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Cell Type
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Tissue
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Disease
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Sex
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Technology
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Suspension Type
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Cell
934
Nucleus
679
Data Source
0
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ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
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Most cells
Fewest cells
2515
datasets
CELLxGENE
2,477 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+15
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Neurectodermal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Anterior visceral endoderm cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
2,432 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Bladder urothelial cell
+1
Bladder urothelial cell
Bladder lumen
Bladder lumen
3-month-old stage
+2
3-month-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
Bladder urothelial cell
Bladder cell
Tissue
Bladder lumen
Developmental stage
3-month-old stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GSE132042
Processed files
Tabula Muris Senis
SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries V.1
github.com
CELLxGENE
2,410 cells
•
Chen et al., 2025
Determinants of sensitivity to HER2-targeted antibody drug conjugates in urothelial cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Neoplastic cell
Neoplastic cell
Urinary bladder
Urinary bladder
Adult stage
Adult stage
Urinary bladder cancer
Urinary bladder cancer
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neoplastic cell
Tissue
Urinary bladder
Developmental stage
Adult stage
Disease
Urinary bladder cancer
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
CELLxGENE
2,404 cells
•
Article
Explore
h5ad
Mus musculus
Mus musculus
Granulosa cell
+18
Granulosa cell
Ovary
Ovary
9-month-old stage
9-month-old stage
Normal
Normal
Female
Female
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Granulosa cell
Blood vessel endothelial cell
Stromal cell
Endothelial cell of lymphatic vessel
Cumulus granulosa cell
Smooth muscle cell
Steroidogenic stromal cell of ovary
Endothelial cell of vascular tree
Ovarian surface epithelial cell
Adipocyte
Macrophage
Oviduct secretory cell
Oocyte
Late luteal cell
Atretic granulosa cell
Early luteal cell
Theca cell
Ovarian fibroblast
Mural granulosa cell
Tissue
Ovary
Developmental stage
9-month-old stage
Disease
Normal
Sex
Female
Technology
Slide-seqv2
Suspension type
CELLxGENE
2,346 cells
•
Andrews et al., 2021
Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+4
Natural killer cell
Caudate lobe of liver
Caudate lobe of liver
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Natural killer cell
Gamma-delta t cell
Alpha-beta t cell
Mature b cell
Plasma cell
Tissue
Caudate lobe of liver
Developmental stage
Prime adult stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
github.com
GSE185477
explore.data.humancellatlas.org
protocols.io
macparlandlab.shinyapps.io
CELLxGENE
2,303 cells
•
Wiedemann et al., 2023
Differential cell composition and split epidermal differentiation in human palm, sole, and hip skin
Explore
h5ad
Homo sapiens
Homo sapiens
Skin fibroblast
Skin fibroblast
Skin of body
+1
Skin of body
65-year-old stage
+3
65-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Skin fibroblast
Tissue
Skin of body
Dermis
Developmental stage
65-year-old stage
39-year-old stage
56-year-old stage
40-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
skingenes.org
GSE202352
explore.data.humancellatlas.org
CELLxGENE
2,276 cells
•
Klughammer et al., 2024
A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+7
T cell
Breast
Breast
52-year-old stage
52-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Endothelial cell
Mature nk t cell
Mast cell
Macrophage
Plasma cell
Malignant cell
Fibroblast
Tissue
Breast
Developmental stage
52-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
humantumoratlas.org
phs002371
CELLxGENE
2,223 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
T cell
+6
T cell
Brown adipose tissue
Brown adipose tissue
3-month-old stage
+2
3-month-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
T cell
Natural killer cell
Endothelial cell
Epithelial cell
Myeloid cell
Mesenchymal stem cell of adipose tissue
B cell
Tissue
Brown adipose tissue
Developmental stage
3-month-old stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GSE132042
Processed files
Tabula Muris Senis
SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries V.1
github.com
CELLxGENE
2,199 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+10
Natural killer cell
Hindgut
+2
Hindgut
19th week post-fertilization stage
+11
19th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Mast cell
Leukocyte
Plasmacytoid dendritic cell
Precursor b cell
Group 3 innate lymphoid cell
Macrophage
B cell
Naive t cell
Monocyte
Dendritic cell
Tissue
Hindgut
Ileum
Colon
Developmental stage
19th week post-fertilization stage
21st week post-fertilization stage
23rd week post-fertilization stage
13th week post-fertilization stage
14th week post-fertilization stage
20th week post-fertilization stage
17th week post-fertilization stage
16th week post-fertilization stage
10th week post-fertilization stage
18th week post-fertilization stage
Carnegie stage 22
11th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE158328
simmonslab.shinyapps.io
Supplementary data
dropbox.com
GSE158702
explore.data.humancellatlas.org
Single Cell Portal
2,151 cells
Explore
Mus musculus
Mus musculus
Obsolete inhibitory neuron
+3
Obsolete inhibitory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete inhibitory neuron
Oligodendrocyte
Brain microvascular endothelial cell
Astrocyte
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD711) (section 121)
Corresponding registered brain section (MD711) (section 122)
Corresponding registered brain section (MD711) (section 123)
Corresponding registered brain section (MD711) (section 124)
Corresponding registered brain section (MD711) (section 125)
Corresponding registered brain section (MD711) (section 126)
CELLxGENE
2,126 cells
•
Muraro et al., 2016
A Single-Cell Transcriptome Atlas of the Human Pancreas
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+9
Endothelial cell
Pancreas
Pancreas
54-year-old stage
+3
54-year-old stage
Normal
Normal
Female
+1
Female
Cel-seq2
Cel-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell
Pancreatic acinar cell
Pancreatic pp cell
Pancreatic endocrine cell
Pancreatic a cell
Pancreatic d cell
Type b pancreatic cell
Mesenchymal cell
Pancreatic epsilon cell
Pancreatic ductal cell
Tissue
Pancreas
Developmental stage
54-year-old stage
48-year-old stage
23-year-old stage
59-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Cel-seq2
Suspension type
Cell
Related Links
ncbi.nlm.nih.gov
hubrecht.eu
explore.data.humancellatlas.org
CELLxGENE
2,113 cells
•
Henry et al., 2018
A Cellular Anatomy of the Normal Adult Human Prostate and Prostatic Urethra
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast of connective tissue of prostate
+1
Fibroblast of connective tissue of prostate
Transition zone of prostate
+1
Transition zone of prostate
29-year-old stage
+1
29-year-old stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast of connective tissue of prostate
Smooth muscle cell of prostate
Tissue
Transition zone of prostate
Peripheral zone of prostate
Developmental stage
29-year-old stage
31-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
www.gudmap.org
cells.ucsc.edu
ncbi.nlm.nih.gov
strandlab.net
git.biohpc.swmed.edu
explore.data.humancellatlas.org
ncbi.nlm.nih.gov
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