Author

Marta Paczkowska

Ontario Institute for Cancer Research

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 2 Cancer Biology· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Approach:statistical model· 4 Research Focus:database / resource· 3 Assay:whole-genome sequencing· 3 Assay:DNA methylation· 2 Research Focus:gene regulatory network inference· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1

Frequent Co-Authors

Abdullah KahramaniD· 3 shared Benjamin J. RaphaeliD· 3 shared David HaaniD· 3 shared Ekta KhuranaiD· 3 shared Gad A. GetziD· 3 shared Jakob Skou PederseniD· 3 shared Jonathan Barenboim· 3 shared José M. G. IzarzugazaiD· 3 shared

Activity by Year

2017-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Abdullah KahramanORCID

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Author profile →

4 papers

Recent·Most cited

Unique genomic features and deeply-conserved functions of long non-coding RNAs in the Cancer LncRNA Census (CLC)

Joana Carlevaro-Fita, Andrés Lanzós, Lars Feuerbach, Chen Hong, David Mas-Ponte, Jakob Skou Pedersen, PCAWG Drivers and Functional Interpretation Group, Federico Abascal, Samirkumar B. Amin, Gary D. Bader, Jonathan Barenboim, Rameen Beroukhim, Johanna Bertl, Keith A. Boroevich, Søren Brunak, , S. Cenk Şahinalp

The paper introduces the Cancer LncRNA Census (CLC), a curated resource of lncRNAs with causative roles in cancer, and shows their genomic and evolutionary features.

Communications Biology · Feb 5, 2020Peer-reviewedGenomics

Integrative pathway enrichment analysis of multivariate omics data

Marta Paczkowska, Jonathan Barenboim, Nardnisa Sintupisut, Natalie S. Fox, Helen Zhu, Diala Abd-Rabbo, Miles W. Mee, Paul Christopher Boutros, PCAWG Drivers and Functional Interpretation Working Group, Federico Abascal, Samirkumar B. Amin, Gary D. Bader, Rameen Beroukhim, Johanna Bertl, Keith A. Boroevich, , Leonidas Salichos

ActivePathways integrates multivariate omics data to identify enriched pathways, revealing cancer driver genes and prognostic pathways in breast cancer.

Nature Communications · Feb 5, 2020Peer-reviewedBioinformatics

Pathway and network analysis of more than 2,500 whole cancer genomes

Matthew A. Reyna, David Haan, Marta Paczkowska, Lieven P.C. Verbeke, Miguel Vazquez, Abdullah Kahraman, Sergio Pulido-Tamayo, Jonathan Barenboim, Lina Wadi, Priyanka Dhingra, Raunak Shrestha, Gad Getz, Michael S. Lawrence, Jakob Skou Pedersen, Mark A. Rubin, , on behalf of the PCAWG Drivers and Functional Interpretation Group and the ICGC/TCGA Pan-Cancer Analysis of Whole Genome Network

The paper analyzes non-coding mutations across 2,583 cancer genomes to identify genes and pathways affected, finding clusters of interacting proteins and insights into cancer mechanisms.

bioRxiv · Aug 7, 2018 · PreprintCancer Biology

ActiveDriverDB: human disease mutations and genome variation in post-translational modification sites of proteins

Michał Krassowski, Marta Paczkowska, Kim Cullion, Tina Huang, Irakli Dzneladze, B. F. Francis Ouellette, Joseph T. Yamada, Amélie Fradet‐Turcotte, Jüri Reimand

ActiveDriverDB annotates disease mutations and population variants in post-translational modification sites using proteo-genomics data from multiple sources.

Nucleic Acids Research · Oct 18, 2017Peer-reviewedBioinformatics