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10k Human PBMCs, 3' v3.1, Chromium X (with intronic reads)

Universal 3' dataset analyzed using Cell Ranger 6.1.2

Number of samples on this datasets page1

Human peripheral blood mononuclear cells (PBMCs) of a healthy female donor aged 25-30 were obtained by 10x Genomics from AllCells.

Libraries were generated from ~16,000 cells (11,984 cells recovered) as described in the Chromium Single Cell 3' Reagent Kits User Guide (v3.1 Chemistry Dual Index) (CG000315 Rev C) using the Chromium X and sequenced on an Illumina NovaSeq 6000 to a read depth of approximately 40,000 mean reads 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: --expect-cells=10000 and --include-introns

This dataset is licensed under the Creative Commons Attribution 4.0 International (CC BY 4.0) license. 10x citation guidelines available here.

Product

Universal 3'

Additional Applications

High Throughput

Software

Cell Ranger

Subpipeline

cellranger count

10x Instrument(s)

Chromium X Series

Species

Human

Anatomical Entity

Blood

Disease State

healthy

Cells or Nuclei

Cells

Selected Cell Types

PBMCs

Biomaterial Type

Cell Suspension

Cell/Nuclei Count

11,984

Donor Count

1

Date Published

2022-03-29