Author

Magda Markowska

Medical University of WarsawORCID 0000-0002-0231-6397Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:bulk RNA-seq· 1 Research Focus:clustering· 1 Research Focus:differential expression· 1 Organism:human· 1 Assay:scRNA-seq· 1 Research Focus:variant calling· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Ewa SzczurekiD· 3 shared Eike StaubiD· 2 shared Senbai KangiD· 2 shared Anna M. L. Coenen-StassiD· 1 shared Błażej MiasojedowiD· 1 shared Bogac AybeyiD· 1 shared David PosadaiD· 1 shared Dilafruz JuraevaiD· 1 shared

Activity by Year

2022-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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Curved chords = mutual co-authorship

3 shared papersBioinformatics

Ewa SzczurekORCID

Mutual co-authors in cluster

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3 papers

Recent·Most cited

DelSIEVE: cell phylogeny model of single nucleotide variants and deletions from single-cell DNA sequencing data

Senbai Kang, Nico Borgsmüller, Monica Vishnu Valecha, Magda Markowska, Jack Kuipers, Niko Beerenwinkel, David Posada, Ewa Szczurek

DelSIEVE infers cell phylogeny and variants from scDNA-seq data, improving detection of deletions and evolutionary events compared to existing methods.

Genome biology · Aug 25, 2025Peer-reviewedBioinformatics

SLIDE-VIP: a comprehensive, cell line- and patient-based framework for synthetic lethality prediction in DNA damage repair, chromatin remodeling and cell cycle

Magda Markowska, Magdalena A. Budzinska, Anna M. L. Coenen-Stass, Senbai Kang, Ewa Kizling, Krzysztof Kolmus, Krzysztof Koras, Eike Staub, Ewa Szczurek

SLIDE-VIP identifies synthetic lethal gene pairs in DNA damage repair, chromatin remodeling, and cell cycle using multi-omics data and eight statistical tests, reducing candidate pairs by 250-fold.

bioRxiv · Jul 7, 2022 · PreprintBioinformatics

CONET: Copy number event tree model of evolutionary tumor history for single-cell data

Magda Markowska, Tomasz Cąkała, Błażej Miasojedow, Bogac Aybey, Dilafruz Juraeva, Johanna Mazur, Edith M. Ross, Eike Staub, Ewa Szczurek

CONET infers tumor evolutionary trees and copy number calls from single-cell data using a probabilistic model with MCMC and regularization.

Genome biology · Jun 9, 2022Peer-reviewedBioinformatics