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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New algorithms for estimating clonal structures and for modeling heterogenous evolution for applications in cancer genomics

2016/21/B/ST6/02153

Keywords:

modeling heterogeneous evolution DNA sequencing compression of sequencing data

Descriptors:

  • ST6_13: Bioinformatics, biocomputing, DNA and molecular computation
  • ST6_11: Machine learning, statistical data processing and applications using signal processing (e.g. speech, image, video)
  • NZ2_7: Bioinformatics

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. Andrzej Polański 

Number of co-investigators in the project: 9

Call: OPUS 11 - announced on 2016-03-15

Amount awarded: 836 620 PLN

Project start date (Y-m-d): 2017-02-06

Project end date (Y-m-d): 2020-08-05

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. Mobilna stacja robocza (3 szt.) (40 500 PLN)

Information in the final report

  • Publication in academic press/journals (8)
  • Articles in post-conference publications (4)
  1. Coalescence computations for large samples drawn from populations of time-varying sizes
    Authors:
    Andrzej Polański, Agnieszka Szczęsna, Mateusz Garbulowski, Marek Kimmel
    Academic press:
    PLOS ONE (rok: 2017, tom: 12 (2), strony: 45313), Wydawca: ---
    Status:
    Published
    DOI:
    10.1371/journal.pone.0170701 - link to the publication
  2. GaMRed – adaptive filtering of high-throughput biological data
    Authors:
    Michał Marczyk, Roman Jaksik, Andrzej Polański, Joanna Polańska,
    Academic press:
    IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS (rok: 2020, tom: 17 (1), strony: 149-157), Wydawca: IEEE
    Status:
    Published
    DOI:
    10.1109/TCBB.2018.2858825 - link to the publication
  3. ADAPTIVE LOAD BALLANCING BASED ON DUTY-CYCLE OF THREAD CALCULATION TIME IN PARALLEL SIMULATIONS
    Authors:
    Krzysztof Szymiczek
    Academic press:
    STUDIA INFORMATICA (rok: 2018, tom: 39, strony: 19-26), Wydawca: Politechnika Śląska
    Status:
    Published
    DOI:
    brak - link to the publication
  4. FaStore – a space-saving solution for raw sequencing data
    Authors:
    Łukasz Roguski, Idoia Ochoa, Mikel Hernaez, Sebastian Deorowicz
    Academic press:
    Bioinformatics (rok: 2018, tom: 34 (16), strony: 2748-2756), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/bioinformatics/bty205 - link to the publication
  5. BatchI: Batch effect Identication in high-throughput screening data using a dynamic programming algorithm
    Authors:
    Anna Papiez, Michal Marczyk, Andrzej Polanski, Joanna Polanska,
    Academic press:
    Bioinformatics (rok: 2019, tom: 35(11), strony: 1885-1892), Wydawca: Oxford Academic
    Status:
    Published
    DOI:
    10.1093/bioinformatics/bty900 - link to the publication
  6. The mutation profile of differentiated thyroid cancer coexisting with undifferentiated anaplastic cancer resembles that of anaplastic thyroid cancer but not that of archetypal differentiated thyroid cancer.
    Authors:
    Justyna Mika; Wojciech Łabaj; Mykola Chekan; Agata Abramowicz; Monika Pietrowska; Andrzej Polański; Piotr Widłak
    Academic press:
    Journal of Applied Genetics (rok: 2021, tom: 62, strony: 115-120), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1007/s13353-020-00594-0 - link to the publication
  7. Initializing the EM Algorithm for Univariate Gaussian, Multi-Component, Heteroscedastic Mixture Models by Dynamic Programming Partitions
    Authors:
    Andrzej Polański, Michał Marczyk, Monika Pietrowska, Piotr Widłak, Joanna Polańska
    Academic press:
    International Journal of Computational Methods (rok: 2017, tom: Vol.15, No.1, strony: 45312), Wydawca: ---
    Status:
    Published
    DOI:
    10.1142/S0219876218500123 - link to the publication
  8. MicroRNA profile of exosomes and parental cells is differently affected by ionizing radiation.
    Authors:
    Agata Abramowicz, Justyna Mika, Wojciech Łabaj, Katarzyna Szołtysek, Izabella Ślęzak-Prochazka, Łukasz Mielańczyk, Michael Story, Andrzej Polański, Monika Pietrowska, Piotr Widłak
    Academic press:
    Radiation Research (rok: 2020, tom: 194, strony: 133-142), Wydawca: Radiation Research Society
    Status:
    Published
    DOI:
    10.1667/RADE-20-00007 - link to the publication
  1. Searching Through Scientific PDF Files Supported by Bi-clustering of Key Terms Matrices
    Authors:
    Andrzej Polański, Paweł Foszner, Rafał Łańcucki
    Conference:
    5th International Conference on Man-Machine Interactions, ICMMI 2017; Man-Machine Interactions 5 (rok: 2017, ), Wydawca: Springer, Cham
    Data:
    konferencja 3-6.10.2017
    Status:
    Published
  2. CCES: Cancer Clonal Evolution Simulation Program
    Authors:
    Andrzej Polański, Aleksandra Gruca, Krzysztof Szymiczek
    Conference:
    5th International Conference on Man-Machine Interactions, ICMMI 2017; Man-Machine Interactions 5 (rok: 2017, ), Wydawca: Springer, Cham
    Data:
    konferencja 3-6.10.2017
    Status:
    Published
  3. Consensus Approach for Detection of Cancer Somatic Mutations
    Authors:
    Andrzej Polański, Katarzyna Sieradzka, Kinga Leszczorz, Mateusz Garbulowski
    Conference:
    5th International Conference on Man-Machine Interactions, ICMMI 2017; Man-Machine Interactions 5 (rok: 2017, ), Wydawca: Springer, Cham
    Data:
    konferencja 3-6.10.2017
    Status:
    Published
  4. Improving peak detection by Gaussian mixture modeling of mass spectral signa
    Authors:
    Andrzej Polański, Michał MArczyk, Joanna Polańska
    Conference:
    3rd International Conference on Frontiers of Signal Processing (ICFSP) (rok: 2017, ), Wydawca: IEEE
    Data:
    konferencja 6-8.09.2017
    Status:
    Published

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