Skip to main content
. Author manuscript; available in PMC: 2020 Jan 26.
Published in final edited form as: Cell Rep. 2019 Nov 5;29(6):1718–1727.e8. doi: 10.1016/j.celrep.2019.09.082

Figure 3. Recovery of Rare Transitional Cell States through Singlet Rescue.

Figure 3.

Evaluation of a scRNA-seq dataset of mouse hematopoietic progenitors, with rare transitional states, is shown. All initially detected multiplets were removed through a microscopy validation step to selectively evaluate specificity for doublet detection.

(A) Identification of highly related clusters for DoubletDecon reference creation from the original ICGS unsupervised population predictions (Olsson et al., 2016). (Left) Highlighted ICGS cell populations within a t-Distributed Stochastic Neighbor Embedding (t-SNE) before cluster merging. (Middle) DoubletDecon cluster similarity heatmaps indicating similarity and clustering merging. (Right) t-SNE plot of the merged cell populations.

(B) Bar graph displaying number of cells within each cluster that were never removed (dark gray, “predicted singlets”), removed during the “remove” step but were subsequently rescued (light gray, “rescued singlets”), and removed during the “remove” step and were not rescued (white, “final doublets) per total cells in each cluster (left) and percentage of cells in each cluster (right).