Cryopreserved human peripheral blood mononuclear cells (PBMCs) of a healthy female donor aged 25 were obtained by 10x Genomics from AllCells.
Granulocytes were removed by cell sorting, followed by nuclei isolation as described in the Demonstrated Protocol-Nuclei Isolation for Single Cell Multiome ATAC + Gene Expression Sequencing (CG000365 Rev A). Targeted nuclei recovery was 10,000. Higher recovery was observed, likely due to counting variability.
Paired ATAC and Gene Expression libraries were generated from the isolated nuclei as described in the Chromium Next GEM Single Cell Multiome ATAC + Gene Expression User Guide (CG000338 Rev A) and sequenced on Illumina Novaseq 6000 v1 Kit (Forward Strand Dual-Index Workflow).
User Guide: Chromium Next Gem Single Cell Multiome ATAC + Gene Expression User Guide (CG000338 Rev A)
Libraries generated:
- Chromium Single Cell Multiome ATAC library
- Chromium Single Cell Multiome Gene Expression library
Sequencing information:
- Sequencer: Novaseq 6000 v1 Kit (Forward Strand Dual-Index Workflow)
- Cycle numbers:
- Gene Expression library: 28,10,10,90
- ATAC library: 50,8,16,49
Key metrics:
- Estimated number of cells: 11,909
- ATAC Mean raw read pairs per cell: 38,374
- ATAC Median high-quality fragments per cell: 13,486
- ATAC Number of peaks: 108,377
- GEX Mean raw reads per cell: 52,201
- GEX Median genes per cell: 1,826
- GEX Median UMI counts per cell: 3,776
- Linked genes: 15,494
- Linked peaks: 85,468