10k Rat PBMCs Multiplexed, 2 CMOs

Rat peripheral blood mononuclear cells (PBMCs) from a Wistar rat strain (age 8 weeks, pooled female) were obtained by 10x Genomics from IQ Biosciences and multiplexed at equal proportions with 2 CMOs.

FASTA and GTF files were downloaded and processed with cellranger mkgtf and cellranger mkref, in order to build a reference for the Wistar rat (Rattus norvegicus).

The config.csv input file was submitted with two sample IDs (correlating to the two individually tagged aliquots of rat PBMCs) and with one CMO ID assigned per sample ID.

Libraries were prepared following the Chromium Next GEM Single Cell 3ʹ Reagent Kits v3.1 (Dual Index) with Feature Barcode technology for Cell Multiplexing User Guide (CG000388) and sequenced on Illumina NovaSeq 6000.

Single Cell 3’ Cell Multiplexing v3.1 Dual Index Library

• Sequencing Depth: 23,475 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)

Pooled Multiplexed Sample - Key Metrics

• Estimated Number of Cells: 12,324
• Cells Assigned to a Sample: 10,828

Individual Multiplexed Samples - Key Metrics

This dataset is licensed under the Creative Commons Attribution license.