We describe the procedures to perform the following: (1) the de novo discovery of mutational signatures from raw sequencing data of viral samples and (2) the association of existing viral mutational signatures to the samples of a given dataset. The goal is to identify and characterize the nucleotide substitution patterns related to the mutational processes that underlie the origination of variants in viral genomes. The VirMutSig protocol is available at this link: https://github.com/BIMIB-DISCo/VirMutSig. For complete information on the theoretical aspects of this protocol, please refer to Graudenzi et al. (2021).

Maspero, D., Angaroni, F., Porro, D., Piazza, R., Graudenzi, A., Ramazzotti, D. (2021). VirMutSig: Discovery and assignment of viral mutational signatures from sequencing data. STAR PROTOCOLS, 2(4), 100911 [10.1016/j.xpro.2021.100911].

VirMutSig: Discovery and assignment of viral mutational signatures from sequencing data

Maspero, Davide
Primo
;
Angaroni, Fabrizio;Porro, Danilo;Piazza, Rocco;Graudenzi, Alex
;
Ramazzotti, Daniele
Ultimo
2021

Abstract

We describe the procedures to perform the following: (1) the de novo discovery of mutational signatures from raw sequencing data of viral samples and (2) the association of existing viral mutational signatures to the samples of a given dataset. The goal is to identify and characterize the nucleotide substitution patterns related to the mutational processes that underlie the origination of variants in viral genomes. The VirMutSig protocol is available at this link: https://github.com/BIMIB-DISCo/VirMutSig. For complete information on the theoretical aspects of this protocol, please refer to Graudenzi et al. (2021).
Articolo in rivista - Articolo scientifico
Bioinformatics; Genomics; RNAseq; Sequence analysis; Sequencing; Systems biology;
English
100911
Maspero, D., Angaroni, F., Porro, D., Piazza, R., Graudenzi, A., Ramazzotti, D. (2021). VirMutSig: Discovery and assignment of viral mutational signatures from sequencing data. STAR PROTOCOLS, 2(4), 100911 [10.1016/j.xpro.2021.100911].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10281/333233
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