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GXP: Analyze and Plot Plant Omics Data in Web Browsers

Authors :
Constantin Eiteneuer
David Velasco
Joseph Atemia
Dan Wang
Andrea Schrader
Roland Pieruschka
Sven Fahrner
Rainer Schwacke
Vanessa Wahl
Ulrich Schurr
Björn Usadel
Asis Hallab
Publication Year :
2022
Publisher :
MDPI AG, 2022.

Abstract

Next generation sequencing and metabolomics have become very cost and work efficient and are integrated into an ever growing number of life science research projects. Typically, well established software pipelines provide quantitative data informing about gene expression or concentrations of metabolites from the raw data. This data needs to be visualized and further analyzed in order to support scientific hypothesis building and identification of underlying biological patterns. Some tools exist, but require installation or manual programming. We developed “Gene Expression Plotter” (GXP), an RNA-Seq and Metabolomics data visualization and analysis tool entirely running in the user’s web browsers, thus not needing any custom installation, manual programming or upload of confidential data to third party servers. GXP enables the user to generate interactive plots, visually summarize genetic or metabolic responses in scientific sketches (Mapman), carry out cluster and principal component analysis, and conduct overrepresentation analyses. GXP can be used to publish research data along with interactive plots and results of analyses carried out with it. GXP is freely available on GitHub: https://github.com/usadellab/GeneExpressionPlots

Subjects

Subjects :
life_sciences_other

Details

Database :
OpenAIRE
Accession number :
edsair.doi.dedup.....ed15890c913ed3c073790967da8d6330
Full Text :
https://doi.org/10.20944/preprints202201.0353.v1