Figure - PMC

Skip to main content

An official website of the United States government

Here's how you know

Here's how you know

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.

View full-text article in PMC

. 2025 Jan 2;16:142. doi: 10.1038/s41467-024-55597-w

Search in PMC
Search in PubMed
View in NLM Catalog
Add to search

© The Author(s) 2024

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

PMC Copyright notice

Fig. 5 — a,b JZP and LP trajectories can be defined from pseudotime. Analysis of branches in single cell pseudotime trajectories in Inhibit dataset. Pseudotime was calculated with Monocle 3 to measure how much progress an individual cell has made through a process of TSC differentiation. Cells were coloured by cluster identity. a LP trajectory in Inhibit dataset. b JZP trajectory in Inhibit Dataset. Branches were selected by identifying start node (cluster 9 with T0 cells) and end node (nodes at the end of JZP and LP identified clusters). c, d Expression of JZP and LP-specific genes in pseudotime across their trajectory branch. Branches of pseudotime trajectories were selected by assigning earliest principal node with highest number of t0 cells as a start and end principal node of differentiated JZP or LP cluster as end and connecting the shortest path between the points. Branches were then plotted on UMAP with cells coloured by cluster. Genes shown are a combination of known markers and ones from the top list. c Expression of LP genes across pseudotime in Inhibit dataset. d Expression of JZP genes across pseudotime in Inhibit dataset. e JZP trajectory in Remove dataset. f LP trajectory in Remove dataset. Branches were selected by identifying start node (cluster 14 with T0 cells) and end node (nodes at the end of JZP and LP identified clusters). g Expression of JZP genes across pseudotime in Remove dataset. h Expression of LP genes across pseudotime in Remove Dataset.