Comparison of transcript detection versus sequencing depth
The QIAseq FX Single Cell RNA Library Kit detects a greater number of transcripts at the same sequencing depth. To account for cell-to-cell differences in transcript abundance, libraries were produced from 100 pg of reference RNA from PBMCs. After sequencing, quality control and mapping, annotated transcripts with >1 TPM were quantified from either the full dataset or rarified sub-fractions. Saturation curves are from different sample preparation methods. Each point on the curve was generated by randomly selecting a number of raw reads from each sample library and then using the same alignment pipeline to call genes with mean TPM>1.