40k Mixture of Mouse Cell Lines, Multiplexed Samples, 4 Probe Barcodes (Next GEM)

Four mouse cell lines were obtained by 10x Genomics from ATCC:

• A20, TIB-208
• NIH 3T3, CRL-1658
• Neuro-2a, CCL-131
• EL4, TIB-39

Cryopreserved cells were thawed and then fixed for 1 hour at room temperature following the demonstrated protocol Fixation of Cells & Nuclei for Chromium Fixed RNA Profiling (CG000478, Rev B).

The Fixed RNA Gene Expression library was generated as described in the Chromium Fixed RNA Profiling for Multiplexed Samples User Guide (CG000527, Rev C). Samples were run as a 4-sample multiplexed experiment, in which each sample was hybridized with a unique Probe Barcode in a separate hybridization reaction. After hybridization, samples were pooled in equal proportions, washed, and then run in a single GEM lane. The resulting library was sequenced on an Illumina NovaSeq6000 with approximately 31k read pairs per cell.

• Total 41,082 cells detected (A20: 10,646; NIH 3T3: 11,065; Neuro-2a: 9,737; EL4: 9,634)
• Paired-end, dual indexing: 28 cycles Read 1, 10 cycles i7, 10 cycles i5, 90 cycles Read 2

This dataset is licensed under the Creative Commons Attribution license.