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1k Human PBMCs Stained with a Panel of TotalSeq™-B Antibodies, Dual Indexed

Single Cell Gene Expression dataset analyzed using Cell Ranger 4.0.0

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Learn about Chromium analysis

Peripheral blood mononuclear cells (PBMCs) from a healthy donor were obtained by 10x Genomics from AllCells and were labelled with a panel of 17 TotalSeq™-B antibodies (BioLegend). The same cells were used to generate Chromium Single Cell 3’ (Single Index) data.

Libraries were prepared following the Chromium Next GEM Single Cell 3ʹ Reagent Kits v3.1 (Dual Index) with Feature Barcode technology for Cell Surface Protein (CG000317) and sequenced on Illumina NovaSeq 6000.

Single Cell 3’ Cell Surface Protein v3.1 Dual Index Library

  • Sequencing Depth: 36,996 read pairs per cell

  • Paired-end, dual indexing Read 1: 28 cycles (16 bp barcode, 12 bp UMI) i5 index: 10 cycles (sample index) i7 index: 10 cycles (sample index) Read 2: 90 cycles (transcript)

  • Analysis Parameters Used: Run with --expect-cells=1,000

Key metrics were:

  • Cells detected: 1,200
  • Median UMI counts per cell: 5,682
  • Median genes per cell: 1,700

This dataset is licensed under the Creative Commons Attribution license.