Spatial Viewer

Gene expression
Cell locations
Cell interactions

Steady state
Malaria

Step 1: Search for your favourite gene in the searchbars!

Step 2: Select another gene in the second searchbar.

Locations with expression of Gene 1 appear in blue. Locations with expression of Gene 2 appear in red.

Gene 1

Gene 2

Gene 3

Gene 1

Gene 2

Gene 3

Steady state
Malaria

Step 1: Select cell types from the drop down menus below to see their inferred locations, then use the sliders to change their colours or dot sizes.
Step 2: Light up different microanatomical compartments using the Microarchitectural Feature option.
Step 3: Navigate using the toolbar at the top right.

Microarchitectural feature

Channel 1

Channel 2

Channel 3

Channel 4

Point size

Microarchitectural feature

Channel 1

Channel 2

Channel 3

Channel 4

Point size

Steady state
Malaria

Click a box in the heatmap of colocalisations to see inferred ligand-receptor interactions between two cell types.

x axis entries are in the format:

ligand -> receptor

where the ligand is expressed by the left cell type and the receptor is expressed by the right cell type.

y axis indicates the degree of confidence in an interaction inferred by the CellChat algorithm.

Ligand-receptor interaction inference is based on mRNA expression only and does not account for cell positioning.

Click a box in the heatmap of colocalisations to see inferred ligand-receptor interactions between two cell types.

x axis entries are in the format:

ligand -> receptor

Select a tab to view spatial gene expression, cell type locations, or cell-cell interactions