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

. 2020 Oct 9;3:565. doi: 10.1038/s42003-020-01247-y

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

© The Author(s) 2020

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

Fig. 2 — a Visualization of the single-cell hippocampus data by using its gt-SNE embedding (inner region), with spatial proportion estimates of several clusters overlaid on the H&E-image (outer region) of sample mb-V1 (10× Visium array, 55 μm spots). The cluster labels are derived from the original single-cell data set (see “Methods”)^24,31. b Estimated proportions for 3 of the 56 clusters, here taken as cell types, defined in the mouse brain single-cell data set. Two different sections are used, mb-ST1 (ST array, 100 μm spots) and mb-V1, to illustrate the consistency between different array resolutions. Marker gene expression patterns obtained by ISH are found in the bottom row, taken from the Allen Brain Atlas. Rarres2 is a marker gene of ependymal cells, Prox1 for dentate granule neurons, and Wfs1 for pyramidal neurons (the latter two both being subtypes of neurons). Face color opacity is proportional to the cell type proportion estimates; scale bars show 1 mm in respective image.