Extended Data Fig. 2: Quality assessment of DisCo scRNA-seq data.
From: Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition
(a) Cumulative reads per barcode (n = 500) for DisCo and two Drop-seq experiments2,23. (b) Hamming distances between all 12 nt barcodes of a Drop-seq experiment and generated 12 nt random barcode sequences representing the probability density for each set of barcodes. (c) Species purity (bars) and doublet ratio (dots) for unmerged (n = 949) and merged barcodes (n = 274). Data represent mean values, error bars standard deviation. (d-e) HEK 293T cells were processed with DisCo at 22 °C after 20, 40 or 60 min or stored on ice for 120 or 180 min and subsequently processed. (d) UMAP embedding of all profiled HEK 293T cells from the five sampling time points, color-coded by sampling time. (e) Violin plots showing the percentage of UMIs per cell of heat-shock-protein (HSP), mitochondrial protein-coding (MT), or ribosomal protein-coding (RPL) genes. (f) Correlation of the number of manually counted cells by fluorescence microscopy and the number of cells quantified by the DISPENCELL platform. (g) A quantified number of HEK 293T cells was processed with the Fluidigm C1 system. Processing efficiency was calculated as the percentage of cells retrieved from the sequencing data respective to the quantified number of input cells. The red line represents 100% efficiency, and samples were colored according to the recovery efficiency after sequencing.
