RNA-Seq Data Analysis in Galaxy

Methods Mol Biol. 2021:2284:367-392. doi: 10.1007/978-1-0716-1307-8_20.

Abstract

A complete RNA-Seq analysis involves the use of several different tools, with substantial software and computational requirements. The Galaxy platform simplifies the execution of such bioinformatics analyses by embedding the needed tools in its web interface, while also providing reproducibility. Here, we describe how to perform a reference-based RNA-Seq analysis using Galaxy, from data upload to visualization and functional enrichment analysis of differentially expressed genes.

Keywords: Differential gene expression; Functional enrichment; Galaxy; Quality control; Sequence mapping; Visualizations; Workflow.

MeSH terms

  • Animals
  • Computational Biology / methods
  • Data Analysis
  • Datasets as Topic / statistics & numerical data
  • Exome Sequencing / methods
  • Exome Sequencing / statistics & numerical data
  • Gene Expression Profiling / methods
  • Gene Expression Profiling / statistics & numerical data
  • High-Throughput Nucleotide Sequencing / methods
  • High-Throughput Nucleotide Sequencing / statistics & numerical data
  • Humans
  • RNA-Seq / methods*
  • Reproducibility of Results
  • Sequence Analysis, RNA / methods
  • Sequence Analysis, RNA / statistics & numerical data
  • Software*