| |  Online-Ressource |
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| Verfasst von: | Hübschmann, Daniel [VerfasserIn]  |
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| | Jopp-Saile, Lea [VerfasserIn] |
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| | Andresen, Carolin [VerfasserIn] |
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| | Krämer, Stephen [VerfasserIn] |
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| | Gu, Zuguang [VerfasserIn] |
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| | Heilig, Christoph E. [VerfasserIn] |
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| | Kreutzfeldt, Simon [VerfasserIn] |
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| | Teleanu, Maria-Veronica [VerfasserIn] |
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| | Fröhling, Stefan [VerfasserIn] |
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| | Eils, Roland [VerfasserIn] |
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| | Schlesner, Matthias [VerfasserIn] |
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| Titel: | Analysis of mutational signatures with yet another package for signature analysis |
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| Verf.angabe: | Daniel Hübschmann, Lea Jopp-Saile, Carolin Andresen, Stephen Krämer, Zuguang Gu, Christoph E. Heilig, Simon Kreutzfeldt, Veronica Teleanu, Stefan Fröhling, Roland Eils, Matthias Schlesner |
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| E-Jahr: | 2021 |
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| Jahr: | May 2021 |
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| Umfang: | 18 S. |
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| Fussnoten: | Online veröffentlicht: 22. November 2020 ; Gesehen am 26.10.2023 |
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| Weitere Titel: | Titel des special issue: Biology and clinical exploitation of homologous recombination repair deficiency: principles and practice |
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| Titel Quelle: | Enthalten in: Genes, chromosomes & cancer |
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| Ort Quelle: | New York, NY : Wiley-Liss, 1989 |
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| Jahr Quelle: | 2021 |
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| Band/Heft Quelle: | 60(2021), 5, special issue vom: Mai, Seite 314-331 |
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| ISSN Quelle: | 1098-2264 |
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| Abstract: | Different mutational processes leave characteristic patterns of somatic mutations in the genome that can be identified as mutational signatures. Determining the contributions of mutational signatures to cancer genomes allows not only to reconstruct the etiology of somatic mutations, but can also be used for improved tumor classification and support therapeutic decisions. We here present the R package yet another package for signature analysis (YAPSA) to deconvolute the contributions of mutational signatures to tumor genomes. YAPSA provides in-built collections from the COSMIC and PCAWG SNV signature sets as well as the PCAWG Indel signatures and employs signature-specific cutoffs to increase sensitivity and specificity. Furthermore, YAPSA allows to determine 95% confidence intervals for signature exposures, to perform constrained stratified signature analyses to obtain enrichment and depletion patterns of the identified signatures and, when applied to whole exome sequencing data, to correct for the triplet content of individual target capture kits. With this functionality, YAPSA has proved to be a valuable tool for analysis of mutational signatures in molecular tumor boards in a precision oncology context. YAPSA is available at R/Bioconductor (http://bioconductor.org/packages/3.12/bioc/html/YAPSA.html). |
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| DOI: | doi:10.1002/gcc.22918 |
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| URL: | Bitte beachten Sie: Dies ist ein Bibliographieeintrag. Ein Volltextzugriff für Mitglieder der Universität besteht hier nur, falls für die entsprechende Zeitschrift/den entsprechenden Sammelband ein Abonnement besteht oder es sich um einen OpenAccess-Titel handelt.
kostenfrei: Volltext: https://doi.org/10.1002/gcc.22918 |
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| | kostenfrei: Volltext: https://onlinelibrary.wiley.com/doi/abs/10.1002/gcc.22918 |
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| | DOI: https://doi.org/10.1002/gcc.22918 |
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| Datenträger: | Online-Ressource |
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| Sprache: | eng |
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| Sach-SW: | biomarker |
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| | BRCAness |
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| | cancer genomics |
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| | mutational signatures |
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| | precision oncology |
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| | YAPSA |
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| K10plus-PPN: | 1868105873 |
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| Verknüpfungen: | → Zeitschrift |
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Analysis of mutational signatures with yet another package for signature analysis / Hübschmann, Daniel [VerfasserIn]; May 2021 (Online-Ressource)
