UCSC Cell Browser
File
Open dataset...
o
Download bitmap image (PNG)
Download vector image (SVG)
Edit
Select all visible
s a
Select none
s n
Invert selection
s i
Name selection...
s s
Export selected...
Find cells...
f c
Find by ID...
f i
View
Zoom in
+
Zoom out
-
Zoom 100%
space
Split screen
t
Toggle Heatmap
h
Hide labels
c l
Tools
Remove all custom annotations
Set as background cells
b s
Reset background cells
b r
Help
About
How to use this website
Interactive Tutorial
Setup your own cell browser
+
100%
-
Loading...
Loading...
Loading...
Circle Size
Transparency
Legend
Colors
Reset to Default
Qualitative: Rainbow
Qualitative: Tatarize
Qualitative: Iwanthue
Semi-Qualitative: Paul Tol's
Gradient: shades of blue
Gradient: shades of red
Gradient: beige to red
Gradient: blue to red
Gradient: Viridis
Gradient: Magma
Gradient: Inferno
Gradient: Plasma
Annotation
Gene
Layout
Color by Annotation
Individual
Celltype
Subcelltype
Assay
Celltype
Label by Annotation
No label
Individual
Celltype
Subcelltype
Assay
Individual
Hover over a cell to update data below
Cells are selected. No update on hover.
cellId
Individual
Celltype
Subcelltype
Assay
Color by Gene
Split on this gene
Multi Gene
Reset to default coloring
Recent Genes
Hover or select cells to update colors here
Click to color by gene
null
Dataset Genes
AQP4
GFAP
SLC1A2
CAMK2A
NRGN
SLC17A7
GAD1
GAD2
PVALB
SST
VIP
C3
CD74
CSF1R
CELF4
GRIN1
SNAP25
SYT1
THY1
VSNL1
MBP
MOBP
OLIG1
PLP1
OLIG2
PDGFRA
VCAN
Layout
UMAP coordinates
UMAP coordinates
Circle size factor (1-7)
Transparency factor (1-7)
You can also change size and transparency with the sliders at the bottom right of the image
Copy field value to clipboard
Copy field value to clipboard
Remove custom annotations
Hide selected
Only show selected
Show all
Info & Download
Open...
Gene Expression Plots
Jump to...
Select a dataset...
search for gene...
