1:1 Mixture of Human HEK293 and Mouse NIH3T3 cells purchased by Fluent BioSciences from ATCC were used in a standard species-mixture experiment to demonstrate the capabilities of PIPseq.

5400 cells were input into a T2 PIPseq reaction, resulting in 2,706 captured cells. Libraries were generated using PIPseq v3.0 chemistry and sequenced on an Illumina NextSeq 2000 to a depth of 108,000,000 reads (~40k reads per cell).

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Samples were sequenced using paired-end dual indexing with the following settings:

• Read 1: 51 cycles
• i5 index 8 cycles
• i7 index 8 cycles
• Read 2: 70 cycles

Processed with PIPseeker v1.1.3 using –force-cells 2706