agnieszka Szmurło, Kacper Stępień, Mateusz Borowiak,Michał Okoniewski,Tomasz Gambin
    Academic press:
    Bionformatics (rok: 2018, tom: 35, strony: http://biodatageeks.org/sequila/), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/bioinformatics/bty940 - link to the publication
  1. Benchmarking distributed data warehouse solutions for storing genomic variant information
    Authors:
    Wiewiórka M. S., Wysakowicz D.P., Okoniewski M.J, Gambin T.
    Conference:
    American Society of Human Genetics meeting, ASHG 2016 (rok: 2016, ), Wydawca: ASHG
    Data:
    konferencja 18-22.10.2016
    Status:
    Published
  2. Scalable framework for the analysis of population structure using the next generation sequencing data
    Authors:
    Anastasiia Hryhorzhevska, Marek Wiewiorka, Michal Okoniewski and Tomasz Gambin
    Conference:
    ISMIS 2017 (rok: 2017, ), Wydawca: Springer
    Data:
    konferencja 26-29.06.2017
    Status:
    Published
  3. SeQuiLa: an elastic, fast and scalable SQL-oriented platform for processing and analyzing genomic data
    Authors:
    Wiewiórka M.S., Szmurło A., Gambin T.
    Conference:
    American Society of Human Genetics meeting, ASHG 2018 (rok: 2018, ), Wydawca: ASHG
    Data:
    konferencja 16-20.10.2018
    Status:
    Published
  4. iGAP: A scalable solution for genomic variants analysis
    Authors:
    Szmurło A., Wiewiórka M.S., Gambin T.
    Conference:
    XLII-nd IEEE-SPIE Joint Symposium Wilga 2018 (rok: 2018, ), Wydawca: SPIE
    Data:
    konferencja 3-10.06.2018
    Status:
    Published
    DOI:
    link to the publication
  5. Automated parameter tuning for more accurate CNV calling in WES/WGS
    Authors:
    Wiewiórka M. S., Kuśmirek W., Okoniewski M.J, Gambin T.
    Conference:
    American Society of Human Genetics meeting, ASHG 2017 (rok: 2017, ), Wydawca: ASHG
    Data:
    konferencja 17-21.10.2017
    Status:
    Published

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