- Discover More / Differential Expression
Differential Expression for Understanding Expression
Analyze your RNAseq data with confidence using SeqCoast’s end-to-end differential expression analysis pipeline.
Our reproducible, publication-ready reports analyze transcript abundance and functional profiling, generating interactive visualizations in a single comprehensive deliverable.
Differential expression
What is differential expression analysis?
Differential expression analysis enables the statistical characterization of mRNA transcript abundance across treatment groups. SeqCoast’s differential expression pipeline quantifies transcript abundance, statistically analyzes the differential expression of transcripts across conditions, characterizes functional profiles of enriched transcripts, and provides publication-ready visualizations and reports.
Differential expression analysis has application across fields including:
- Drug discovery and therapeutic development
- Infectious disease and host-pathogen interactions
- Agricultural and crop science research
- Plant stress response and environmental biology
- Microbiome and multi-omics studies
- Biological mechanism of disease studies
What's included?
Our report includes accessible, high-quality analysis results ready for publication.
Publication-ready and fully reproducible plots and tables:
- Interactive visualizations.
- Access to all underlying data.
- Thorough methods descriptions, documentation, and citations.
Built with:
- State-of-the-art computational tools.
- Industry-standard quality control tools tailored to our pipeline.
- QC results made accessible to you.
Special features:
- Support for transcript isoforms.
- All pairwise comparisons included.
High-quality analysis backed by high-quality data:
- SeqCoast microbiologists produce best-quality sequencing data.
- Tight integration between wet lab and dry lab generates best-quality analyses.
Analysis process
Our analyses are built with state-of-the-art computational tools and industry-standard quality control tools tailored to our workflow.
Our interactive HTML summary report includes:
- Quantifies transcript abundance across all samples and conditions.
- Generates normalized expression estimates that serve as the foundation for downstream statistical analyses.
- Sensitive to transcript isoforms.
- Quantifies the magnitude and statistical significance of expression changes using robust statistical methods.
- Assigns transcripts to functional pathways.
- Quantifies the magnitude and statistical significance of expression changes of transcript pathways, highlighting the most differentially expressed transcript functional groups.
Need something beyond the standard workflow?
We understand that some research requires specialized attention. Customized processing, reporting, and bioinformatics analyses are available for specialized research projects.
Pricing — the more you order, the lower the price!
Why order SeqCoast analysis?
Get interpretable results, not just a folder of output files. Transform raw sequencing data into actionable insights.
Save time with analysis infrastructure that's ready to scale from pilot studies to enterprise-scale projects.
Reduce cost and complexity by leveraging our established cloud computing environment and validated workflows.
Accelerate research with rapid turnaround times and high-throughput processing capabilities.
Skip building and maintaining a differential expression pipeline of your own, at any batch size.
Trust your results with rigorous QC, proven pipelines, and expert scientific review.
Data delivery, security, and access
- Our analysis pipelines are managed by bioinformatics experts using modern, version-controlled workflow frameworks that enable standardized, documented, and reproducible analyses.
- We maintain security controls designed to protect customer data throughout the data lifecycle. All data are produced and analyzed on USA-based equipment and AWS cloud infrastructure. Learn more about our world-class informatics processes here.
We make it easy to access your data!
- Data delivery options include SFTP Download, AWS transfer, Box.com, and alternatives on request.
- Data are stored on AWS cloud infrastructure in the United States, providing scalable storage, high availability, and industry-recognized security controls.
Frequently Asked Questions
Does the differential expression analysis include functional annotation?
Yes, our pipeline performs functional annotation of transcripts with “Clusters of Orthologous Gene” (COG) identifiers. COG pathways serve to associate a given transcript with biologically functional systems. If you’re interested in other forms of function annotation, such as KEGG or GO annotations, get in touch with us for a custom quote!