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Cell
893
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
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Most cells
Fewest cells
2339
datasets
CELLxGENE
7,308 cells
•
Isola et al., 2024
A single-cell atlas of the aging mouse ovary
Explore
h5ad
Mus musculus
Mus musculus
Connective tissue cell
+5
Connective tissue cell
Ovary
Ovary
9-month-old stage
+1
9-month-old stage
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Connective tissue cell
Pericyte
Theca cell
Smooth muscle cell
Pre-theca cell
Granulosa cell
Tissue
Ovary
Developmental stage
9-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE232309
Github:StoutLab/OvarianAgingAtlas
omrf.shinyapps.io
CELLxGENE
7,299 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Notochordal cell
+15
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
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
Plasmacytoid dendritic cell
+8
Plasmacytoid dendritic cell
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
Plasmacytoid dendritic cell
Natural killer cell
Hepatocyte
Hepatic stellate cell
Endothelial cell of hepatic sinusoid
B cell
Kupffer cell
Duct epithelial cell
Myeloid leukocyte
Tissue
Liver
Developmental stage
4-week-old stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
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
Leukocyte
+3
Leukocyte
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
Leukocyte
Pericyte
Stromal cell of ovary
Endothelial cell
Tissue
Ovary
Developmental stage
37-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series: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
Oocyte
+4
Oocyte
Right ovary
+3
Right ovary
60-year-old stage
+1
60-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Oocyte
Male germ cell
Spermatocyte
Spermatogonium
Spermatid
Tissue
Right ovary
Left ovary
Testis
Ovary
Developmental stage
60-year-old stage
26-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
10x 3' v3
Suspension type
Cell
Related Links
AWS Open Data:tabula-sapiens
CZ BioHub Portal:tabula-sapiens-portal
UCSC Cell Browser:tabula-sapiens
DOI:10.1101/2024.12.03.626516
HumanCellAtlas:10201832-7c73-4033-9b65-3ef13d81656a
UCSC Genome Browser:hgTrackUi?hgsid=1437536541_FfasmBrAlAiA7oFphu1csVv0KHgc&db=hg38&c=chrX&g=tabulaSapiens
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
62-year-old stage
+31
62-year-old stage
Covid-19
+1
Covid-19
Female
+1
Female
10x 3' v2
+2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Platelet
Tissue
Blood
Developmental stage
62-year-old stage
38-year-old stage
54-year-old stage
49-year-old stage
Fourth decade stage
59-year-old stage
46-year-old stage
68-year-old stage
Seventh decade stage
82-year-old stage
Fifth decade stage
60-year-old stage
75-year-old stage
63-year-old stage
61-year-old stage
48-year-old stage
39-year-old stage
27-year-old stage
36-year-old stage
Adult stage
78-year-old stage
67-year-old stage
Sixth decade stage
80 year-old and over stage
47-year-old stage
Eighth decade stage
84-year-old stage
Third decade stage
53-year-old stage
29-year-old stage
73-year-old stage
70-year-old stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Seq-well
Suspension type
Cell
Related Links
cincinnatichildrens.org
toppcell.cchmc.org
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
Oligodendrocyte
+16
Oligodendrocyte
Brain
Brain
20-month-old stage and over
+2
20-month-old stage and over
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
Oligodendrocyte
Astrocyte
Bergmann glial cell
T cell
Microglial cell
Oligodendrocyte precursor cell
Brain pericyte
Neuron
Ependymal cell
Mature nk t cell
Macrophage
Cd8-positive, alpha-beta t cell
Endothelial cell
Medium spiny neuron
Interneuron
Neuroepithelial stem cell
Neural stem cell
Tissue
Brain
Developmental stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
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
Plasmacytoid dendritic cell
+25
Plasmacytoid dendritic cell
Urinary bladder
Urinary bladder
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Microcebus murinus
Cell type
Plasmacytoid dendritic cell
Dendritic cell
Bladder urothelial cell
Innate lymphoid cell
B cell
Endothelial cell of artery
Pericyte
Conventional dendritic cell
Endothelial cell of lymphatic vessel
Neutrophil
Lymphocyte
Non-myelinating schwann cell
Monocyte
Smooth muscle cell
Cd4-positive, alpha-beta t cell
Myofibroblast cell
Macrophage
Myelinating schwann cell
Vascular associated smooth muscle cell
Adipocyte
Capillary endothelial cell
Basophil
Vein endothelial cell
Fibroblast
Plasma cell
Mesothelial cell
Tissue
Urinary bladder
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Smart-seq2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
app.globus.org
UCSC Cell Browser:tabula-microcebus
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
Notochordal cell
+14
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
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
Notochordal cell
+13
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
Single Cell Portal
7,175 cells
Explore
Mus musculus
Mus musculus
Obsolete excitatory neuron
+1
Obsolete excitatory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete excitatory neuron
Ependymal cell
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
Neuron associated cell
+5
Neuron associated 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
Neuron associated cell
Neuroblast (sensu vertebrata)
Microglial cell
Neural crest derived fibroblast
Deuterosomal cell
Radial glial cell
Tissue
Multiciliated ependymal cell
Developmental stage
Theiler stage 27
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
DOI:10.1016/j.celrep.2024.115117
GEO series:GSE201773
DOI:10.5281/zenodo.14105247
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