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
64,793 cells
•
Article
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Synovial fluid
+1
Synovial fluid
Pediatric stage
Pediatric stage
Juvenile idiopathic arthritis
Juvenile idiopathic arthritis
Female
+1
Female
10x 5' v2
+1
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Cd8-positive, alpha-beta t cell
Macrophage
Innate lymphoid cell
Cd4-positive, alpha-beta t cell
B cell
Monocyte
Fibroblast
Dendritic cell
Tissue
Synovial fluid
Blood
Developmental stage
Pediatric stage
Disease
Juvenile idiopathic arthritis
Sex
Female
Male
Technology
10x 5' v2
10x 3' v3
Suspension type
Cell
Related Links
github.com
immunologie.charite.de
zenodo.org
Single Cell Portal
64,649 cells
Explore
Homo sapiens
Homo sapiens
Stromal cell
+4
Stromal cell
Myasthenia gravis
Myasthenia gravis
10x 5' v2
+1
10x 5' v2
Organism
Homo sapiens
Cell type
Stromal cell
Immature t cell
Myeloid cell
B cell
Mature t cell
Tissue
Developmental stage
Disease
Myasthenia gravis
Sex
Technology
10x 5' v2
10x 3' v3
Suspension type
CELLxGENE
64,091 cells
•
Chan et al., 2021
Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Club cell
+9
Club cell
Pleural effusion
+7
Pleural effusion
69-year-old stage
+24
69-year-old stage
Lung adenocarcinoma
+2
Lung adenocarcinoma
Female
+1
Female
10x 3' transcription profiling
+2
10x 3' transcription profiling
Cell
Cell
Organism
Homo sapiens
Cell type
Club cell
Hepatocyte
Pulmonary alveolar epithelial cell
Neuroendocrine cell
Basal cell
Ionocyte
Epithelial cell
Goblet cell
Tuft cell
Ciliated epithelial cell
Tissue
Pleural effusion
Lung
Axilla
Liver
Bone spine
Brain
Adrenal gland
Lymph node
Developmental stage
69-year-old stage
75-year-old stage
65-year-old stage
71-year-old stage
85-year-old stage
68-year-old stage
44-year-old stage
55-year-old stage
84-year-old stage
82-year-old stage
80-year-old stage
57-year-old stage
72-year-old stage
81-year-old stage
74-year-old stage
67-year-old stage
77-year-old stage
64-year-old stage
62-year-old stage
70-year-old stage
78-year-old stage
47-year-old stage
76-year-old stage
79-year-old stage
73-year-old stage
Disease
Lung adenocarcinoma
Normal
Small cell lung carcinoma
Sex
Female
Male
Technology
10x 3' transcription profiling
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
data.humantumoratlas.org
phs002371
CELLxGENE
63,608 cells
•
Leng et al., 2021
Molecular characterization of selectively vulnerable neurons in Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Glutamatergic neuron
+6
Glutamatergic 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
Glutamatergic neuron
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Mature microglial cell
Mature astrocyte
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
62,849 cells
•
Elmentaite et al., 2020
Single-Cell Sequencing of Developing Human Gut Reveals Transcriptional Links to Childhood Crohn’s Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Intestine goblet cell
+20
Intestine goblet cell
Ileum
+2
Ileum
Carnegie stage 19
+5
Carnegie stage 19
Normal
Normal
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Intestine goblet cell
Endothelial cell of lymphatic vessel
Interstitial cell of cajal
Enteric neuron
Stem cell
Endothelial cell of artery
Epithelial cell
Neural crest cell
Enteroendocrine cell
Mesodermal cell
Enteric smooth muscle cell
Enterocyte
Vein endothelial cell
Mesothelial cell
Pericyte
Progenitor cell
Colon epithelial cell
Myofibroblast cell
Erythroblast
Fibroblast
Hematopoietic cell
Tissue
Ileum
Colon
Duodeno-jejunal junction
Developmental stage
Carnegie stage 19
Carnegie stage 23
10th week post-fertilization stage
Carnegie stage 17
Carnegie stage 22
Carnegie stage 18
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Cell
Related Links
E-MTAB-8901
teichlab.org
cells.ucsc.edu
CELLxGENE
62,711 cells
•
Takeuchi et al., 2025
Single-nucleus multiome shows motor neuron glutamate overactivation in amyotrophic lateral sclerosis
Explore
h5ad
Homo sapiens
Homo sapiens
Central nervous system macrophage
+12
Central nervous system macrophage
Lumbar spinal cord
Lumbar spinal cord
75-year-old stage
+5
75-year-old stage
Amyotrophic lateral sclerosis
+1
Amyotrophic lateral sclerosis
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Central nervous system macrophage
Glutamatergic neuron
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Lymphocyte
Ependymal cell
Microglial cell
Somatomotor neuron
Pericyte
Astrocyte
Fibroblast
Gabaergic neuron
Tissue
Lumbar spinal cord
Developmental stage
75-year-old stage
68-year-old stage
80-year-old stage
67-year-old stage
73-year-old stage
83-year-old stage
Disease
Amyotrophic lateral sclerosis
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
github.com
figshare
CELLxGENE
62,509 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 rod cell
Retinal rod 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 rod 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
Single Cell Portal
62,496 cells
Explore
Homo sapiens
Homo sapiens
Bipolar neuron
+16
Bipolar neuron
Normal
Normal
Mixed sex
Mixed sex
10x 3' v1
10x 3' v1
Organism
Homo sapiens
Cell type
Bipolar neuron
Gabaergic amacrine cell
Retinal ganglion cell
Off-bipolar cell
On-bipolar cell
Photoreceptor cell
Microglial cell
Retinal cone cell
Retinal rod cell
Glial cell
Retina horizontal cell
Interneuron
Amacrine cell
Retinal progenitor cell
Precursor cell
Mueller cell
Astrocyte
Tissue
Developmental stage
Disease
Normal
Sex
Mixed sex
Technology
10x 3' v1
Suspension type
CELLxGENE
62,415 cells
•
Joseph et al., 2021
Single‐cell analysis of mouse and human prostate reveals novel fibroblasts with specialized distribution and microenvironment interactions
Explore
h5ad
Mus musculus
Mus musculus
T cell
+25
T cell
Prostate gland
+1
Prostate gland
2-month-old stage
2-month-old stage
Normal
Normal
Male
Male
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
T cell
Effector cd8-positive, alpha-beta t cell
Neutrophil
Seminal vesicle glandular cell
Cd1c-positive myeloid dendritic cell
Luminal cell of prostate epithelium
Natural killer cell
Prostate gland microvascular endothelial cell
Tissue-resident macrophage
Mature nk t cell
Cd141-positive myeloid dendritic cell
Classical monocyte
Intermediate monocyte
Plasmacytoid dendritic cell
Effector cd4-positive, alpha-beta t cell
Lymphocyte
Regulatory t cell
Fibroblast of connective tissue of prostate
Urethra urothelial cell
Smooth muscle cell of prostate
Plasma cell
B cell
Fibroblast
Basal cell of prostate epithelium
Dendritic cell
Non-classical monocyte
Tissue
Prostate gland
Urethra
Developmental stage
2-month-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
www.gudmap.org
Human Raw Data
Mouse Raw Data
strandlab.net
CELLxGENE
61,747 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
Glutamatergic neuron
+7
Glutamatergic neuron
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
Glutamatergic neuron
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Vascular leptomeningeal cell
Inhibitory interneuron
Microglial cell
Astrocyte
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
61,525 cells
•
Galvão et al., 2024
Multimodal single-cell profiling reveals neuronal vulnerability and pathological cell states in focal cortical dysplasia
Explore
h5ad
Homo sapiens
Homo sapiens
L2/3 intratelencephalic projecting glutamatergic neuron
+13
L2/3 intratelencephalic projecting glutamatergic neuron
Lobe of cerebral hemisphere
+3
Lobe of cerebral hemisphere
2-year-old stage
+7
2-year-old stage
Isolated focal cortical dysplasia type ii
Isolated focal cortical dysplasia type ii
Female
+1
Female
10x multiome
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L2/3 intratelencephalic projecting glutamatergic neuron
Glutamatergic neuron
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Committed oligodendrocyte precursor
Vascular leptomeningeal cell
Cerebral cortex gabaergic interneuron
Lamp5 gabaergic interneuron
Microglial cell
Vip gabaergic interneuron
Pvalb gabaergic interneuron
Astrocyte
Sst gabaergic interneuron
Tissue
Lobe of cerebral hemisphere
Frontal lobe
Temporal lobe
Parietal lobe
Developmental stage
2-year-old stage
15-year-old stage
50-year-old stage
12-year-old stage
3-year-old stage
32-year-old stage
18-year-old stage
31-year-old stage
Disease
Isolated focal cortical dysplasia type ii
Sex
Female
Male
Technology
10x multiome
Suspension type
Nucleus
Related Links
GSE268807
explore.data.humancellatlas.org
CELLxGENE
60,668 cells
•
Knight-Schrijver et al., 2022
A single-cell comparison of adult and fetal human epicardium defines the age-associated changes in epicardial activity
Explore
h5ad
Homo sapiens
Homo sapiens
Endocardial cell
+15
Endocardial cell
Heart right ventricle
+6
Heart right ventricle
Sixth decade stage
+4
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Endocardial cell
Endothelial cell
Endothelial cell of artery
Capillary endothelial cell
Smooth muscle cell
Adipocyte
Cardiac mesenchymal cell
Innate lymphoid cell
Myeloid cell
Fetal cardiomyocyte
Vein endothelial cell
Mesothelial cell of epicardium
Cardiac muscle cell
Pericyte
Neuron
Fibroblast
Tissue
Heart right ventricle
Basal zone of heart
Right cardiac atrium
Apex of heart
Heart left ventricle
Left cardiac atrium
Interventricular septum
Developmental stage
Sixth decade stage
10th week post-fertilization stage
Seventh decade stage
Embryonic stage
Eighth decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
ncbi.nlm.nih.gov
1
2
…
55
56
57
58
59
…
419
420
Close