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MetaMutationalSigs: comparison of mutational signature refitting results made easy

MOTIVATION: The analysis of mutational signatures is becoming increasingly common in cancer genetics, with emerging implications in cancer evolution, classification, treatment decision and prognosis. Recently, several packages have been developed for mutational signature analysis, with each using di...

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Detalles Bibliográficos
Autores principales: Pandey, Palash, Arora, Sanjeevani, Rosen, Gail L
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9004636/
https://www.ncbi.nlm.nih.gov/pubmed/35157026
http://dx.doi.org/10.1093/bioinformatics/btac091
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author Pandey, Palash
Arora, Sanjeevani
Rosen, Gail L
author_facet Pandey, Palash
Arora, Sanjeevani
Rosen, Gail L
author_sort Pandey, Palash
collection PubMed
description MOTIVATION: The analysis of mutational signatures is becoming increasingly common in cancer genetics, with emerging implications in cancer evolution, classification, treatment decision and prognosis. Recently, several packages have been developed for mutational signature analysis, with each using different methodology and yielding significantly different results. Because of the non-trivial differences in tools’ refitting results, researchers may desire to survey and compare the available tools, in order to objectively evaluate the results for their specific research question, such as which mutational signatures are prevalent in different cancer types. RESULTS: Due to the need for effective comparison of refitting mutational signatures, we introduce a user-friendly software that can aggregate and visually present results from different refitting packages. AVAILABILITY AND IMPLEMENTATION: MetaMutationalSigs is implemented using R and python and is available for installation using Docker and available at: https://github.com/EESI/MetaMutationalSigs.
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spelling pubmed-90046362022-04-13 MetaMutationalSigs: comparison of mutational signature refitting results made easy Pandey, Palash Arora, Sanjeevani Rosen, Gail L Bioinformatics Applications Note MOTIVATION: The analysis of mutational signatures is becoming increasingly common in cancer genetics, with emerging implications in cancer evolution, classification, treatment decision and prognosis. Recently, several packages have been developed for mutational signature analysis, with each using different methodology and yielding significantly different results. Because of the non-trivial differences in tools’ refitting results, researchers may desire to survey and compare the available tools, in order to objectively evaluate the results for their specific research question, such as which mutational signatures are prevalent in different cancer types. RESULTS: Due to the need for effective comparison of refitting mutational signatures, we introduce a user-friendly software that can aggregate and visually present results from different refitting packages. AVAILABILITY AND IMPLEMENTATION: MetaMutationalSigs is implemented using R and python and is available for installation using Docker and available at: https://github.com/EESI/MetaMutationalSigs. Oxford University Press 2022-02-14 /pmc/articles/PMC9004636/ /pubmed/35157026 http://dx.doi.org/10.1093/bioinformatics/btac091 Text en © The Author(s) 2022. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Note
Pandey, Palash
Arora, Sanjeevani
Rosen, Gail L
MetaMutationalSigs: comparison of mutational signature refitting results made easy
title MetaMutationalSigs: comparison of mutational signature refitting results made easy
title_full MetaMutationalSigs: comparison of mutational signature refitting results made easy
title_fullStr MetaMutationalSigs: comparison of mutational signature refitting results made easy
title_full_unstemmed MetaMutationalSigs: comparison of mutational signature refitting results made easy
title_short MetaMutationalSigs: comparison of mutational signature refitting results made easy
title_sort metamutationalsigs: comparison of mutational signature refitting results made easy
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9004636/
https://www.ncbi.nlm.nih.gov/pubmed/35157026
http://dx.doi.org/10.1093/bioinformatics/btac091
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