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Cell
871
Nucleus
653
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Asap
43
Bgee
40
Cellxgene
2,045
Single cell portal
176
Sort
Most cells
Fewest cells
2304
datasets
CELLxGENE
123,236 cells
•
Mossi Albiach et al., 2023
Futile wound healing drives mesenchymal-like cell phenotypes in human glioblastoma
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+12
Fibroblast
Right temporal lobe
Right temporal lobe
63-year-old stage
63-year-old stage
Glioblastoma
Glioblastoma
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Neoplastic cell
Vascular associated smooth muscle cell
Myeloid leukocyte
Pericyte
Lymphocyte
Macrophage
Monocyte
Microglial cell
Endothelial cell
Tissue
Right temporal lobe
Developmental stage
63-year-old stage
Disease
Glioblastoma
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
CELLxGENE
123,161 cells
•
Braun et al., 2023
Comprehensive cell atlas of the first-trimester developing human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Neuroblast (sensu vertebrata)
+5
Neuroblast (sensu vertebrata)
Medulla oblongata
Medulla oblongata
Carnegie stage 20
+4
Carnegie stage 20
Normal
Normal
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neuroblast (sensu vertebrata)
Neuroblast (sensu nematoda and protostomia)
Glioblast
Oligodendrocyte
Radial glial cell
Neuron
Tissue
Medulla oblongata
Developmental stage
Carnegie stage 20
Carnegie stage 18
14th week post-fertilization stage
10th week post-fertilization stage
9th week post-fertilization stage
Disease
Normal
Sex
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
Github:linnarsson-lab/developing-human-brain?tab=readme-ov-file
EGA dataset:EGAD00001006049
CELLxGENE
123,154 cells
•
Niethamer et al., 2025
Longitudinal single-cell profiles of lung regeneration after viral infection reveal persistent injury-associated cell states
Explore
h5ad
Mus musculus
Mus musculus
Secretory cell
+26
Secretory cell
Middle lobe of right lung
Middle lobe of right lung
12-week-old stage
+9
12-week-old stage
Influenza
+1
Influenza
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Secretory cell
Alveolar type 1 fibroblast cell
Mesothelial cell of pleura
Pulmonary alveolar epithelial cell
Vein endothelial cell
Alveolar macrophage
Neutrophil
Adventitial fibroblast
Plasma cell
B cell
Vascular associated smooth muscle cell
Fibroblast of lung
Alveolar capillary type 2 endothelial cell
Mature conventional dendritic cell
Alveolar capillary type 1 endothelial cell
Non-classical monocyte
Pulmonary alveolar type 2 cell
Alveolar adventitial fibroblast
Pulmonary alveolar type 1 cell
Natural killer cell
Conventional dendritic cell
Ciliated cell
Lung interstitial macrophage
Classical monocyte
T cell
Endothelial cell of respiratory system lymphatic vessel
Endothelial cell of artery
Tissue
Middle lobe of right lung
Developmental stage
12-week-old stage
11-week-old stage
6-week-old stage
7-week-old stage
5-month-old stage
9-week-old stage
10-week-old stage
4-month-old stage
3-month-old stage
14-month-old stage
Disease
Influenza
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
ncbi.nlm.nih.gov
morriseylunglab.org
Github:jdplaner/flu_lineage_trace
CELLxGENE
122,641 cells
•
Yao et al., 2021
A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex
Explore
h5ad
Mus musculus
Mus musculus
Astrocyte
+6
Astrocyte
Primary motor cortex
Primary motor cortex
Prime adult stage
Prime adult stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Astrocyte
Gabaergic neuron
Oligodendrocyte precursor cell
Oligodendrocyte
Glutamatergic neuron
Macrophage
Endothelial cell
Tissue
Primary motor cortex
Developmental stage
Prime adult stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
DOI:10.17504/protocols.io.pjvdkn6
DOI:10.17504/protocols.io.bcbrism6
NeMo archive:dat-ch1nqb7
CELLxGENE
121,916 cells
•
Xu et al., 2023
Automatic cell-type harmonization and integration across Human Cell Atlas datasets
Explore
h5ad
Homo sapiens
Homo sapiens
Pancreatic d cell
+8
Pancreatic d cell
Islet of langerhans
+1
Islet of langerhans
54-year-old stage
+14
54-year-old stage
Normal
Normal
Female
+1
Female
Cel-seq2
+2
Cel-seq2
Cell
+1
Cell
Organism
Homo sapiens
Cell type
Pancreatic d cell
Pancreatic pp cell
Pancreatic ductal cell
Pancreatic a cell
Pancreatic acinar cell
Macrophage
Type b pancreatic cell
Pancreatic stellate cell
Endothelial cell
Tissue
Islet of langerhans
Pancreas
Developmental stage
54-year-old stage
35-year-old stage
39-year-old stage
74-year-old stage
53-year-old stage
61-year-old stage
48-year-old stage
59-year-old stage
30-year-old stage
23-year-old stage
22-year-old stage
77-year-old stage
63-year-old stage
46-year-old stage
24-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Cel-seq2
10x 3' v3
10x 3' v2
Suspension type
Cell
Nucleus
Related Links
ebi.ac.uk
EGA dataset:EGAD00001008575
celltypist.org
Github:ventolab/CVID
teichlab.org
Single Cell Portal
121,344 cells
Explore
Homo sapiens
Homo sapiens
Peripheral blood mononuclear cell
Peripheral blood mononuclear cell
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Homo sapiens
Cell type
Peripheral blood mononuclear cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
120,807 cells
•
Gittings et al., 2023
Cryptic exon detection and transcriptomic changes revealed in single-nuclei RNA sequencing of C9ORF72 patients spanning the ALS-FTD spectrum
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+5
Astrocyte
Occipital cortex
Occipital cortex
54-year-old stage
+14
54-year-old stage
Amyotrophic lateral sclerosis 26 with or without frontotemporal dementia
+2
Amyotrophic lateral sclerosis 26 with or without frontotemporal dementia
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Microglial cell
Neuron
Endothelial cell
Tissue
Occipital cortex
Developmental stage
54-year-old stage
73-year-old stage
72-year-old stage
61-year-old stage
70-year-old stage
59-year-old stage
58-year-old stage
50-year-old stage
51-year-old stage
68-year-old stage
66-year-old stage
56-year-old stage
43-year-old stage
71-year-old stage
47-year-old stage
Disease
Amyotrophic lateral sclerosis 26 with or without frontotemporal dementia
Amyotrophic lateral sclerosis
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
synapse.org:#!Synapse:syn45351388/wiki/622682
CELLxGENE
120,042 cells
•
Toth et al., 2022
Inflammatory blockade prevents injury to the developing pulmonary gas exchange surface in preterm primates
Explore
h5ad
Macaca mulatta
Macaca mulatta
Mucosal invariant t cell
+15
Mucosal invariant t cell
Lung
Lung
Late embryonic stage
Late embryonic stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Macaca mulatta
Cell type
Mucosal invariant t cell
Granulocyte
Smooth muscle cell
Dendritic cell
B cell
Fibroblast of lung
Myeloid leukocyte
Club cell
Pulmonary alveolar type 2 cell
Erythroid lineage cell
Pulmonary alveolar type 1 cell
Lung endothelial cell
Platelet
Mucosal type mast cell
T cell
Multiciliated epithelial cell of the bronchus
Tissue
Lung
Developmental stage
Late embryonic stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE178680
research.cchmc.org
bit.ly
bit.ly
GEO series:GSE169390
Single Cell Portal
119,845 cells
•
Chou et al., 2025
Zinc Finger Repressors mediate widespread <i>PRNP<i> lowering in the nonhuman primate brain and profoundly extend survival in prion disease mice
Explore
Mus musculus
Mus musculus
Fibroblast
+8
Fibroblast
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Fibroblast
Astrocyte
Cell
Oligodendrocyte precursor cell
Oligodendrocyte
Brain pericyte
Endothelial stalk cell
Microglial cell
Neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
118,925 cells
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
Fibroblast
Cranial nerve ii
+1
Cranial nerve ii
54-year-old stage
+46
54-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Tissue
Cranial nerve ii
Optic disc
Developmental stage
54-year-old stage
62-year-old stage
27-year-old stage
74-year-old stage
72-year-old stage
53-year-old stage
21-year-old stage
85-year-old stage
81-year-old stage
61-year-old stage
Newborn stage (0-28 days)
82-year-old stage
42-year-old stage
17-year-old stage
52-year-old stage
70-year-old stage
45-year-old stage
3-year-old stage
30-year-old stage
10-year-old stage
58-year-old stage
75-year-old stage
90 year-old and over stage
15-year-old stage
18-year-old stage
50-year-old stage
64-year-old stage
68-year-old stage
77-year-old stage
11-year-old stage
33-year-old stage
69-year-old stage
32-year-old stage
76-year-old stage
63-year-old stage
60-year-old stage
25-year-old stage
56-year-old stage
37-year-old stage
46-year-old stage
67-year-old stage
43-year-old stage
65-year-old stage
71-year-old stage
34-year-old stage
16-year-old stage
47-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
celltype.info
CELLxGENE
118,672 cells
•
Garcia-Alonso et al., 2021
Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro
Explore
h5ad
Homo sapiens
Homo sapiens
Cell in vitro
Cell in vitro
Endometrium
Endometrium
28-year-old stage
+1
28-year-old stage
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Cell in vitro
Tissue
Endometrium
Developmental stage
28-year-old stage
Young adult stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
reproductivecellatlas.org
ArrayExpress BioStudies:E-MTAB-10287
ArrayExpress BioStudies:E-MTAB-9260
ArrayExpress BioStudies:E-MTAB-10283
EGA dataset:EGAD00001007909
HumanCellAtlas:2b38025d-a5ea-4c0f-b22e-367824bcaf4c
CELLxGENE
118,647 cells
•
Smith et al., 2021
Early role for a Na <sup>+</sup> ,K <sup>+</sup> -ATPase ( <i>ATP1A3<i> ) in brain development
Explore
h5ad
Homo sapiens
Homo sapiens
Neural progenitor cell
+3
Neural progenitor cell
Primary visual cortex
+6
Primary visual cortex
22nd week post-fertilization stage
22nd week post-fertilization stage
Normal
Normal
Drop-seq
Drop-seq
Cell
Cell
Organism
Homo sapiens
Cell type
Neural progenitor cell
Gabaergic neuron
Glial cell
Glutamatergic neuron
Tissue
Primary visual cortex
Caudal ganglionic eminence
Parietal lobe
Hippocampal formation
Anterior cingulate cortex
Orbitofrontal cortex
Medial ganglionic eminence
Developmental stage
22nd week post-fertilization stage
Disease
Normal
Sex
Technology
Drop-seq
Suspension type
Cell
Related Links
dbGaP Study:phs001272
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