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

. 2022 Oct 5;621(7978):365–372. doi: 10.1038/s41586-022-05279-8

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

© The Author(s) 2022

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/.

PMC Copyright notice

Extended Data Fig. 2 — a,d, UMAP embedding of a subset of the organoid trajectory surrounding neuroectoderm cells (a) and the branching window (d) coloured by time point, velocity pseudotime, cell line, branch prediction and lovain clusters. b,e, Heatmap showing mean min-max scaled expression (log(transcript counts per 10k + 1)) of cluster markers. c, UMAP embedding coloured by cluster identities, expression patterns of cluster markers. Volcano plot shows differentially expressed (DE) genes of cluster 5 relative to other clusters. f, UMAP embedding coloured by rank-transformed CellRank transition probability to non-telencephalon, ventral telencephalon and dorsal telencephalon and coloured by expression of selected transcription factors. g, Whole-mount HCR in situ hybridizations of day 18 organoids and UMAP embedding coloured by expression of targets. Stainings were performed on 2-3 organoids per cell line and representative images were shown. Scale bar: 100 μm. The range of expression values is indicated for each feature plot.