Supplementary Figure 6: Plating density affects cellular state. | Nature Methods

Supplementary Figure 6: Plating density affects cellular state.

From: Growth rate inhibition metrics correct for confounders in measuring sensitivity to cancer drugs

Supplementary Figure 6

(a) Enriched gene sets for genes on the first principal component of transcriptional data from MCF 10A cells collected at different densities, 2 and 3 days after plating. Only genes in the leading edge of sets enriched at high density and late time points with FDR<0.1 are shown. Yellow represents up-regulation and blue down-regulation. Conditions are ordered by interpolated cell number (left column). (b) PCA projection of transcriptional data from MCF 10A cells collected at different densities, 2 and 3 days after plating. Shapes, day of collection; size, seeding density; color, interpolated cell number at time of collection. Axis labels include the Spearman’s correlation value between the cell number and the PCA coordinate.

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