PBMCs from C57BL/6 mice (Next GEM v1.1, 150x150)

Mouse peripheral blood mononuclear cells (PBMCs) pooled from C57BL/6 mice were obtained from C&M LabPro (part number 11121911). The cells were 84% viable (trypan blue stain).

Amplified cDNA were used to generate TCR enriched libraries and Ig enriched libraries, following the Chromium Next GEM Single Cell V(D)J Reagent Kits v1.1 User Guide with Feature Barcoding technology for Cell Surface Protein (CG000208).

Libraries were sequenced on an Illumina NovaSeq 6000 (NovaSeq software v1.6).

Note: The web summary will have a Warning alert for TCR library. This is due to the low fraction of T cells in mouse PBMC and the low expression levels of TCR-α and TCR-β genes in these cells.

V(D)J Enriched Libraries

TCR Libraries

• Sequencing Depth: TCR Library - 41,366 read pairs per cell
• Sequencing Coverage: Read 1 - 150 bp i7 Index - 8 bp i5 Index - 0 Read 2 - 150 bp

The key cell metrics were:

• Cells detected - 1,082
• Reads mapped to any V(D)J gene - 46.0%
• Cells with productive V-J spanning pair - 72.5%

Ig Libraries

• Sequencing Depth: Ig Library - 18,341
• Sequencing Coverage: Read 1 - 150 bp i7 Sample Index - 8 bp i5 Sample Index - 0 Read 2 - 150 bp

The key cell metrics were:

• Cells detected - 5,167
• Reads mapped to any V(D)J gene - 89.4%
• Cells with productive V-J spanning pair - 95.6%

This dataset is licensed under the Creative Commons Attribution license.