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UNC School of Medicine | UNC Lineberger Comprehensive Cancer Center

Expression Profiling

The Translational Genomics Lab (TGL) performs bulk RNA expression profiling using the following technologies and assays.

If submitting RNA, it is our recommendation for us to perform our own quality control of the samples before performing downstream assays to ensure the samples meet the QC requirements for the assays being performed.

Our Laboratory Management System (LIMS) and freezers are designed to accept individually labeled tubes. If possible, please avoid submitting samples in tube strips or PCR plates.

 

NanoString CosMx Spatial Molecular Imager (SMI) System

  • Input Material: FFPE Slides and Frozen Specimens
  • Recommended Input: 1×5 µm slide
  • Instrument: NanoString CosMx Spatial Molecular Imager (SMI) System
  • Caption available.
    NanoString CosMx Spatial Molecular Imager (SMI) System. Image provided by NanoString Technologies.
    Kits:

    • 100plex Human Immuno-Oncology RNA Panel
    • 1000plex Universal Cell Characterization RNA Panel
    • 6000plex Human Discovery RNA Panel
    • Whole Transcriptome RNA Panel

 

mRNA Sequencing

  • Input Material Source: Snap Frozen Tissue, Cell Pellets
  • Input Material: Total RNA
  • Recommended Input: 200-1000 ng in 50 µL of Tris buffer
  • Recommended Quality: Agilent TapeStation RNA Integrity Number (RIN) > 6
  • Instrument: Hamilton NGS STAR Automated Liquid Handlers
  • Kit: Illumina TruSeq Stranded mRNA Library Prep (Cat 20020595)
  • Recommended Sequencing Depth: >40 million clusters

 

Caption available.
Illumina TruSeq Stranded Total RNA Library Prep Gold. Image provided by Illumina.

Total RNA Sequencing

  • Input Material Source: Snap Frozen Tissue, Cell Pellets, FFPE
  • Input Material: Total RNA
  • Recommended Input: 1000 ng in 10 µL of Tris buffer
  • Recommended Quality: % DV200 > 20%
  • Instrument: Hamilton NGS STAR Automated Liquid Handlers
  • Kit: Illumina TruSeq Stranded Total RNA Library Prep Gold (Cat 20020599)
  • Recommended Sequencing Depth: >100 million clusters

 

RNA Exome Sequencing

  • Input Material Source: Snap Frozen Tissue, Cell Pellets, FFPE, Plasma
  • Input Material: Total RNA, cell free RNA
  • Recommended Input: 200 ng in 10 µL of Tris buffer
  • Recommended Quality: % DV200 > 20%
  • Instrument: Hamilton NGS STAR Automated Liquid Handlers
  • Kit: Twist Bioscience RNA Exome
  • Recommended Sequencing Depth: >40 million clusters