Extended Data Fig. 4: Analysis of library complexity in TAP-seq and whole transcriptome 10x Genomics.
From: Targeted Perturb-seq enables genome-scale genetic screens in single cells
a, Deeply sequenced TAP-seq and whole transcriptome (Whole Tx) libraries were downsampled to a given average number of reads per cell (x axis). The average number of UMIs observed on the target panel (solid lines, shown for both methods) or across the entire genome (dashed line, only shown for whole transcriptome readout) is shown. See also Fig. 1e. b, Deeply sequenced TAP-seq and whole transcriptome libraries were down-sampled to a given average number of reads per cell (x axis). The ratio in UMIs observed on the target gene panel between TAP-seq and whole transcriptome sequencing is plotted as a measure of enrichment efficiency c, For K562 cells and panel 1, gene detection levels were compared between genes of different expression levels. See also Fig. 1f. d, Number of molecules observed per cell in different cell types at 160,000 reads per cell. n = 6,109 3T3 cells, 160 ESCs, 130 Lung cells and 55 Neutrophils. See Methods section on ‘data visualization’ for a description of box plot elements.
