Extended Data Fig. 3: Lineage size distribution dependent on culture conditions in barcoded lineage tracing.
From: Cerebral organoids display dynamic clonal growth and tunable tissue replenishment
a, Outline for different culture conditions used for lineage tracing experiments. b, Whole culture lineage tracing of WT hESC in 2D cell culture. (n = individual lineages from 3 biological replicates from 1 experiment at each time point). c, Whole culture lineage tracing of WT hESC cells differentiated to neurons in 2D (2DN). (n = individual lineages from 3 biological replicates from 1 differentiation experiment at each time point). d, Whole culture lineage tracing of WT hESC cells grown to form 3D tissue cerebral organoids. Individual Barcode Libraries 1 and 2 are indicated. (n = individual lineages from 3 organoids as biological replicates from 1 differentiation experiment at each time point). e, Comparison of 2D, 2DN and 3D lineage size distributions at day 42. ***P < 10−4 by two-sample Kolmogorov-Smirnov test. (P-values: 2D – 2DN = 1 × 10−324, 2D – 3D = 3 × 10−310, 2DN – 3D = 2 × 10−84). (n = individual lineages from 3 biological replicates from 1 experiment for each 2D, 2DN and 3D).f, g, Comparability of 3D lineage tracing experiments performed. Reads of experiment 1 (e) were down sampled to match read numbers of experiment 2 (f). (n = individual lineages of individual organoids as biological replicates from 1 differentiation experiment at each time point for experiment 1 and experiment 2 are shown).
