Quick Facts

Extended deliverables will mean:

      • Better integration/coordination between AGC and Bioinformatics Core
      • More QC metrics available to researchers
      • Cheaper/faster downstream analysis
      • Options to analyze independently (RNA-Seq differential analysis workshop coming soon)

The BRCF Advanced Genomics Core (AGC) and Bioinformatics Core have collaborated to extend the set of files AGC delivers for simple RNA-Seq experiments. Beginning Monday, December 7, 2020, in addition to providing the FASTQ sequence reads, the AGC will also provide aligned reads, preliminary QC results, and a table of gene read counts (suitable for use in differential expression analysis) at no additional cost. These files are generated with the same workflow used by the Bioinformatics Core; it is our hope that these files will reduce the cost and accelerate the turnaround of simple differential expression analysis executed at the Bioinformatics Core. Additionally, providing the gene count matrix will streamline the analysis process for labs that would like to execute differential analysis independently.

These additional files will only be provided for bulk RNA-Seq experiments using poly-A/total RNA based on model organisms. A simple overview of the methods is available here. The Bioinformatics Core (bioinformatics@umich.edu) is happy to provide the additional downstream analysis (e.g. differential expression modeling, pathway/gene enrichment analysis) on these or other RNA-Seq experiments.

If you have questions on sequencing approaches or questions about the methods or deliverables, feel free to contact advanced-genomics@umich.edu.

Thank You,

Olivia Koues, Ph.D.
Managing Director, Advanced Genomics Core
University of Michigan

Chris Gates, M.S.
Managing Director, Bioinformatics Core
University of Michigan