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Title: Visual EccDNA: An interactive Shiny Dashboard for extrachromosomal circular DNA data output visualization and analysis
Author: García Vicente, Ainhoa
Tutor: Araúzo-Bravo, Marcos J.  
Others: Mallona, Izaskun  
Keywords: data visualization
Issue Date: 8-Jun-2021
Publisher: Universitat Oberta de Catalunya (UOC)
Abstract: It is known from decades ago that some cancerous cells show little spots of genomic material outside of their chromosomes, referred to as extrachromosomal circular DNA (eccDNA). During the last years and thanks to the combination of wet lab techniques such as purification and amplification of DNA circles, and the development of methods for further computational analysis, it has been possible to identify the genomic composition of these circles, finding out genes involved in tumor growth and drug resistance. There is currently an increasing concern about the connection between eccDNA and cancers with worst prognostics. Dr Marcos Araúzo and their team of computational biology in the Biodonostia Health Institute Research are involved in an European collaboration project working on early detection of eccDNA in oncologic patients, improving the identification of the oncogenes contained in the circles and also quantifying the increased expression. It consists of a multidisciplinary group of researchers, so the motivation of my master's final project comes from the necessity of easy understanding and interpretation of data output. In this work it is detailed the development of Visual EccDNA, a dashboard for data visualization based on R language and its package Shiny, that uses mapped data from eccDNA sequences and allows the user to explore and navigate through the results in a dynamic and interactive way, which will help researchers of different areas to better understand the biological information in the circles.
Language: English
Appears in Collections:Trabajos finales de carrera, trabajos de investigación, etc.

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