Representative cDNA QC traces for Illumina Single Cell 3’ RNA Prep

In the Illumina Single Cell 3' RNA Prep workflow, cDNA peaks, distributions, and average fragment sizes can vary based on sample type and experimental conditions.

The following TapeStation traces serve as representative examples of satisfactory cDNA QC profiles generated during the Check QC Product step in the Illumina Single Cell 3' RNA Prep workflow.

Figure 1. Human peripheral blood mononuclear cells (PBMCs)

Figure 2. Human HEK 293T and mouse NIH 3T3 cell line mixture

Figure 3. Mouse frozen tissue: unfixed brain nuclei

Figure 4. Mouse frozen tissue: DSP-methanol fixed brain nuclei

Figure 5. Mouse frozen tissue: unfixed mouse diaphragm

Figure 6. Mouse frozen tissue: unfixed mouse heart

Figure 7. Mouse frozen tissue: unfixed lung nuclei

Figure 8. Mouse frozen tissue: DSP-methanol fixed lung nuclei (1-month storage)

For example final library traces produced using similar sample types, see Representative library QC traces for Illumina Single Cell 3' RNA Prep.

For more information related to cDNA QC product assessment refer to:

• Illumina Single Cell 3' RNA Prep cDNA QC best practices

• Assessing cDNA QC in Illumina Single Cell 3' RNA Prep

• Illumina Single Cell 3' RNA Prep Training Packet

For any feedback or questions regarding this article (Illumina Knowledge Article #9525), contact Illumina Technical Support [e-mail].