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
disease
age_at_dx
pedaya
gender
site_id
dataset_accession
site_donor_id
site_sampleid
UMI Count
Louvain Cluster
disease
Label by Annotation
No label
disease
pedaya
gender
site_id
dataset_accession
Louvain Cluster
No label
Hover over a cell to update data below
Cells are selected. No update on hover.
cell id
disease
age at dx
pedaya
gender
site id
dataset accession
site donor id
site sampleid
UMI Count
Louvain Cluster
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
JAK1
JAK2
JAK3
STAT1
STAT2
STAT3
STAT5A
STAT5B
IL6
IL6R
EGFR
ERBB2
ERBB3
ALK
MET
ROS1
FLT1
FLT4
PDGFRA
PDGFRB
FGFR1
FGFR2
FGFR3
FGFR4
NTRK1
NTRK2
NTRK3
FLT3
KDR
KIT
CSF1R
TEK
CDK4
CDK6
CCND1
CCND2
CCND3
CCNE1
CDK2
PIK3CA
PIK3CB
PIK3CG
PIK3CD
PIK3R1
PIK3R2
PIK3R3
PIK3R4
PIK3R5
PIK3R6
PIK3C2A
PIK3C2B
PIK3C2G
PIK3C3
AKT1
AKT3
TSC1
TSC2
MTOR
RPTOR
MLST8
DEPTOR
NRAS
KRAS
HRAS
BRAF
RAF1
ARAF
MAP2K1
MAP2K2
PTCH1
GLI1
SMO
BCL2
BCL6
MDM2
HSP90AA1
HSP90AA2P
HSP90AA6P
HSP90AA4P
HSP90AA5P
HSP90AB1
HSP90AB3P
HSP90AB2P
HSP90AB6P
HSP90AB4P
HSP90B1
HSP90B2P
HSP90B3P
BTK
MS4A1
AURKA
AURKB
AURKC
PARP1
CDK9
IGF2
MAP2K4
NOTCH3
VEGFA
WEE1
PARP2
ETV1
IGF1R
IGF1
AKT2
HDAC4
HDAC7
PDCD1
HMOX1
VEGFC
GATA2
Layout
tSNE
UMAP
ForceAtlas2
DrL Distributed Recursive Layout
Fruchterman Reingold
Large Graph Layout
Kamadi Kawai
Reingold Tilford tree
tSNE
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...
