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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
Sort
Most cells
Fewest cells
2515
datasets
CELLxGENE
1,641 cells
•
He et al., 2022
A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates
Explore
h5ad
Homo sapiens
Homo sapiens
Lung multiciliated epithelial cell
Lung multiciliated epithelial cell
Lung
Lung
15th week post-fertilization stage
+4
15th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 5' v1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Lung multiciliated epithelial cell
Tissue
Lung
Developmental stage
15th week post-fertilization stage
20th week post-fertilization stage
18th week post-fertilization stage
22nd week post-fertilization stage
11th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
Suspension type
Cell
Related Links
scRNA / GEX / VDJ (E-MTAB-11278)
Organoid (E-MTAB-11267)
Visium (E-MTAB-11265)
ATAC-seq (E-MTAB-11266)
fetal-lung.cellgeni.sanger.ac.uk
genome.ucsc.edu
github.com
CELLxGENE
1,635 cells
•
Orozco et al., 2020
Integration of eQTL and a Single-Cell Atlas in the Human Eye Identifies Causal Genes for Age-Related Macular Degeneration
Explore
h5ad
Homo sapiens
Homo sapiens
Retinal pigment epithelial cell
Retinal pigment epithelial cell
Retina
Retina
65-year-old stage
+3
65-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Retinal pigment epithelial cell
Tissue
Retina
Developmental stage
65-year-old stage
77-year-old stage
70-year-old stage
79-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GSE135133
singlecell.broadinstitute.org
explore.data.humancellatlas.org
CELLxGENE
1,621 cells
•
Pan et al., 2024
Deciphering glial contributions to CSF1R-related disorder via single-nuclear transcriptomic profiling: a case study
Explore
h5ad
Homo sapiens
Homo sapiens
Microglial cell
Microglial cell
Prefrontal cortex
+4
Prefrontal cortex
53-year-old stage
+7
53-year-old stage
Normal
+2
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Microglial cell
Tissue
Prefrontal cortex
White matter of temporal lobe
White matter of frontal lobe
White matter of occipital lobe
White matter of parietal lobe
Developmental stage
53-year-old stage
68-year-old stage
82-year-old stage
72-year-old stage
81-year-old stage
70-year-old stage
76-year-old stage
83-year-old stage
Disease
Normal
Alzheimer disease
Leukoencephalopathy, diffuse hereditary, with spheroids 1
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GSE267301
CELLxGENE
1,562 cells
•
Anderson-Crannage et al., 2023
Inflammation-mediated fibroblast activation and immune dysregulation in collagen VII-deficient skin
Explore
h5ad
Mus musculus
Mus musculus
Neutrophil
+3
Neutrophil
Autopod skin
Autopod skin
2-week-old stage
2-week-old stage
Epidermolysis bullosa
+1
Epidermolysis bullosa
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Neutrophil
Mast cell
Innate lymphoid cell
Professional antigen presenting cell
Tissue
Autopod skin
Developmental stage
2-week-old stage
Disease
Epidermolysis bullosa
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE222250
CELLxGENE
1,560 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Neutrophil
+8
Neutrophil
Colon
Colon
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
Cd8-positive, alpha-beta t cell
Myeloid cell
Intestinal enteroendocrine cell
Mesothelial cell
Large intestine goblet cell
Enterocyte of epithelium of large intestine
Epithelial cell of large intestine
Fibroblast
Tissue
Colon
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
1,560 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
1,496 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Sst gabaergic interneuron
Sst gabaergic interneuron
Middle temporal gyrus
Middle temporal gyrus
69-year-old stage
+23
69-year-old stage
Normal
+1
Normal
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Sst gabaergic interneuron
Tissue
Middle temporal gyrus
Developmental stage
69-year-old stage
75-year-old stage
65-year-old stage
89-year-old stage
43-year-old stage
87-year-old stage
85-year-old stage
88-year-old stage
68-year-old stage
29-year-old stage
84-year-old stage
82-year-old stage
50-year-old stage
80-year-old stage
72-year-old stage
81-year-old stage
80 year-old and over stage
Adult stage
77-year-old stage
86-year-old stage
70-year-old stage
60-year-old stage
78-year-old stage
83-year-old stage
Disease
Normal
Dementia
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
UW Alzheimer's Disease Research Center
Adult Changes in Thought Study
UW BioRepository and Integrated Neuropathology
SEA-AD Homepage
AD Knowledge Portal
DOWNLOAD OFFICIAL DATASET
Single Cell Portal
1,486 cells
Explore
Mus musculus
Mus musculus
Obsolete inhibitory neuron
+3
Obsolete inhibitory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete inhibitory neuron
Oligodendrocyte precursor cell
Astrocyte of the cerebellum
Obsolete excitatory neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD704) (section 107)
CELLxGENE
1,465 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Caudal ganglionic eminence derived interneuron
Caudal ganglionic eminence derived interneuron
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Caudal ganglionic eminence derived interneuron
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
1,417 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
Hepatic stellate cell
+2
Hepatic stellate 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
Hepatic stellate cell
Vein endothelial cell
Vascular associated smooth muscle cell
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
1,387 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
Pancreatic endocrine cell
+3
Pancreatic endocrine cell
Endocrine pancreas
Endocrine pancreas
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Pancreatic endocrine cell
Pancreatic a cell
Pancreatic d cell
Type b pancreatic cell
Tissue
Endocrine pancreas
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
1,378 cells
•
Orozco et al., 2020
Integration of eQTL and a Single-Cell Atlas in the Human Eye Identifies Causal Genes for Age-Related Macular Degeneration
Explore
h5ad
Homo sapiens
Homo sapiens
S cone cell
+1
S cone cell
Retina
Retina
65-year-old stage
+3
65-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
S cone cell
Retinal cone cell
Tissue
Retina
Developmental stage
65-year-old stage
77-year-old stage
70-year-old stage
79-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GSE135133
singlecell.broadinstitute.org
explore.data.humancellatlas.org
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