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ggVolcanoR: A Shiny app for customizable visualization of differential expression datasets.
Mullan, Kerry A; Bramberger, Liesl M; Munday, Prithvi Raj; Goncalves, Gabriel; Revote, Jerico; Mifsud, Nicole A; Illing, Patricia T; Anderson, Alison; Kwan, Patrick; Purcell, Anthony W; Li, Chen.
Afiliación
  • Mullan KA; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Bramberger LM; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Munday PR; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Goncalves G; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Revote J; Monash eResearch Centre, Monash University, Melbourne, VIC 3800, Australia.
  • Mifsud NA; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Illing PT; Biomedicine Discovery Institute and Department of Biochemistry and Molecular Biology, Monash University, Melbourne, VIC 3800, Australia.
  • Anderson A; Department of Neuroscience, Central Clinical School, Monash University, Melbourne, Victoria, Australia.
  • Kwan P; Departments of Medicine and Neurology, University of Melbourne, Royal Melbourne Hospital, Melbourne, Victoria, Australia.
  • Purcell AW; Department of Neuroscience, Central Clinical School, Monash University, Melbourne, Victoria, Australia.
  • Li C; Departments of Medicine and Neurology, University of Melbourne, Royal Melbourne Hospital, Melbourne, Victoria, Australia.
Comput Struct Biotechnol J ; 19: 5735-5740, 2021.
Article en En | MEDLINE | ID: mdl-34745458
ABSTRACT
Volcano and other analytical plots (e.g., correlation plots, upset plots, and heatmaps) serve as important data visualization methods for transcriptomic and proteomic analyses. Customizable generation of these plots is fundamentally important for a better understanding of dysregulated expression data and is therefore instrumental for the ensuing pathway analysis and biomarker identification. Here, we present an R-based Shiny application, termed ggVolcanoR, to allow for customizable generation and visualization of volcano plots, correlation plots, upset plots, and heatmaps for differential expression datasets, via a user-friendly interactive interface in both local executable version and web-based application without requiring programming expertise. Compared to currently existing packages, ggVolcanoR offers more practical options to optimize the generation of publication-quality volcano and other analytical plots for analyzing and comparing dysregulated genes/proteins across multiple differential expression datasets. In addition, ggVolcanoR provides an option to download the customized list of the filtered dysregulated expression data, which can be directly used as input for downstream pathway analysis. The source code of ggVolcanoR is available at https//github.com/KerryAM-R/ggVolcanoR and the webserver of ggVolcanoR 1.0 has been deployed and is freely available for academic purposes at https//ggvolcanor.erc.monash.edu/.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Idioma: En Revista: Comput Struct Biotechnol J Año: 2021 Tipo del documento: Article País de afiliación: Australia
Texto completo
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Idioma: En Revista: Comput Struct Biotechnol J Año: 2021 Tipo del documento: Article País de afiliación: Australia