eDAVE – Extension of GDC data analysis, visualization, and exploration tools

Publicly available repositories such as Genomic Data Commons or Gene Expression Omnibus are a valuable research resource useful for hypothesis driven research as well as validation of the results of new experiments. Frequently however, the use of those opulent resources is challenging because advanc...

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Detalles Bibliográficos
Autores principales: Bińkowski, Jan, Taryma-Leśniak, Olga, Sokolowska, Katarzyna Ewa, Przybylowicz, Patrycja Kamila, Staszewski, Melanie, Wojdacz, Tomasz Kazimierz
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Research Network of Computational and Structural Biotechnology 2023
Materias:
Software/Web Server Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10665591/
https://www.ncbi.nlm.nih.gov/pubmed/38022697
http://dx.doi.org/10.1016/j.csbj.2023.10.057
Descripción
Sumario:Publicly available repositories such as Genomic Data Commons or Gene Expression Omnibus are a valuable research resource useful for hypothesis driven research as well as validation of the results of new experiments. Frequently however, the use of those opulent resources is challenging because advanced computational skills are required to mine deposited data. To address this challenge, we have developed eDAVE, a user-friendly, web and desktop interface enabling intuitive and robust analysis of almost 12 000 methylomes and transcriptomes from over 200 types of cells and tissues deposited in the Genomic Data Commons repository. The application is implemented in Python, supported for major browsers and available at: https://edave.pum.edu.pl/

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