User-friendly RNA-Seq analysis tools designed for biologists


RNA Sequencing Data Analysis Solutions

Example of RNA-Seq Data

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

FAQs: RNA-Seq Data Analysis

Demystifying RNA sequencing data analysis with answers to some of the most common frequently asked questions.

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RNA-Seq App Data and Testimonials

View sample data and see positive feedback from customers regarding usability.

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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:

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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).

RNA-Seq BaseSpace Apps: A Guided Tour

See step-by-step instructions on how to navigate through the data analysis.

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Test BaseSpace Correlation Engine

Try out BaseSpace Correlation Engine (formerly NextBio Research) on your RNA-Seq data with this BaseSpace App, which annotates key differentially expressed genes.

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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.

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Additional Resources

Introduction to RNA-Seq
See how RNA sequencing offers a unique combination of whole-transcriptome coverage, sensitivity, and discovery potential. Learn More

User Guides for BaseSpace Apps
Access user guides and additional technical information about BaseSpace Apps. Find User Guides

Analyze mRNA Splice Variants
Interpret and validate mutations that affect mRNA splicing and protein coding with the MutationForecaster App. View App

BaseSpace Hub Blog
Keep up on the latest tools and functionality in BaseSpace Hub, with spotlights on useful research methods and data examples. View Latest Posts