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Disease
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Technology
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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
Sort
Most cells
Fewest cells
2515
datasets
Bgee
7,631 cells
•
Murat et al., 2022
The molecular evolution of spermatogenesis across mammals
Explore
scRNA-Seq droplet-based processed expression values per cell population in Macaca mulatta (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Macaca mulatta (h5ad)
Macaca mulatta
Macaca mulatta
Cell
+7
Cell
Testis
Testis
Normal
Normal
Male
Male
10x genomics v2
10x genomics v2
Organism
Macaca mulatta
Cell type
Cell
Early spermatid
Sertoli cell
Late spermatid
Male germ line stem cell
Obsolete somatic cell
Spermatocyte
Spermatogonium
Tissue
Testis
Developmental stage
Disease
Normal
Sex
Male
Technology
10x genomics v2
Suspension type
Related Links
ebi.ac.uk
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
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
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
GSE199762
phs003509
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
phs002461
github.com
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
GSE295164
Processed Data
Saunders el al. (2023) Nature
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
GSE295164
Processed Data
Saunders el al. (2023) Nature
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
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
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
7,506 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
GSE147528
kampmannlab.ucsf.edu
Synapse
explore.data.humancellatlas.org
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
phs002371
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