Extended Data Fig. 1: Droplet overloading for the Chromium scATAC v.1.0 and v.1.1 Next GEM microfluidic chips.
a-b, Representative microscopy images of droplets (top rows) and histograms showing the number of nuclei per droplet (bottom rows) at different loading concentrations (15,300, 191,000, 383,000, 765,000, and 1,530,000 nuclei per channel) for the Chromium scATAC v1.0 chip (panel a) and for the scATAC v1.1 Next GEM chip (panel b). To obtain these images, lysis reagents were omitted from the cell loading experiment, and a total of 3,265 (scATAC v1.0) or 4,509 (scATAC v1.1 Next GEM) droplets were manually counted. Moreover, the number of beads per droplet (rightmost image and diagram) was visualized and counted based on a loading experiment in which the nuclei suspension was substituted by 1x Nuclei Buffer, while Reducing Agent B was omitted. c, Despite substantial droplet overloading, stable droplet emulsions were obtained for all tested conditions. d, Box plots showing the droplet diameters for the Chromium scATAC v1.0 and scATAC v1.1 Next GEM microfluidic chips at different loading concentrations. For each setup, 100 droplets were evaluated. Box plots depict the interquartile range with marked median and whiskers extending to 1.5 times the interquartile range. e, Histogram showing droplet diameters (as in panel d) pooled across different loading concentrations (500 droplets per platform).
