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http://hdl.handle.net/10609/146487
Title: | Optimització d'un pipeline bioinformàtic per a l'anàlisi de qualitat i la classificació genotípica del virus de l'Hepatitis B (VHB) a partir de dades de seqüenciació NGS |
Author: | Aranda Fernandez, Alicia |
Tutor: | Mosquera, Jose Luis |
Others: | Ventura, Carles |
Abstract: | Hepatitis B virus (HBV) is an infectious agent of the Hepadnaviridae family, which includes reverse transcribing double-stranded DNA viruses that cause liver infections in birds and mammals. It is currently a major global health problem despite having an effective vaccine. Given the clinical and epidemiological implications of different HBV genotypes, it is important to determine it in infected patients, as it can be useful in predicting the risk of morbidity and guiding infection treatment. An R-package has been developed in the present project based on the revision and simplification of an existing pipeline specifically designed for the quality analysis of next-generation sequencing raw data and HBV genotyping. The application of the built-in package and the original pipeline on the same dataset has corroborated the correct implementation of the defined functions since the results obtained are identical in both approaches. In addition, the provided simplification allows non-programming users to easily carry out relevant research studies. The package obtained facilitates Illumina next-generation sequencing data quality analysis, so that not only the subsequent genotyping can be performed from two regions of HBV genome, but also other studies could be performed, i.e., quasispecies diversity. |
Keywords: | quality assessment genotyping |
Document type: | info:eu-repo/semantics/masterThesis |
Issue Date: | 2-Jun-2022 |
Publication license: | http://creativecommons.org/licenses/by-nc-nd/3.0/es/ |
Appears in Collections: | Trabajos finales de carrera, trabajos de investigación, etc. |
Files in This Item:
File | Description | Size | Format | |
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aarandafTFM0622.pdf | Memòria del TFM | 1,98 MB | Adobe PDF | View/Open |
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