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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
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Most cells
Fewest cells
2515
datasets
CELLxGENE
11,244 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte precursor cell
Oligodendrocyte precursor cell
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Oligodendrocyte precursor cell
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
CELLxGENE
11,243 cells
•
Calandrelli et al., 2020
Stress-induced RNA–chromatin interactions promote endothelial dysfunction
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of artery
Endothelial cell of artery
Mesenteric artery
Mesenteric artery
42-year-old stage
+3
42-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of artery
Tissue
Mesenteric artery
Developmental stage
42-year-old stage
28-year-old stage
59-year-old stage
46-year-old stage
Disease
Normal
Type 2 diabetes mellitus
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE135357
explore.data.humancellatlas.org
github.com
CELLxGENE
11,202 cells
•
Tran et al., 2021
Single-nucleus transcriptome analysis reveals cell-type-specific molecular signatures across reward circuitry in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+9
T cell
Dorsolateral prefrontal cortex
Dorsolateral prefrontal cortex
61-year-old stage
+2
61-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
T cell
Glutamatergic neuron
Oligodendrocyte precursor cell
Oligodendrocyte
Macrophage
Microglial cell
Gabaergic interneuron
Mural cell
Pvalb gabaergic interneuron
Astrocyte
Tissue
Dorsolateral prefrontal cortex
Developmental stage
61-year-old stage
54-year-old stage
51-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Globus
Github
CELLxGENE
11,193 cells
•
Article
Explore
h5ad
Mus musculus
Mus musculus
T cell
+22
T cell
Ovary
Ovary
12-month-old stage
12-month-old stage
Normal
Normal
Female
Female
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
T cell
Granulosa cell
Blood vessel endothelial cell
Stromal cell
Endothelial cell of lymphatic vessel
Cumulus granulosa cell
Mast cell
Smooth muscle cell
Steroidogenic stromal cell of ovary
Endothelial cell of vascular tree
Ovarian surface epithelial cell
Adipocyte
Macrophage
Oviduct secretory cell
Plasma cell
Oocyte
Late luteal cell
Atretic granulosa cell
Early luteal cell
Theca cell
Dendritic cell
Ovarian fibroblast
Mural granulosa cell
Tissue
Ovary
Developmental stage
12-month-old stage
Disease
Normal
Sex
Female
Technology
Slide-seqv2
Suspension type
CELLxGENE
11,177 cells
•
Moerkens et al., 2024
An iPSC-derived small intestine-on-chip with self-organizing epithelial, mesenchymal, and neural cells
Explore
h5ad
Homo sapiens
Homo sapiens
Paneth cell
+7
Paneth cell
Intestinal mucosa
Intestinal mucosa
26-year-old stage
+1
26-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Paneth cell
Enteroendocrine cell
Goblet cell
Enterocyte
Transit amplifying cell
Neuron
Mesenchymal stem cell
Myofibroblast cell
Tissue
Intestinal mucosa
Developmental stage
26-year-old stage
29-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
github.com
Single Cell Portal
11,161 cells
Explore
Mus musculus
Mus musculus
Obsolete inhibitory neuron
+4
Obsolete inhibitory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete inhibitory neuron
Oligodendrocyte
Astrocyte of the cerebellum
Brain microvascular endothelial cell
Obsolete excitatory neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD717) (section 40)
Corresponding registered brain section (MD717) (section 41)
Corresponding registered brain section (MD717) (section 42)
Corresponding registered brain section (MD717) (section 43)
Corresponding registered brain section (MD717) (section 44)
Corresponding registered brain section (MD717) (section 45)
CELLxGENE
11,152 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
T cell
+23
T cell
Spleen
Spleen
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
T cell
Neutrophil
Natural killer cell
Erythroid progenitor cell
Endothelial cell
Mature nk t cell
Hematopoietic precursor cell
Cd8-positive, alpha-beta t cell
Platelet
Erythroid lineage cell
Plasmacytoid dendritic cell
Lymphocyte
Macrophage
Myeloid cell
Plasma cell
Cd4-positive, alpha-beta t cell
Eosinophil
Mesothelial cell
B cell
Granulocyte monocyte progenitor cell
Monocyte
Basophil
Conventional dendritic cell
Dendritic cell
Tissue
Spleen
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
11,152 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
11,127 cells
•
Andrews et al., 2024
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Explore
h5ad
Homo sapiens
Homo sapiens
Kupffer cell
+5
Kupffer cell
Caudate lobe of liver
Caudate lobe of liver
Late adult stage
+2
Late adult stage
Normal
Normal
Female
+1
Female
10x 5' v1
+1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Kupffer cell
Classical monocyte
Liver dendritic cell
Macrophage
Myeloid cell
Monocyte
Tissue
Caudate lobe of liver
Developmental stage
Late adult stage
Prime adult stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
10x 3' v2
Suspension type
Cell
Related Links
MacParland et al. (2018) Nature
GSE240429
GSE115469
GSE243977
GSE247128
GSE245620
CELLxGENE
11,103 cells
•
Moerkens et al., 2024
An iPSC-derived small intestine-on-chip with self-organizing epithelial, mesenchymal, and neural cells
Explore
h5ad
Homo sapiens
Homo sapiens
Paneth cell
+7
Paneth cell
Intestinal mucosa
Intestinal mucosa
26-year-old stage
+1
26-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Paneth cell
Enteroendocrine cell
Goblet cell
Enterocyte
Transit amplifying cell
Neuron
Mesenchymal stem cell
Myofibroblast cell
Tissue
Intestinal mucosa
Developmental stage
26-year-old stage
29-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
github.com
CELLxGENE
11,094 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
Rohon-beard neuron
+1
Rohon-beard neuron
Trigeminal ganglion
+5
Trigeminal ganglion
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Rohon-beard neuron
Neuron
Tissue
Trigeminal ganglion
Epibranchial ganglion
Spinal cord
Vestibulocochlear ganglion
Cranial ganglion
Lateral line ganglion
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
11,074 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
Macrophage
+3
Macrophage
Liver
Liver
54-year-old stage
54-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Macrophage
Malignant cell
Monocyte
Fibroblast
Tissue
Liver
Developmental stage
54-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
humantumoratlas.org
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