RNA Sequencing Data Analysis Solutions

Intuitive Analysis of RNA-Seq Data

Once the domain of bioinformatics experts, RNA sequencing (RNA-Seq) data analysis is now more accessible than ever. Illumina offers push-button RNA-Seq software tools packaged in an intuitive user interface designed for biologists. These user-friendly tools support a broad range of next-generation sequencing (NGS) studies, from gene expression analysis to total RNA expression profiling and more.

Benefits of RNA-Seq Data Analysis with BaseSpace Apps

RNA-Seq data can be instantly and securely transferred, stored, and analyzed in BaseSpace Sequence Hub, the Illumina genomics computing platform. BaseSpace Hub includes an expert-preferred suite of RNA-Seq software tools that were developed or optimized by Illumina. The Illumina BaseSpace RNA-Seq Apps are:

• Accessible to any researcher, regardless of bioinformatics experience
• Designed to support common transcriptome studies, from transcript abundance measurement to detection of novel transcripts, coding single nucleotide polymorphisms (cSNPs), gene fusions, and more
• Suitable for human, mouse, and rat RNA-Seq analysis (certain apps also support additional species)
  
• Compatible with all Illumina sequencers

Key BaseSpace RNA-Seq Analysis Apps

Based on the most commonly cited RNA-Seq analysis pipelines, these apps support a range of common transcriptome data analysis needs. Key Illumina BaseSpace RNA-Seq Apps include:

• TopHat Alignment: Align RNA-Seq reads, call variants, and detect gene fusions.
• Cufflinks Assembly and Differential Expression: Profile gene expression and detect novel transcript isoforms.
• RNA Express: Align RNA-Seq reads, assign aligned reads to genes, and perform differential gene expression analysis.

How to Analyze RNA-Seq Data with BaseSpace Apps

Walk through a typical BaseSpace Hub RNA sequencing data analysis workflow. Learn how to analyze your results, and view examples of the easily interpretable tables and graphs that the software generates. Read BaseSpace Hub RNA-Seq technical note (PDF).

Interpretation of RNA-Seq Data

After data analysis, results can be transferred seamlessly to BaseSpace Correlation Engine for functional annotation, to understand the biological effects of gene expression changes. BaseSpace Correlation Engine contains data sets from thousands of public studies that inform biological interpretation. Connect differential gene expression data from RNA-Seq experiments with disease associations, or visualize correlated genes and microRNA (miRNA) targets.