RT Conference Proceedings
T1 Analysis of viral quasispecies by NGS technologies: quasiflow
A1 Díaz-Martínez, Luis
A1 Seoane Zonjic, Pedro
A1 Claros-Díaz, Manuel Gonzalo
A1 Viguera-Mínguez, Enrique
A1 Grande-Pérez, Ana
K1 Bioinformática
AB We have developed QuasiFlow, a workflow designed in AutoFlow that takes advantage of NGS technologies to reconstruct quasispecies based in Illumina reads. QuasiFlow characterises and computes several key parameters, such as recombination events, SNPs, transitions, transversions, indels, quasispecies reconstruction, normalized Shannon index, nucleotide diversity and mutation networks. Moreover, it performs a comparative study of the samples comprising correlation, ANOVA and PCA analyses of the previously obtained virus population parameters. Using QuasiFlow we have analysed Illumina MiSeq reads from DNA samples obtained in mixed infections of ssDNA begomovirus in tomato plants amplified by rolling circle amplification. Further, we have extended the use of QuasiFlow to the analysis of the highly variable mitochondrial DNA. For that, we have used DNA Illumina MiSeq reads from 47 human mitochondrial samples from different cell lines obtained from the NCBI SRA database
PB Sociedad Española de Virología
YR 2017
FD 2017
LK http://hdl.handle.net/10630/13955
UL http://hdl.handle.net/10630/13955
LA eng
NO Libro de abstracts XIV Congreso Nacional de Virología Volumen 20 1/2017
NO Universidad de Málaga. Campus de Excelencia Internacional Andalucía Tech.
DS RIUMA. Repositorio Institucional de la Universidad de Málaga
RD 20 ene 2026