Extended Data Fig. 5: Analysis of extravillous trophoblast invasion trajectory using Slingshot.
From: Spatial multiomics map of trophoblast development in early pregnancy
a: Minimum spanning tree of donor P13 trophoblast single-nuclei RNA sequencing (snRNA-seq) data computed by Slingshot, visualised on the UMAP (uniform manifold approximation and projection) embedding of P13 donor trophoblast cells from Fig. 1c (n = 37,675 nuclei). Bigger black dots indicate trophoblast states. Smaller dots’ colour indicates pseudotime. b: Heatmap showing normalised and log-transformed expression values of the 567 genes associated with trophoblast pseudotime, estimated with tradeSeq (p-value < 1x10-6 and mean LogFC > 0.5). Cells in rows are sorted according to the predicted pseudotime. Genes are sorted according to the trophoblast state where gene expression peaks. Marker genes are highlighted. Syncytiotrophoblast (SCT), villous cytotrophoblast (VCT), cytotrophoblast cell column (CCC), extravillous trophoblast (EVT), interstitial EVTs (iEVTs), giant cells (GC), endovascular EVT (eEVT).
