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Technology
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Cell
934
Nucleus
679
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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
7,294 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Endothelial cell of hepatic sinusoid
+8
Endothelial cell of hepatic sinusoid
Liver
Liver
4-week-old stage
+3
4-week-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Endothelial cell of hepatic sinusoid
Hepatocyte
Natural killer cell
Kupffer cell
Plasmacytoid dendritic cell
Hepatic stellate cell
Duct epithelial cell
B cell
Myeloid leukocyte
Tissue
Liver
Developmental stage
4-week-old stage
3-month-old stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
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
7,288 cells
•
Jones et al., 2024
Cellular atlas of the human ovary using morphologically guided spatial transcriptomics and single-cell sequencing
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+3
Endothelial cell
Ovary
Ovary
37-year-old stage
37-year-old stage
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell
Stromal cell of ovary
Leukocyte
Pericyte
Tissue
Ovary
Developmental stage
37-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE260685
CELLxGENE
7,276 cells
•
The Tabula Sapiens Consortium* et al., 2022
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
Explore
h5ad
Homo sapiens
Homo sapiens
Spermatid
+4
Spermatid
Testis
+3
Testis
26-year-old stage
+1
26-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Spermatid
Oocyte
Spermatocyte
Male germ cell
Spermatogonium
Tissue
Testis
Left ovary
Ovary
Right ovary
Developmental stage
26-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
10x 3' v3
Suspension type
Cell
Related Links
registry.opendata.aws
Tabula Sapiens Portal
explore.data.humancellatlas.org
cells.ucsc.edu
genome.ucsc.edu
The Tabula Sapiens Consortium et al. (2024) bioRxiv
CELLxGENE
7,274 cells
•
Jin et al., 2021
An interactive single cell web portal identifies gene and cell networks in COVID-19 host responses
Explore
h5ad
Homo sapiens
Homo sapiens
Platelet
Platelet
Blood
Blood
75-year-old stage
+31
75-year-old stage
Covid-19
+1
Covid-19
Female
+1
Female
Seq-well
+2
Seq-well
Cell
Cell
Organism
Homo sapiens
Cell type
Platelet
Tissue
Blood
Developmental stage
75-year-old stage
Sixth decade stage
53-year-old stage
61-year-old stage
54-year-old stage
68-year-old stage
48-year-old stage
39-year-old stage
29-year-old stage
38-year-old stage
Fifth decade stage
84-year-old stage
82-year-old stage
Third decade stage
80 year-old and over stage
49-year-old stage
Seventh decade stage
59-year-old stage
Adult stage
67-year-old stage
62-year-old stage
70-year-old stage
46-year-old stage
60-year-old stage
78-year-old stage
36-year-old stage
Fourth decade stage
63-year-old stage
Eighth decade stage
47-year-old stage
73-year-old stage
27-year-old stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
Seq-well
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
cincinnatichildrens.org
ToppCell: COVID-19 Atlas
CELLxGENE
7,249 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
T cell
+16
T cell
Brain
Brain
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
Neural stem cell
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Mature nk t cell
Cd8-positive, alpha-beta t cell
Brain pericyte
Ependymal cell
Macrophage
Microglial cell
Interneuron
Bergmann glial cell
Neuron
Neuroepithelial stem cell
Astrocyte
Medium spiny neuron
Tissue
Brain
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
7,244 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Neutrophil
+25
Neutrophil
Urinary bladder
Urinary bladder
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Microcebus murinus
Cell type
Neutrophil
Bladder urothelial cell
Endothelial cell of lymphatic vessel
Non-myelinating schwann cell
Endothelial cell of artery
Capillary endothelial cell
Smooth muscle cell
Plasmacytoid dendritic cell
Lymphocyte
Adipocyte
Macrophage
Innate lymphoid cell
Plasma cell
Cd4-positive, alpha-beta t cell
Vein endothelial cell
Mesothelial cell
B cell
Pericyte
Monocyte
Vascular associated smooth muscle cell
Myofibroblast cell
Basophil
Conventional dendritic cell
Fibroblast
Myelinating schwann cell
Dendritic cell
Tissue
Urinary bladder
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
10x 3' v2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
cells.ucsc.edu
Globus
ASAP
v8
7,244 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Organism
Microcebus murinus
Cell type
Tissue
Developmental stage
Disease
Sex
Technology
Suspension type
CELLxGENE
7,233 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
+14
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
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
7,176 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
+13
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
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal 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
Single Cell Portal
7,175 cells
Explore
Mus musculus
Mus musculus
Ependymal cell
+1
Ependymal cell
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Ependymal cell
Obsolete excitatory neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD736) (section 280)
Corresponding registered brain section (MD736) (section 281)
Corresponding registered brain section (MD736) (section 283)
CELLxGENE
7,165 cells
•
Serizay et al., 2025
Cyclin switch tailors a cell cycle variant to orchestrate multiciliogenesis
Explore
h5ad
Mus musculus
Mus musculus
Microglial cell
+5
Microglial cell
Multiciliated ependymal cell
Multiciliated ependymal cell
Theiler stage 27
Theiler stage 27
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Microglial cell
Neural crest derived fibroblast
Deuterosomal cell
Neuroblast (sensu vertebrata)
Radial glial cell
Neuron associated cell
Tissue
Multiciliated ependymal cell
Developmental stage
Theiler stage 27
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
Damaa et al. (2025) Cell Reports
GSE201773
zenodo.org
CELLxGENE
7,156 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Corticothalamic-projecting glutamatergic cortical neuron
Corticothalamic-projecting glutamatergic cortical neuron
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Corticothalamic-projecting glutamatergic cortical neuron
Tissue
Neocortex
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Allen Brain Map
Reference middle temporal gyrus taxonomy
Allen Brain Map Patch-seq
assets.nemoarchive.org
github.com
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