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Cell Type
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Tissue
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Developmental Stage
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Disease
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Sex
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Technology
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Suspension Type
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Cell
893
Nucleus
659
Data Source
0
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
Single Cell Portal
5,856 cells
Explore
Mus musculus
Mus musculus
Oligodendrocyte
+4
Oligodendrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Oligodendrocyte
Oligodendrocyte precursor cell
Neuron
Brain microvascular endothelial cell
Astrocyte of the cerebellum
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD710) (section 279)
Corresponding registered brain section (MD710) (section 280)
Corresponding registered brain section (MD710) (section 281)
Corresponding registered brain section (MD710) (section 282)
CELLxGENE
5,834 cells
•
Szabo et al., 2021
Longitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19
Explore
h5ad
Homo sapiens
Homo sapiens
B cell
+7
B cell
Respiratory airway
Respiratory airway
74-year-old stage
74-year-old stage
Covid-19
Covid-19
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
B cell
Neutrophil
Mature nk t cell
Erythrocyte
Ionocyte
Epithelial cell
Mast cell
Myeloid cell
Tissue
Respiratory airway
Developmental stage
74-year-old stage
Disease
Covid-19
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
Mendeley Data Dataset:fm7v43jrbk/2
Github:simslab/cluster_diffex2018
COVID-19 cell atlas
CELLxGENE
5,833 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
T cell
+6
T cell
Breast
Breast
52-year-old stage
52-year-old stage
Breast cancer
Breast cancer
Female
Female
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
T cell
Malignant cell
Macrophage
Endothelial cell
Fibroblast
Plasma cell
Mast cell
Tissue
Breast
Developmental stage
52-year-old stage
Disease
Breast cancer
Sex
Female
Technology
Slide-seqv2
Suspension type
Related Links
humantumoratlas.org
dbGaP Study:phs002371
Single Cell Portal
5,828 cells
Explore
Mus musculus
Mus musculus
Osteoblast
+7
Osteoblast
Bone fracture
+1
Bone fracture
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Osteoblast
Leukocyte
Stromal cell of bone marrow
Cell of skeletal muscle
Smooth muscle cell
Endothelial cell
Chondrocyte
Fibroblast
Tissue
Developmental stage
Disease
Bone fracture
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
5,822 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Cd14-low, cd16-positive monocyte
+16
Cd14-low, cd16-positive monocyte
Left cardiac atrium
Left cardiac atrium
Seventh decade stage
+1
Seventh decade stage
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Cd14-low, cd16-positive monocyte
Regular atrial cardiac myocyte
Endothelial cell of artery
Glial cell
Pericyte
Endothelial cell of lymphatic vessel
Smooth muscle cell
Macrophage
Fibroblast of cardiac tissue
Adipocyte
Smooth muscle cell of the pulmonary artery
Capillary endothelial cell
Endocardial cell
Vein endothelial cell
Plasma cell
Mesothelial cell
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Left cardiac atrium
Developmental stage
Seventh decade stage
Fifth decade stage
Disease
Normal
Sex
Female
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
ArrayExpress BioStudies:E-MTAB-12916
ArrayExpress BioStudies:E-MTAB-12919
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
ArrayExpress BioStudies:E-MTAB-12975
CELLxGENE
5,785 cells
•
Chen et al., 2025
Determinants of sensitivity to HER2-targeted antibody drug conjugates in urothelial cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Neoplastic cell
Neoplastic cell
Urinary bladder
Urinary bladder
Adult stage
Adult stage
Urinary bladder cancer
Urinary bladder cancer
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neoplastic cell
Tissue
Urinary bladder
Developmental stage
Adult stage
Disease
Urinary bladder cancer
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
CELLxGENE
5,779 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Notochordal cell
+15
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
Single Cell Portal
5,770 cells
Explore
Mus musculus
Mus musculus
Neuron
Neuron
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
5,762 cells
•
Chen et al., 2025
Determinants of sensitivity to HER2-targeted antibody drug conjugates in urothelial cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Neoplastic cell
Neoplastic cell
Urinary bladder
Urinary bladder
Adult stage
Adult stage
Urinary bladder cancer
Urinary bladder cancer
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neoplastic cell
Tissue
Urinary bladder
Developmental stage
Adult stage
Disease
Urinary bladder cancer
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Single Cell Portal
5,759 cells
Explore
Homo sapiens
Homo sapiens
Regulatory t cell
+5
Regulatory t cell
Triple-negative breast carcinoma
Triple-negative breast carcinoma
10x 3' v2
10x 3' v2
Organism
Homo sapiens
Cell type
Regulatory t cell
Cd4-positive, alpha-beta memory t cell
Gamma-delta t cell
Monocyte
Cd4-positive, alpha-beta t cell
Cd8-positive, alpha-beta memory t cell
Tissue
Developmental stage
Disease
Triple-negative breast carcinoma
Sex
Technology
10x 3' v2
Suspension type
Related Links
Source publication
CELLxGENE
5,754 cells
•
Nowicki-Osuch et al., 2023
Single-Cell RNA Sequencing Unifies Developmental Programs of Esophageal and Gastric Intestinal Metaplasia
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
Fibroblast
Esophagogastric junction
+5
Esophagogastric junction
62-year-old stage
+21
62-year-old stage
Gastritis
+3
Gastritis
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast
Tissue
Esophagogastric junction
Submucosal esophageal gland
Duodenum
Cardia of stomach
Body of stomach
Lower esophagus
Developmental stage
62-year-old stage
43-year-old stage
34-year-old stage
42-year-old stage
56-year-old stage
68-year-old stage
55-year-old stage
57-year-old stage
83-year-old stage
77-year-old stage
74-year-old stage
63-year-old stage
48-year-old stage
27-year-old stage
67-year-old stage
58-year-old stage
45-year-old stage
53-year-old stage
29-year-old stage
69-year-old stage
51-year-old stage
41-year-old stage
Disease
Gastritis
Gastric intestinal metaplasia
Barrett esophagus
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
EGA dataset:EGAD00001010074
Github:karolno/BE-GIM_Comparison
CELLxGENE
5,733 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Spinal cord interneuron
+13
Spinal cord interneuron
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
Chen Lab
GEO series:GSE197353
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