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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
•
Yayon et al., 2024
A spatial human thymus cell atlas mapped to a continuous tissue axis
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+5
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
B cell
Fibroblast
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
•
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
Natural killer cell
+7
Natural killer cell
Nose skin
Nose skin
82-year-old stage
82-year-old stage
Basal cell carcinoma
Basal cell carcinoma
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Natural killer cell
Basal cell
Plasmacytoid dendritic cell
Endothelial cell of vascular tree
Basal cell of epidermis
Macrophage
Suprabasal keratinocyte
Fibroblast
Tissue
Nose skin
Developmental stage
82-year-old stage
Disease
Basal cell carcinoma
Sex
Female
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
Cardiac pacemaker cell of sinoatrial node
+24
Cardiac pacemaker cell of sinoatrial node
Sinoatrial node
Sinoatrial node
Fifth decade stage
Fifth 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
Adipocyte
Cd8-positive, alpha-beta cytotoxic t cell
Macrophage
Cd16-positive, cd56-dim natural killer cell, human
Innate lymphoid cell
Glial cell
Vein endothelial cell
B cell
Pericyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Regular atrial cardiac myocyte
Monocyte
Fibroblast of cardiac tissue
Cd16-negative, cd56-bright natural killer cell, human
Tissue
Sinoatrial node
Developmental stage
Fifth 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
•
Article
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+3
Endothelial cell
Outflow tract myocardium
Outflow tract myocardium
13th week post-fertilization stage
13th week post-fertilization stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell
Neural cell
Cardiac mesenchymal cell
Cardiac muscle cell
Tissue
Outflow tract myocardium
Developmental stage
13th week post-fertilization stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
E-MTAB-13456
E-MTAB-13447
E-MTAB-13453
E-MTAB-13461
CELLxGENE
4,992 cells
•
Zhang et al., 2023
A human embryonic limb cell atlas resolved in space and time
Explore
h5ad
Homo sapiens
Homo sapiens
Muscle cell
+10
Muscle cell
Hindlimb
Hindlimb
Carnegie stage 19
Carnegie stage 19
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Muscle cell
Fibroblast of dermis
Tendon cell
Basal cell
Schwann cell
Primitive red blood cell
Chondroblast
Mesenchymal cell
Skeletal muscle myoblast
Fibroblast
Chondrocyte
Tissue
Hindlimb
Developmental stage
Carnegie stage 19
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
developmental.cellatlas.io
mouse scRNA-seq
human Visium
human scRNA-seq
github.com
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
Perivascular cell
+5
Perivascular cell
Breast
Breast
Adult stage
Adult stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Perivascular cell
Endothelial cell
Epithelial cell
Myeloid cell
B cell
Fibroblast
Tissue
Breast
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GSE213688
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
+16
Tracheobronchial smooth muscle cell
Lung
Lung
14th week post-fertilization stage
14th 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
Erythrocyte
Cd8-positive, alpha-beta t cell
Endothelial cell of artery
Capillary endothelial cell
Respiratory tract epithelial cell
Bronchus fibroblast of lung
Pulmonary alveolar type 1 cell
Fibroblast of lung
Cd4-positive, alpha-beta t cell
Vein endothelial cell
Megakaryocyte
Pulmonary interstitial fibroblast
Epithelial cell of lung
Vascular associated smooth muscle cell
Myofibroblast cell
Tissue
Lung
Developmental stage
14th week post-fertilization stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
scRNA / GEX / VDJ (E-MTAB-11278)
Organoid (E-MTAB-11267)
Visium (E-MTAB-11265)
ATAC-seq (E-MTAB-11266)
fetal-lung.cellgeni.sanger.ac.uk
genome.ucsc.edu
github.com
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
Natural killer cell
+8
Natural killer cell
Skin of forehead
Skin of forehead
73-year-old stage
73-year-old stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Natural killer cell
Endothelial cell of lymphatic vessel
Schwann cell
Smooth muscle cell
Endothelial cell of vascular tree
Basal cell of epidermis
Pericyte
Suprabasal keratinocyte
Fibroblast
Tissue
Skin of forehead
Developmental stage
73-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
Neutrophil
+18
Neutrophil
Interventricular septum
Interventricular septum
Sixth decade stage
Sixth decade stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Neutrophil
Endocardial cell
Dendritic cell, human
Endothelial cell of lymphatic vessel
Mature nk t cell
Cd8-positive, alpha-beta t cell
Endothelial cell of artery
Smooth muscle cell
Smooth muscle cell of the pulmonary artery
Macrophage
Glial cell
Vein endothelial cell
Cd14-positive monocyte
Cd14-low, cd16-positive monocyte
Pericyte
Mucosal invariant t cell
Monocyte
Regular ventricular cardiac myocyte
Fibroblast of cardiac tissue
Tissue
Interventricular septum
Developmental stage
Sixth 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
•
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
+14
Tracheobronchial smooth muscle cell
Lung
Lung
17th week post-fertilization stage
17th 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
Respiratory tract epithelial cell
Lung multiciliated epithelial cell
Pulmonary alveolar type 1 cell
Fibroblast of lung
Vein endothelial cell
Megakaryocyte
Mesothelial cell
Pulmonary interstitial fibroblast
Epithelial cell of lung
Vascular associated smooth muscle cell
Myofibroblast cell
Pulmonary alveolar type 2 cell
Chondrocyte
Tissue
Lung
Developmental stage
17th week post-fertilization stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
scRNA / GEX / VDJ (E-MTAB-11278)
Organoid (E-MTAB-11267)
Visium (E-MTAB-11265)
ATAC-seq (E-MTAB-11266)
fetal-lung.cellgeni.sanger.ac.uk
genome.ucsc.edu
github.com
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
+26
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
Endothelial cell of lymphatic vessel
Lung secretory cell
Neuroendocrine cell
Mast cell
Lung interstitial macrophage
Iga plasma cell
Blood vessel smooth muscle cell
Basal cell
Igg plasma cell
Lung macrophage
Goblet cell
Plasmablast
Serous secreting cell of bronchus submucosal gland
Fibroblast of lung
Vein endothelial cell
Cd14-positive monocyte
Respiratory tract suprabasal cell
Lung perichondrial fibroblast
Naive thymus-derived cd4-positive, alpha-beta t cell
Adventitial cell
Myofibroblast cell
Dendritic cell
Pulmonary alveolar type 2 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
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