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Disease
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Technology
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Cell
896
Nucleus
659
Data Source
0
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
Single Cell Portal
7,626 cells
Explore
Mus musculus
Mus musculus
Obsolete inhibitory neuron
+5
Obsolete inhibitory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete inhibitory neuron
Oligodendrocyte precursor cell
Microglial cell
Brain microvascular endothelial cell
Obsolete excitatory neuron
Astrocyte
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD716) (section 229)
Corresponding registered brain section (MD716) (section 230)
Corresponding registered brain section (MD716) (section 231)
Corresponding registered brain section (MD716) (section 232)
Corresponding registered brain section (MD716) (section 233)
Corresponding registered brain section (MD716) (section 234)
CELLxGENE
7,622 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
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
CELLxGENE
7,618 cells
•
Nascimento et al., 2023
Protracted neuronal recruitment in the temporal lobes of young children
Explore
h5ad
Homo sapiens
Homo sapiens
Glutamatergic neuron
+9
Glutamatergic neuron
Entorhinal cortex
Entorhinal cortex
Newborn stage (0-28 days)
Newborn stage (0-28 days)
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Glutamatergic neuron
Oligodendrocyte precursor cell
Oligodendrocyte
Leukocyte
Brain vascular cell
Ependymal cell
Microglial cell
Gabaergic interneuron
Radial glial cell
Astrocyte
Tissue
Entorhinal cortex
Developmental stage
Newborn stage (0-28 days)
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
dbGaP Study:phs003509
GEO series:GSE199762
CELLxGENE
7,594 cells
•
Gupta et al., 2023
Mapping the transcriptional landscape of human white and brown adipogenesis using single-nuclei RNA-seq
Explore
h5ad
Homo sapiens
Homo sapiens
Brown adipocyte
+1
Brown adipocyte
Brown preadipocyte
Brown preadipocyte
56-year-old stage
56-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Brown adipocyte
Brown preadipocyte
Tissue
Brown preadipocyte
Developmental stage
56-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
link.springer.com
dbGaP Study:phs002461
Github:streetslab/Adipogenesis_time_course
CELLxGENE
7,589 cells
•
Duran et al., 2025
A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments
Explore
h5ad
Danio rerio
Danio rerio
Enteric neuron
+4
Enteric neuron
Enteric ganglion
+1
Enteric ganglion
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Enteric neuron
Premigratory neural crest cell
Schwann cell
Neural crest cell
Migratory neural crest cell
Tissue
Enteric ganglion
Neural crest
Developmental stage
Pharyngula:prim-15
Hatching:long-pec
Larval:protruding-mouth
Pharyngula:prim-25
Segmentation:26+ somites
Segmentation:14-19 somites
Hatching:pec-fin
Segmentation:20-25 somites
Pharyngula:high-pec
Pharyngula:prim-5
Disease
Normal
Sex
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
cole-trapnelllab.github.io
DOI:10.1038/s41586-023-06720-2
GEO series:GSE295164
CELLxGENE
7,578 cells
•
Duran et al., 2025
A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments
Explore
h5ad
Danio rerio
Danio rerio
Ectodermal cell
+2
Ectodermal cell
Lens of camera-type eye
+1
Lens of camera-type eye
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Ectodermal cell
Lens epithelial cell
Lens fiber cell
Tissue
Lens of camera-type eye
Lens vesicle
Developmental stage
Pharyngula:prim-15
Hatching:long-pec
Larval:protruding-mouth
Pharyngula:prim-25
Segmentation:26+ somites
Segmentation:14-19 somites
Hatching:pec-fin
Segmentation:20-25 somites
Pharyngula:high-pec
Pharyngula:prim-5
Disease
Normal
Sex
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
GEO series:GSE295164
cole-trapnelllab.github.io
DOI:10.1038/s41586-023-06720-2
CELLxGENE
7,571 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
28-year-old stage
28-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
28-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE260685
Bgee
7,517 cells
•
Cattenoz et al., 2020
Temporal specificity and heterogeneity of <i>Drosophila<i> immune cells
Explore
scRNA-Seq droplet-based processed expression values per cell population in Drosophila melanogaster (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Drosophila melanogaster (h5ad)
Drosophila melanogaster
Drosophila melanogaster
Lamellocyte
+2
Lamellocyte
Embryonic/larval hemolymph
Embryonic/larval hemolymph
Wandering third instar larval stage
Wandering third instar larval stage
Normal
Normal
Female
Female
10x genomics v2
10x genomics v2
Organism
Drosophila melanogaster
Cell type
Lamellocyte
Plasmatocyte
Embryonic/larval crystal cell
Tissue
Embryonic/larval hemolymph
Developmental stage
Wandering third instar larval stage
Disease
Normal
Sex
Female
Technology
10x genomics v2
Suspension type
Related Links
ncbi.nlm.nih.gov
CELLxGENE
7,513 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
Stromal cell
+14
Stromal cell
Testis
Testis
60-year-old stage
60-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Stromal cell
Tissue-resident macrophage
Endothelial cell
Mast cell
Cd8-positive, alpha-beta t cell
Macrophage
Peritubular myoid cell
Spermatid
Cd4-positive, alpha-beta t cell
Spermatocyte
B cell
Male germ cell
Monocyte
Leydig cell
Spermatogonium
Tissue
Testis
Developmental stage
60-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
AWS Open Data:tabula-sapiens
CZ BioHub Portal:tabula-sapiens-portal
HumanCellAtlas:10201832-7c73-4033-9b65-3ef13d81656a
UCSC Cell Browser:tabula-sapiens
DOI:10.1101/2024.12.03.626516
UCSC Genome Browser:hgTrackUi?hgsid=1437536541_FfasmBrAlAiA7oFphu1csVv0KHgc&db=hg38&c=chrX&g=tabulaSapiens
CELLxGENE
7,506 cells
•
Leng et al., 2021
Molecular characterization of selectively vulnerable neurons in Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Gabaergic neuron
Gabaergic neuron
Superior frontal gyrus
Superior frontal gyrus
87-year-old stage
+7
87-year-old stage
Normal
+1
Normal
Male
Male
10x 3' v2
10x 3' v2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Gabaergic neuron
Tissue
Superior frontal gyrus
Developmental stage
87-year-old stage
71-year-old stage
82-year-old stage
50-year-old stage
72-year-old stage
80 year-old and over stage
77-year-old stage
60-year-old stage
Disease
Normal
Alzheimer disease
Sex
Male
Technology
10x 3' v2
Suspension type
Nucleus
Related Links
GEO series:GSE147528
kampmannlab.ucsf.edu
synapse.org:#!Synapse:syn21788402/wiki/601825
HumanCellAtlas:7dcffc32-7c82-4396-9a4f-88b5579bfe8a
CELLxGENE
7,505 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
Liver
Liver
41-year-old stage
41-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Hepatocyte
Endothelial cell
Mature nk t cell
Macrophage
Malignant cell
Monocyte
Fibroblast
Tissue
Liver
Developmental stage
41-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
humantumoratlas.org
dbGaP Study:phs002371
CELLxGENE
7,417 cells
•
Gray et al., 2024
Human γδ T cells in diverse tissues exhibit site-specific maturation dynamics across the life span
Explore
h5ad
Homo sapiens
Homo sapiens
Gamma-delta t cell
Gamma-delta t cell
Lung
+4
Lung
75-year-old stage
+22
75-year-old stage
Normal
Normal
Female
+1
Female
10x 5' v2
+1
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Gamma-delta t cell
Tissue
Lung
Thoracic lymph node
Jejunum
Spleen
Mesenteric lymph node
Developmental stage
75-year-old stage
21-year-old stage
Sixth decade stage
52-year-old stage
54-year-old stage
68-year-old stage
48-year-old stage
44-year-old stage
38-year-old stage
56-year-old stage
50-year-old stage
Third decade stage
74-year-old stage
23-year-old stage
25-year-old stage
67-year-old stage
33-year-old stage
64-year-old stage
41-year-old stage
19-year-old stage
20-year-old stage
73-year-old stage
27-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE240858
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