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. 2021 Oct 5;12:5826. doi: 10.1038/s41467-021-26059-4

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© The Author(s) 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — a RNA velocity trajectory shown for p039, using the same UMAP representation as in Fig. 3a. b Startpoint (top) and endpoint (bottom) probabilities shown for p039. c Difference between the average startpoint (red) and endpoint (blue) probabilities within each cluster (columns) across all PDAC organoid samples (rows). d Distribution of PDAC subtypes in single cells along the lineage trajectory. Colors indicate whether a cell exhibits higher expression of ‘classical’ (blue) or ‘basal-like’ (red) subtype marker genes. e Correlation of PDAC subtype scores with cell embeddings in the first principal component, which distinguishes cycling cells (negative values in PC1) from differentiating cells (positive values in PC1). f Projection of all cells onto a linear combination of PC1, PC2, and PC3 to visualize cycling and differentiating cells (top). Cells in the four clusters around the trajectory bifurcation point were linked by a minimum spanning tree (bottom). g Expression of genes with dynamic changes along the bifurcation branches (red: high, blue: low), with hierarchical clustering of gene expression shown on the left. Column annotations indicate position along the branches.