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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Biologically Meaningful Inference of Phylogenetic Networks

2019/33/B/ST6/00737

Keywords:

phylogenetic network gene tree species tree reticulation event horizontal gene transfer recombination hybdridisation tree reconciliation algorithm gene duplication deep coalescence tree metric

Descriptors:

  • ST6_012:
  • ST6_013:
  • ST6_006:

Panel:

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

Host institution :

Uniwersytet Warszawski

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

dr hab. Paweł Piotr Górecki 

Number of co-investigators in the project: 9

Call: OPUS 17 - announced on 2019-03-15

Amount awarded: 888 300 PLN

Project start date (Y-m-d): 2020-02-06

Project end date (Y-m-d): 2025-02-05

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.

Information in the final report

  • Publication in academic press/journals (7)
  • Articles in post-conference publications (1)
  1. The interkingdom horizontal gene transfer in 44 early diverging fungi boosted their metabolic, adaptive, and immune capabilities
    Authors:
    Michał Aleksander Ciach, Julia Pawłowska, Paweł Górecki, Anna Muszewska
    Academic press:
    Evolution Letters (rok: 2024, tom: qrae009, strony: 45670), Wydawca: Oxford Academic Press
    Status:
    Published
    DOI:
    10.1093/evlett/qrae009 - link to the publication
  2. The interkingdom horizontal gene transfer in 44 early diverging fungi boosted their metabolic, adaptive, and immune capabilities
    Authors:
    Michał Aleksander Ciach, Julia Pawłowska, Paweł Górecki, Anna Muszewska
    Academic press:
    Evolution Letters (rok: 2024, tom: qrae009, strony: 45670), Wydawca: Oxford Academic Press
    Status:
    Published
    DOI:
    10.1093/evlett/qrae009 - link to the publication
  3. Phylogenetic network-assisted rooting of unrooted gene trees
    Authors:
    Jerzy Tiuryn, Natalia Rutecka & Paweł Górecki
    Academic press:
    Journal of Combinatorial Optimization (rok: 2024, tom: 47, strony: 45684), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1007/s10878-024-01181-3 - link to the publication
  4. Embedding Gene Trees into Phylogenetic Networks by Conflict Resolution Algorithms
    Authors:
    Marcin Wawerka, Dawid Dąbkowski, Natalia Rutecka, Agnieszka Mykowiecka, Paweł Górecki
    Academic press:
    Algorithms for Molecular Biology (rok: 2022, tom: 17, strony: --), Wydawca: BioMed Central
    Status:
    Published
    DOI:
    10.1186/s13015-022-00218-8 - link to the publication
  5. Conflict Resolution Algorithms for Deep Coalescence Phylogenetic Networks
    Authors:
    Wawerka, Marcin ; Dąbkowski, Dawid ; Rutecka, Natalia ; Mykowiecka, Agnieszka ; Górecki, Paweł
    Academic press:
    Leibniz International Proceedings in Informatics (LIPIcs) (rok: 2021, tom: 201, strony: 17:1--17:21), Wydawca: Leibniz International Proceedings in Informatics (LIPIcs)
    Status:
    Published
    DOI:
    10.4230/LIPIcs.WABI.2021.17 - link to the publication
  6. Rooting Gene Trees via Phylogenetic Networks
    Authors:
    Jerzy Tiuryn, Natalia Rutecka, Paweł Górecki
    Academic press:
    Lecture Notes in Computer Science (rok: 2022, tom: 13595, strony: 419–431), Wydawca: Springer
    Status:
    Published
    DOI:
    10.1007/978-3-031-22105-7_37 - link to the publication
  7. Computing Generalized Cophenetic Distances Under All Lp Norms: A Near-Linear Time Algorithmic Framework
    Authors:
    Paweł Górecki, Alexey Markin, Sriram Vijendran, Oliver Eulenstein
    Status:
    Accepted for publication
  1. Robinson-Foulds distance between phylogenetic networks and gene trees
    Authors:
    Natalia Rutecka, Agnieszka Mykowiecka, Jarosław Paszek, Paweł Górecki
    Conference:
    BCB '24: Proceedings of the 15th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics (rok: 2024, tom: The 15th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, strony: 45667), Wydawca: Association for Computing Machinery
    Data:
    konferencja 2024
    Status:
    Published
    DOI:
    10.1145/3698587.3701349 - link to the publication

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