Human Amygdala Spatial Transcriptomics

Interactive viewers across three spatial platforms. Each opens in Vitessce in your browser.

Visium HD
5 crops · 18,085 genes · 2 µm bins
Highest spatial resolution, with true cell-segmentation outlines over H&E.
Visium
7 donors · 36,601 genes · 55 µm spots
Full transcriptome across seven donors, spots over H&E.
Xenium
4 donors · 366-gene panel · single cell
Single-cell resolution imaging-based panel, with a UMAP embedding.
All three side by side
one donor · Br9280
The same donor on all three platforms in one linked view.

First load takes a moment. Data streams directly from cloud storage as you pan and zoom, so the initial view fills in progressively.

Use the gene list to change which gene is painted on the tissue; the dot plot has its own separate gene set (shift-click to add or remove). Colour-by is set to spatial domains by default — switch it in the cell-set panel.

Best in Chrome, Firefox, or Safari on a desktop.