Home
Data
Contribute
Stats
Resources
Metadata schema
Tools
Community
About
Contact us
Organism
0
Clear
Cell Type
0
Clear
Tissue
0
Clear
Developmental Stage
0
Clear
Disease
0
Clear
Sex
0
Clear
Technology
0
Clear
Suspension Type
0
Clear
Cell
934
Nucleus
679
Data Source
0
Clear
ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
Sort
Most cells
Fewest cells
2515
datasets
CELLxGENE
66,985 cells
•
Heimlich et al., 2024
Multiomic profiling of human clonal hematopoiesis reveals genotype and cell-specific inflammatory pathway activation
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Blood
Blood
91-year-old stage
+20
91-year-old stage
Clonal hematopoiesis
+1
Clonal hematopoiesis
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cd8-positive, alpha-beta t cell
Platelet
Erythroid lineage cell
Cd16-positive, cd56-dim natural killer cell, human
Cd4-positive, alpha-beta t cell
Cd14-positive monocyte
B cell
Dendritic cell
Tissue
Blood
Developmental stage
91-year-old stage
65-year-old stage
89-year-old stage
71-year-old stage
85-year-old stage
61-year-old stage
68-year-old stage
48-year-old stage
39-year-old stage
50-year-old stage
80-year-old stage
81-year-old stage
74-year-old stage
58-year-old stage
67-year-old stage
77-year-old stage
70-year-old stage
60-year-old stage
78-year-old stage
73-year-old stage
83-year-old stage
Disease
Clonal hematopoiesis
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
osf.io
github.com
CELLxGENE
66,719 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
Oligodendrocyte precursor cell
+5
Oligodendrocyte precursor cell
Occipital cortex
Occipital cortex
66-year-old stage
+13
66-year-old stage
Frontotemporal dementia
+1
Frontotemporal dementia
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Microglial cell
Neuron
Astrocyte
Tissue
Occipital cortex
Developmental stage
66-year-old stage
65-year-old stage
88-year-old stage
68-year-old stage
84-year-old stage
74-year-old stage
58-year-old stage
67-year-old stage
62-year-old stage
70-year-old stage
63-year-old stage
73-year-old stage
83-year-old stage
96-year-old stage
Disease
Frontotemporal dementia
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Synapse
CELLxGENE
66,613 cells
•
Xu et al., 2023
Automatic cell-type harmonization and integration across Human Cell Atlas datasets
Explore
h5ad
Homo sapiens
Homo sapiens
Central memory cd4-positive, alpha-beta t cell
+37
Central memory cd4-positive, alpha-beta t cell
Bone marrow
Bone marrow
42-year-old stage
+9
42-year-old stage
Normal
Normal
Female
+1
Female
10x 5' v2
+4
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Central memory cd4-positive, alpha-beta t cell
Neutrophil
Erythrocyte
Small pre-b-ii cell
Gamma-delta t cell
Mature nk t cell
Pro-b cell
Mast cell
Effector memory cd4-positive, alpha-beta t cell
Erythroid lineage cell
Classical monocyte
Plasmacytoid dendritic cell, human
Plasmacytoid dendritic cell
Early lymphoid progenitor
Megakaryocyte progenitor cell
Common dendritic progenitor
Thymocyte
Effector memory cd8-positive, alpha-beta t cell, terminally differentiated
Memory b cell
Cd16-positive, cd56-dim natural killer cell, human
Regulatory t cell
Plasmablast
Common myeloid progenitor
Plasma cell
Neutrophil progenitor cell
Hematopoietic multipotent progenitor cell
Megakaryocyte
T follicular helper cell
Granulocyte monocyte progenitor cell
Mucosal invariant t cell
Promyelocyte
Megakaryocyte-erythroid progenitor cell
Central memory cd8-positive, alpha-beta t cell
Naive b cell
Conventional dendritic cell
Cd16-negative, cd56-bright natural killer cell, human
Effector memory cd8-positive, alpha-beta t cell
Non-classical monocyte
Tissue
Bone marrow
Developmental stage
42-year-old stage
Sixth decade stage
61-year-old stage
30-year-old stage
17-year-old stage
Seventh decade stage
59-year-old stage
31-year-old stage
22-year-old stage
Eighth decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 5' transcription profiling
10x 5' v1
Smart-seq2
10x 3' v3
Suspension type
Cell
Related Links
scBS-seq data (PRJEB50820)
Smart-seq2 data, scATAC-seq data and 10x-Genomics Chromium droplet-based scRNA-seq data (EGAD00001008575)
CellTypist webpage
Analysis scripts
Teichmann Lab
CELLxGENE
66,385 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
T cell
+21
T cell
Bladder organ
Bladder organ
61-year-old stage
+4
61-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Neutrophil
Bladder urothelial cell
Natural killer cell
Endothelial cell of lymphatic vessel
Erythrocyte
Endothelial cell
Mature nk t cell
Mast cell
Cd8-positive, alpha-beta t cell
Capillary endothelial cell
Smooth muscle cell
Macrophage
Regulatory t cell
Plasma cell
Cd4-positive, alpha-beta t cell
Vein endothelial cell
B cell
Pericyte
Monocyte
Myofibroblast cell
Fibroblast
Tissue
Bladder organ
Developmental stage
61-year-old stage
56-year-old stage
59-year-old stage
45-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
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
65,847 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
Neutrophil
+33
Neutrophil
Lung
Lung
61-year-old stage
+2
61-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Neutrophil
Club cell
Respiratory tract goblet cell
Serous cell of epithelium of bronchus
Natural killer cell
Endothelial cell of lymphatic vessel
Mature nk t cell
Mast cell
Pulmonary ionocyte
Cd8-positive, alpha-beta t cell
Basal cell
Endothelial cell of artery
Capillary endothelial cell
Classical monocyte
Intermediate monocyte
Plasmacytoid dendritic cell
Myeloid dendritic cell
Lung multiciliated epithelial cell
Macrophage
Pulmonary alveolar type 1 cell
Bronchial smooth muscle cell
Plasma cell
Cd4-positive, alpha-beta t cell
Vein endothelial cell
Alveolar adventitial fibroblast
Mesothelial cell
B cell
Pericyte
Adventitial cell
Monocyte
Vascular associated smooth muscle cell
Basophil
Pulmonary alveolar type 2 cell
Non-classical monocyte
Tissue
Lung
Developmental stage
61-year-old stage
59-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
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
Single Cell Portal
65,843 cells
Explore
Mus musculus
Mus musculus
T cell
+11
T cell
Obesity disorder
Obesity disorder
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
T cell
Natural killer cell
Endothelial cell of lymphatic vessel
Endothelial cell
Epithelial cell
Macrophage
Mesenchymal stem cell of adipose tissue
Mesothelial cell
B cell
Pericyte
Monocyte
Dendritic cell
Tissue
Developmental stage
Disease
Obesity disorder
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
65,662 cells
•
Travaglini et al., 2020
A molecular cell atlas of the human lung from single-cell RNA sequencing
Explore
h5ad
Homo sapiens
Homo sapiens
Club cell
+45
Club cell
Lung
+1
Lung
75-year-old stage
+2
75-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Club cell
Cd1c-positive myeloid dendritic cell
Tracheobronchial serous cell
Ciliated cell
Natural killer cell
Endothelial cell of lymphatic vessel
Endothelial cell
Myeloid dendritic cell, human
Mature nk t cell
Pulmonary ionocyte
Pulmonary neuroendocrine cell
Basal cell
Effector memory cd4-positive, alpha-beta t cell
Lung goblet cell
Endothelial cell of artery
Capillary endothelial cell
Classical monocyte
Intermediate monocyte
Plasmacytoid dendritic cell, human
Epithelial cell
Lung multiciliated epithelial cell
Lymphocyte
Naive thymus-derived cd8-positive, alpha-beta t cell
Mesothelial cell of pleura
Macrophage
Pulmonary alveolar type 1 cell
Bronchial smooth muscle cell
Respiratory basal cell
Alveolar macrophage
Plasma cell
Vein endothelial cell
Megakaryocyte
Pulmonary interstitial fibroblast
B cell
Pericyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Myeloid leukocyte
Monocyte
Mucus secreting cell
Vascular associated smooth muscle cell
Myofibroblast cell
Fibroblast
Dendritic cell
Pulmonary alveolar type 2 cell
Effector memory cd8-positive, alpha-beta t cell
Non-classical monocyte
Tissue
Lung
Blood
Developmental stage
75-year-old stage
51-year-old stage
46-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
EGAS00001004344
PRJNA632939
Human Lung Cell Atlas
Synapse
HLCA Github
cells.ucsc.edu
explore.data.humancellatlas.org
CELLxGENE
65,575 cells
•
Article
Explore
h5ad
Homo sapiens
Homo sapiens
Migratory dendritic cell
+10
Migratory dendritic cell
Left lobe of liver
+3
Left lobe of liver
66-year-old stage
+45
66-year-old stage
Normal
Normal
Female
+1
Female
10x 5' v1
+2
10x 5' v1
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Migratory dendritic cell
Kupffer cell
Classical monocyte
Mature neutrophil
Lymphocyte
Trem2-positive macrophage
Monocyte
Conventional dendritic cell
Dendritic cell
Bag3-positive monocyte
Non-classical monocyte
Tissue
Left lobe of liver
Right lobe of liver
Caudate lobe of liver
Liver
Developmental stage
66-year-old stage
37-year-old stage
75-year-old stage
21-year-old stage
65-year-old stage
26-year-old stage
Sixth decade stage
71-year-old stage
53-year-old stage
61-year-old stage
52-year-old stage
54-year-old stage
48-year-old stage
39-year-old stage
44-year-old stage
56-year-old stage
Fifth decade stage
55-year-old stage
50-year-old stage
80-year-old stage
28-year-old stage
51-year-old stage
57-year-old stage
72-year-old stage
Third decade stage
49-year-old stage
Seventh decade stage
59-year-old stage
Adult stage
67-year-old stage
Late adult stage
32-year-old stage
77-year-old stage
33-year-old stage
45-year-old stage
62-year-old stage
41-year-old stage
70-year-old stage
46-year-old stage
60-year-old stage
Fourth decade stage
Eighth decade stage
73-year-old stage
Prime adult stage
Ninth decade stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
CELLxGENE
65,479 cells
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+13
T cell
Dorsolateral prefrontal cortex
Dorsolateral prefrontal cortex
87-year-old stage
+7
87-year-old stage
Cognitive disorder
+2
Cognitive disorder
Female
+1
Female
10x multiome
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
T cell
Glutamatergic neuron
Oligodendrocyte precursor cell
Oligodendrocyte
Endothelial cell of artery
Capillary endothelial cell
Smooth muscle cell
Microglial cell
Vein endothelial cell
Pericyte
Perivascular macrophage
Astrocyte
Fibroblast
Gabaergic neuron
Tissue
Dorsolateral prefrontal cortex
Developmental stage
87-year-old stage
88-year-old stage
84-year-old stage
81-year-old stage
90 year-old and over stage
78-year-old stage
79-year-old stage
83-year-old stage
Disease
Cognitive disorder
Normal
Alzheimer disease
Sex
Female
Male
Technology
10x multiome
Suspension type
Nucleus
CELLxGENE
65,272 cells
•
Ham et al., 2025
Single-nuclei sequencing of skeletal muscle reveals subsynaptic-specific transcripts involved in neuromuscular junction maintenance
Explore
h5ad
Mus musculus
Mus musculus
Blood vessel endothelial cell
+17
Blood vessel endothelial cell
Gastrocnemius
+1
Gastrocnemius
Prime adult stage
Prime adult stage
Lesion of sciatic nerve
+1
Lesion of sciatic nerve
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Blood vessel endothelial cell
Microvascular endothelial cell
Tendon cell
Schwann cell
Smooth muscle cell
Lymphocyte
Adipocyte
Macrophage
Type iib muscle cell
Type iix muscle cell
Fibro/adipogenic progenitor cell
Perineurial cell
Pericyte
Skeletal muscle satellite stem cell
Neuromuscular junction nucleus
Myotendinous junction nucleus
Type iia muscle cell
Intermediate muscle cell
Tissue
Gastrocnemius
Skeletal muscle tissue of tibialis anterior
Developmental stage
Prime adult stage
Disease
Lesion of sciatic nerve
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
ruegglab.shinyapps.io
GSE267910
CELLxGENE
65,088 cells
•
Chen et al., 2021
Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polyps
Explore
h5ad
Homo sapiens
Homo sapiens
Intestinal crypt stem cell of colon
+8
Intestinal crypt stem cell of colon
Ascending colon
+6
Ascending colon
65-year-old stage
+15
65-year-old stage
Tubulovillous adenoma
+5
Tubulovillous adenoma
Female
+1
Female
Trudrop
Trudrop
Cell
Cell
Organism
Homo sapiens
Cell type
Intestinal crypt stem cell of colon
Gut absorptive cell
Goblet cell
Tuft cell
Intestinal enteroendocrine cell
Neoplastic cell
Intestinal epithelial cell
Transit amplifying cell
Abnormal cell
Tissue
Ascending colon
Hepatic flexure of colon
Rectum
Transverse colon
Descending colon
Sigmoid colon
Hepatic cecum
Developmental stage
65-year-old stage
71-year-old stage
53-year-old stage
54-year-old stage
68-year-old stage
50-year-old stage
57-year-old stage
72-year-old stage
58-year-old stage
59-year-old stage
67-year-old stage
64-year-old stage
62-year-old stage
70-year-old stage
60-year-old stage
73-year-old stage
Disease
Tubulovillous adenoma
Tubular adenoma
Colorectal neoplasm
Normal
Hyperplastic polyp
Colon sessile serrated adenoma/polyp
Sex
Female
Male
Technology
Trudrop
Suspension type
Cell
Related Links
explore.data.humancellatlas.org
phs002371
humantumoratlas.org
CELLxGENE
64,862 cells
•
Article
Explore
h5ad
Homo sapiens
Homo sapiens
Fast muscle cell
+20
Fast muscle cell
Calcaneal tendon
Calcaneal tendon
51-year-old stage
+4
51-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fast muscle cell
T cell
Granulocyte
Endothelial cell of venule
Natural killer cell
Endothelial cell of lymphatic vessel
Slow muscle cell
Endothelial cell of arteriole
Blood vessel smooth muscle cell
Skeletal muscle satellite cell
Neural cell
Adipocyte
Macrophage
Plasma cell
B cell
Pericyte
Monocyte
Fibroblast
Dendritic cell
Skeletal muscle fiber
Chondrocyte
Tissue
Calcaneal tendon
Developmental stage
51-year-old stage
74-year-old stage
58-year-old stage
45-year-old stage
76-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
1
2
…
54
55
56
57
58
…
419
420
Close