Extended Data Fig. 8: DisCo performance on individual intestinal crypts and data analysis.
From: Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition
(a) Processing efficiency of DisCo for individual and bulk intestinal crypts. All cells processed with DisCo were manually counted during the experiment, and compared to cell numbers after quality filtering (>500 UMIs). The red line represents 100% efficiency, and samples are colored according to sample type. (b) Expression dot plot of marker genes for clusters shown in Fig. 5a. (c) Gene activity represented as the cumulative Z-score and projected on the UMAP embedding of all sequenced cells using the expression of Top: Paneth cell-associated genes encompassing Lyz1, Defa17, Defa24 and Ang4 and Bottom: genes that are positively regulated by YAP127. (d) Projection of cell types onto the reference UMAP of cells derived from the 21 individual crypts. Cells per single crypt were colored according to their global clustering and highlighted on the UMAP embedding of all sequenced cells. Enterocytes (Entero), PIC (Potential intermediate cells), RegStem, (Regenerative Stem), TA (Transit amplifying cells; G1: G1/S and G2: G2/M cell cycle phase).
