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
896
Nucleus
659
Data Source
0
Clear
Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
CELLxGENE
4,992 cells
•
Li et al., 2022
Mapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+3
Endothelial cell
Kidney
Kidney
Eighth decade stage
Eighth decade stage
Nonpapillary renal cell carcinoma
Nonpapillary renal cell carcinoma
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell
Epithelial cell of proximal tubule
Epithelial cell of proximal tubule segment 1
Fibroblast
Tissue
Kidney
Developmental stage
Eighth decade stage
Disease
Nonpapillary renal cell carcinoma
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
DOI:10.17632/g67bkbnhhg.1
EGA dataset:EGAD00001008030
EGA dataset:EGAD00001008781
Github:ThomasJamesMitchell/deSCeRNAMut
Sanger Institute Project:microenvironment-of-kidney-cancer
Github:ruoyan-li/RCC-spatial-mapping
HumanCellAtlas:8f1f653d-3ea1-4d8e-b4a7-b97dc852c2b1
CELLxGENE
4,992 cells
•
Wu et al., 2021
A single-cell and spatially resolved atlas of human breast cancers
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+18
T cell
Breast
Breast
54-year-old stage
54-year-old stage
Invasive ductal breast carcinoma
Invasive ductal breast carcinoma
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
T cell
Natural killer cell
Endothelial cell of lymphatic vessel
Perivascular cell
Endothelial cell
Mature nk t cell
Cd8-positive, alpha-beta t cell
Luminal epithelial cell of mammary gland
Myoepithelial cell
Macrophage
Memory b cell
Myeloid cell
Plasmablast
Cd4-positive, alpha-beta t cell
Malignant cell
Monocyte
Naive b cell
Fibroblast
Dendritic cell
Tissue
Breast
Developmental stage
54-year-old stage
Disease
Invasive ductal breast carcinoma
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:Swarbricklab-code/BrCa_cell_atlas
GEO series:GSE176078
EGA Study:EGAS00001005173
Zenodo record:4739739
BroadInstitute Single-Cell Portal:SCP1039/a-single-cell-and-spatially-resolved-atlas-of-human-breast-cancers
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Dendritic cell, human
+12
Dendritic cell, human
Atrioventricular node
Atrioventricular node
Eighth decade stage
Eighth decade stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Dendritic cell, human
Capillary endothelial cell
Smooth muscle cell
Smooth muscle cell of the pulmonary artery
Atrioventricular bundle cell
Adipocyte
Cd8-positive, alpha-beta cytotoxic t cell
Macrophage
Vein endothelial cell
Cd14-low, cd16-positive monocyte
Regular atrial cardiac myocyte
Regular ventricular cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Atrioventricular node
Developmental stage
Eighth decade stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
ArrayExpress BioStudies:E-MTAB-12919
ArrayExpress BioStudies:E-MTAB-12975
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
ArrayExpress BioStudies:E-MTAB-12916
CELLxGENE
4,992 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Intestine goblet cell
+19
Intestine goblet cell
Colon
Colon
13th week post-fertilization stage
13th week post-fertilization stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Intestine goblet cell
Intestinal crypt stem cell of large intestine
Secretory cell
Interstitial cell of cajal
Leukocyte
Gut absorptive cell
Inhibitory motor neuron
Neural cell
Gut endothelial cell
Transit amplifying cell of colon
Enteric smooth muscle cell
Glial cell
Enterocyte
Motor neuron
Mesothelial cell
Pericyte
Progenitor cell
Intestinal crypt stem cell of small intestine
Myofibroblast cell
Fibroblast
Tissue
Colon
Developmental stage
13th week post-fertilization stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GEO series:GSE158328
simmonslab.shinyapps.io
Mendeley Data Dataset:gncg57p5x9/2
dropbox.com
GEO series:GSE158702
HumanCellAtlas:fa3f460f-4fb9-4ced-b548-8ba6a8ecae3f
CELLxGENE
4,992 cells
•
Ganier et al., 2024
Multiscale spatial mapping of cell populations across anatomical sites in healthy human skin and basal cell carcinoma
Explore
h5ad
Homo sapiens
Homo sapiens
Basal cell
+9
Basal cell
Skin of cheek
Skin of cheek
39-year-old stage
39-year-old stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Basal cell
Schwann cell
Endothelial cell of vascular tree
Basal cell of epidermis
Plasma cell
Cell of skeletal muscle
Pericyte
Suprabasal keratinocyte
Fibroblast
Chondrocyte
Tissue
Skin of cheek
Developmental stage
39-year-old stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
spatial-skin-atlas.cellgeni.sanger.ac.uk
ArrayExpress BioStudies:E-MTAB-13085
HumanCellAtlas:e49e556a-da5a-442a-b45c-8691b457623e
ArrayExpress BioStudies:E-MTAB-13084
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac pacemaker cell of sinoatrial node
+25
Cardiac pacemaker cell of sinoatrial node
Atrioventricular node
Atrioventricular node
Sixth decade stage
Sixth decade stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Cardiac pacemaker cell of sinoatrial node
Neutrophil
Endocardial cell
Dendritic cell, human
Endothelial cell of lymphatic vessel
Endothelial cell
Mast cell
Endothelial cell of artery
Capillary endothelial cell
Smooth muscle cell
Smooth muscle cell of the pulmonary artery
Atrioventricular bundle cell
Adipocyte
Cd8-positive, alpha-beta cytotoxic t cell
Macrophage
Cd16-positive, cd56-dim natural killer cell, human
Glial cell
Plasma cell
Vein endothelial cell
Pericyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Mucosal invariant t cell
Regular atrial cardiac myocyte
Monocyte
Regular ventricular cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Atrioventricular node
Developmental stage
Sixth decade stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
ArrayExpress BioStudies:E-MTAB-12916
ArrayExpress BioStudies:E-MTAB-12919
ArrayExpress BioStudies:E-MTAB-12975
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
CELLxGENE
4,992 cells
•
Li et al., 2022
Mapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Podocyte
+19
Podocyte
Kidney
Kidney
Eighth decade stage
Eighth decade stage
Nonpapillary renal cell carcinoma
Nonpapillary renal cell carcinoma
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Podocyte
Natural killer cell
Endothelial cell
Cd8-positive, alpha-beta t cell
Activated type ii nk t cell
Classical monocyte
Epithelial cell of proximal tubule
Epithelial cell
Epithelial cell of proximal tubule segment 1
Macrophage
Kidney collecting duct principal cell
Kidney connecting tubule principal cell
Kidney loop of henle thick ascending limb epithelial cell
Mhc-ii-positive classical monocyte
Epithelial cell of proximal tubule segment 3
Pericyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Collagen secreting cell
Kidney loop of henle ascending limb epithelial cell
Fibroblast
Tissue
Kidney
Developmental stage
Eighth decade stage
Disease
Nonpapillary renal cell carcinoma
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
DOI:10.17632/g67bkbnhhg.1
EGA dataset:EGAD00001008030
EGA dataset:EGAD00001008781
Github:ThomasJamesMitchell/deSCeRNAMut
Github:ruoyan-li/RCC-spatial-mapping
HumanCellAtlas:8f1f653d-3ea1-4d8e-b4a7-b97dc852c2b1
Sanger Institute Project:microenvironment-of-kidney-cancer
CELLxGENE
4,992 cells
•
Guilliams et al., 2022
Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+9
Hepatocyte
Liver
Liver
58-year-old stage
58-year-old stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Hepatocyte
Endothelial cell of periportal hepatic sinusoid
Erythrocyte
Kupffer cell
Macrophage
Cholangiocyte
Plasma cell
Vascular associated smooth muscle cell
Fibroblast
Non-classical monocyte
Tissue
Liver
Developmental stage
58-year-old stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GEO series:GSE192742
livercellatlas.org
HumanCellAtlas:425c2759-db66-4c93-a358-a562c069b1f1
CELLxGENE
4,992 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
Periportal region hepatocyte
+4
Periportal region hepatocyte
Caudate lobe of liver
Caudate lobe of liver
Prime adult stage
Prime adult stage
Primary sclerosing cholangitis
Primary sclerosing cholangitis
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Periportal region hepatocyte
Hepatocyte
Centrilobular region hepatocyte
Blood cell
Intrahepatic cholangiocyte
Tissue
Caudate lobe of liver
Developmental stage
Prime adult stage
Disease
Primary sclerosing cholangitis
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
nature.com
GEO series:GSE240429
GEO series:GSE115469
GEO series:GSE243977
GEO series:GSE247128
GEO series:GSE245620
CELLxGENE
4,992 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
Tracheobronchial smooth muscle cell
+17
Tracheobronchial smooth muscle cell
Lung
Lung
16th week post-fertilization stage
16th week post-fertilization stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Tracheobronchial smooth muscle cell
Club cell
Endothelial cell of lymphatic vessel
Erythrocyte
Cd8-positive, alpha-beta t cell
Pulmonary neuroendocrine cell
Endothelial cell of artery
Respiratory tract epithelial cell
Lung multiciliated epithelial cell
Bronchus fibroblast of lung
Pulmonary alveolar type 1 cell
Fibroblast of lung
Cd4-positive, alpha-beta t cell
Megakaryocyte
Pulmonary interstitial fibroblast
Epithelial cell of lung
Vascular associated smooth muscle cell
Dendritic cell
Tissue
Lung
Developmental stage
16th week post-fertilization stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-11278
ArrayExpress BioStudies:E-MTAB-11267
ArrayExpress BioStudies:E-MTAB-11265
ArrayExpress BioStudies:E-MTAB-11266
Sanger Dataset:fetal-lung
genome.ucsc.edu
Github:Peng-He-Lab/Human_fetal_lung_cell_atlas_2022
CELLxGENE
4,992 cells
•
Yayon et al., 2024
A spatial human thymus cell atlas mapped to a continuous tissue axis
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+7
T cell
Thymus
Thymus
14-month-old stage
14-month-old stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
T cell
Endothelial cell
Smooth muscle cell
Epithelial cell
Macrophage
B cell
Fibroblast
Dendritic cell
Tissue
Thymus
Developmental stage
14-month-old stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Bioimage Archive:S-BIAD1257
ENA Project:PRJEB77091
EGA dataset:EGAD00001015384
ebi.ac.uk
GEO series:GSE271304
ccgg.ugent.be
Github:Teichlab/TissueTag
Github:Teichlab/thymus_spatial_atlas/tree/main
GEO series:GSE206710
CELLxGENE
4,992 cells
•
Li et al., 2022
Mapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Podocyte
+23
Podocyte
Kidney
Kidney
Sixth decade stage
Sixth decade stage
Nonpapillary renal cell carcinoma
Nonpapillary renal cell carcinoma
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Podocyte
Natural killer cell
Endothelial cell of lymphatic vessel
Endothelial cell
Mast cell
Cd8-positive, alpha-beta t cell
Iga plasma cell
Classical monocyte
Igg plasma cell
Epithelial cell of proximal tubule segment 1
Macrophage
Cd4-positive, cd25-positive, alpha-beta regulatory t cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Epithelial cell of proximal tubule segment 3
Cd4-positive, alpha-beta t cell
B cell
Pericyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Collagen secreting cell
Naive b cell
Kidney loop of henle ascending limb epithelial cell
Conventional dendritic cell
Fibroblast
Tissue
Kidney
Developmental stage
Sixth decade stage
Disease
Nonpapillary renal cell carcinoma
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
DOI:10.17632/g67bkbnhhg.1
EGA dataset:EGAD00001008030
EGA dataset:EGAD00001008781
Github:ThomasJamesMitchell/deSCeRNAMut
Sanger Institute Project:microenvironment-of-kidney-cancer
HumanCellAtlas:8f1f653d-3ea1-4d8e-b4a7-b97dc852c2b1
Github:ruoyan-li/RCC-spatial-mapping
1
2
…
155
156
157
158
159
…
390
391
Close