Technical Note - Resolving Cell Types as a Function of Read Depth and Cell Number

Chromium™ Single Cell Solutions enable gene expression profiling of 100–10,000 cells per reaction. When sequencing costs or capacity are limiting, there is often a trade-off between sequencing a larger cell number (breadth) and sequencing a smaller cell number with more reads (depth). Here, we examine how sequencing depth and cell number influence the detection of major cell types in peripheral blood mononuclear cells (PBMCs).

FOR USE WITH

• Chromium™ Single Cell 3’ Library & Gel Bead Kit v2, 16 rxns PN-120237
• Chromium™ Single Cell 3’ Library & Gel Bead Kit v2, 4 rxns PN-120267
• Chromium™ Single Cell 5’ Library & Gel Bead Kit, 16 rxns PN-1000006
• Chromium™ Single Cell 5’ Library & Gel Bead Kit, 4 rxns PN-1000014
• Chromium™ Single Cell V(D)J Enrichment Kit, Human T Cell, 96 rxns PN-1000005
• Chromium™ Single Cell A Chip Kit, 48 rxns PN-120236
• Chromium™ Single Cell A Chip Kit, 16 rxns PN-1000009
• Chromium™ i7 Multiplex Kit, 96 rxns PN-120262