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Cell
934
Nucleus
679
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ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
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Most cells
Fewest cells
2515
datasets
CELLxGENE
4,992 cells
•
Glasner et al., 2023
Conserved transcriptional connectivity of regulatory T cells in the tumor microenvironment informs new combination cancer therapy strategies
Explore
h5ad
Mus musculus
Mus musculus
Ciliated cell
+8
Ciliated cell
Lung
Lung
5-month-old stage
5-month-old stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Mus musculus
Cell type
Ciliated cell
Capillary endothelial cell
Epithelial cell
Pulmonary alveolar type 1 cell
Alveolar macrophage
B cell
Pericyte
Myofibroblast cell
Fibroblast
Tissue
Lung
Developmental stage
5-month-old stage
Disease
Normal
Sex
Technology
Visium spatial gene expression v1
Suspension type
Related Links
humantumoratlas.org
github.com
phs002371
CELLxGENE
4,992 cells
•
Suo et al., 2022
Mapping the developing human immune system across organs
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+7
Hepatocyte
Liver
Liver
16th week post-fertilization stage
16th week post-fertilization stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Hepatocyte
Erythroid lineage cell
Epithelial cell
Megakaryocyte progenitor cell
Megakaryocyte
Mesothelial cell
Vascular associated smooth muscle cell
Double negative thymocyte
Tissue
Liver
Developmental stage
16th week post-fertilization stage
Disease
Normal
Sex
Technology
Visium spatial gene expression v1
Suspension type
Related Links
scVI Models
Teichmann Lab
cells.ucsc.edu
E-MTAB-11343
Data processing and analysis scripts
PSC-ATO protocol
explore.data.humancellatlas.org
singlecell.broadinstitute.org
E-MTAB-11341
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
2-year-old stage
2-year-old stage
Normal
Normal
Male
Male
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
2-year-old stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
github.com
BioImage Archive
PRJEB77091
EGAD00001015384
E-MTAB-8581
GSE271304
GSE206710
CITE-seq
TissueTag github
CELLxGENE
4,992 cells
•
Coutant et al., 2023
Spatial Transcriptomics Reveal Pitfalls and Opportunities for the Detection of Rare High-Plasticity Breast Cancer Subtypes
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+4
T cell
Breast
Breast
Adult stage
Adult stage
Triple-negative breast carcinoma
Triple-negative breast carcinoma
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
T cell
Endothelial cell
Myeloid cell
Malignant cell
Fibroblast
Tissue
Breast
Developmental stage
Adult stage
Disease
Triple-negative breast carcinoma
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GSE213688
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of artery
+8
Endothelial cell of artery
Heart left ventricle
Heart left ventricle
Seventh decade stage
Seventh decade stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell of artery
Smooth muscle cell
Macrophage
Glial cell
Vein endothelial cell
Cd14-positive monocyte
Monocyte
Regular ventricular cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Heart left ventricle
Developmental stage
Seventh decade stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
multiome snRNA-seq (E-MTAB-12916)
multiome snATAC-seq (E-MTAB-12919)
Visium (E-MTAB-12975)
explore.data.humancellatlas.org
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
+3
T cell
Thymus
Thymus
3-month-old stage
3-month-old stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
T cell
Epithelial cell
Macrophage
B cell
Tissue
Thymus
Developmental stage
3-month-old stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
github.com
BioImage Archive
PRJEB77091
EGAD00001015384
E-MTAB-8581
GSE271304
GSE206710
CITE-seq
TissueTag github
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
+6
T cell
Thymus
Thymus
16th week post-fertilization stage
16th week post-fertilization stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
T cell
Endothelial cell
Schwann cell
Smooth muscle cell
Epithelial cell
Pericyte
Fibroblast
Tissue
Thymus
Developmental stage
16th week post-fertilization stage
Disease
Normal
Sex
Technology
Visium spatial gene expression v1
Suspension type
Related Links
github.com
BioImage Archive
PRJEB77091
EGAD00001015384
E-MTAB-8581
GSE271304
GSE206710
CITE-seq
TissueTag github
CELLxGENE
4,992 cells
•
Madissoon et al., 2022
A spatially resolved atlas of the human lung characterizes a gland-associated immune niche
Explore
h5ad
Homo sapiens
Homo sapiens
Muscle cell
+22
Muscle cell
Bronchus
Bronchus
59-year-old stage
59-year-old stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Muscle cell
Airway submucosal gland duct basal cell
Ciliated cell
Lung secretory cell
Erythrocyte
Non-myelinating schwann cell
Iga plasma cell
Blood vessel smooth muscle cell
Basal cell
Igg plasma cell
Bronchus fibroblast of lung
Lung macrophage
Goblet cell
Memory b cell
Plasmablast
Serous secreting cell of bronchus submucosal gland
Alveolar macrophage
Vein endothelial cell
Respiratory tract suprabasal cell
Lung perichondrial fibroblast
Adventitial cell
Myofibroblast cell
Chondrocyte
Tissue
Bronchus
Developmental stage
59-year-old stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
PRJEB52292
explore.data.humancellatlas.org
E-MTAB-11640
S-BIAD570
5locationslung.cellgeni.sanger.ac.uk
CELLxGENE
4,992 cells
•
Glasner et al., 2023
Conserved transcriptional connectivity of regulatory T cells in the tumor microenvironment informs new combination cancer therapy strategies
Explore
h5ad
Mus musculus
Mus musculus
Ciliated cell
+11
Ciliated cell
Lung
Lung
5-month-old stage
5-month-old stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Mus musculus
Cell type
Ciliated cell
Capillary endothelial cell
Epithelial cell
Macrophage
Pulmonary alveolar type 1 cell
Alveolar macrophage
Mesothelial cell
Cell of skeletal muscle
B cell
Pericyte
Myofibroblast cell
Fibroblast
Tissue
Lung
Developmental stage
5-month-old stage
Disease
Normal
Sex
Technology
Visium spatial gene expression v1
Suspension type
Related Links
humantumoratlas.org
github.com
phs002371
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
Endothelial cell of lymphatic vessel
+7
Endothelial cell of lymphatic vessel
Skin of cheek
Skin of cheek
76-year-old stage
76-year-old stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell of lymphatic vessel
Schwann cell
Endothelial cell of vascular tree
Basal cell of epidermis
Macrophage
Pericyte
Suprabasal keratinocyte
Fibroblast
Tissue
Skin of cheek
Developmental stage
76-year-old stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Spatial Skin Atlas
scRNAseq (E-MTAB-13085)
Visium (E-MTAB-13084)
explore.data.humancellatlas.org
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Endocardial cell
+12
Endocardial cell
Left cardiac atrium
Left cardiac atrium
Seventh decade stage
Seventh decade stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endocardial cell
Endothelial cell of lymphatic vessel
Endothelial cell of artery
Smooth muscle cell of the pulmonary artery
Adipocyte
Macrophage
Glial cell
Plasma cell
Vein endothelial cell
Mesothelial cell
Pericyte
Regular atrial cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Left cardiac atrium
Developmental stage
Seventh decade stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
multiome snRNA-seq (E-MTAB-12916)
multiome snATAC-seq (E-MTAB-12919)
Visium (E-MTAB-12975)
explore.data.humancellatlas.org
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Neutrophil
+17
Neutrophil
Atrioventricular node
Atrioventricular node
Fifth decade stage
Fifth decade stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Neutrophil
Endothelial cell of lymphatic vessel
Endothelial cell
Endothelial cell of artery
Capillary endothelial cell
Smooth muscle cell
Smooth muscle cell of the pulmonary artery
Cd8-positive, alpha-beta cytotoxic t cell
Macrophage
Glial cell
Plasma cell
Vein endothelial cell
Cd14-positive monocyte
Pericyte
Regular atrial cardiac myocyte
Monocyte
Regular ventricular cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Atrioventricular node
Developmental stage
Fifth decade stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
multiome snRNA-seq (E-MTAB-12916)
multiome snATAC-seq (E-MTAB-12919)
Visium (E-MTAB-12975)
explore.data.humancellatlas.org
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