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659
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
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Most cells
Fewest cells
2339
datasets
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 right ventricle
Heart right 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
Regular ventricular cardiac myocyte
Pericyte
Endothelial cell of lymphatic vessel
Smooth muscle cell
Fibroblast of cardiac tissue
Adipocyte
Vein endothelial cell
Mucosal invariant t cell
Tissue
Heart right ventricle
Developmental stage
Seventh decade stage
Disease
Normal
Sex
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
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
Pulmonary alveolar type 2 cell
+26
Pulmonary alveolar type 2 cell
Bronchus
Bronchus
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
Pulmonary alveolar type 2 cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Goblet cell
Bronchus fibroblast of lung
Alveolar macrophage
Adventitial cell
Ciliated cell
Lung macrophage
Iga plasma cell
Endothelial cell of lymphatic vessel
Non-myelinating schwann cell
Lung perichondrial fibroblast
Muscle cell
Lung pericyte
Fibroblast of lung
Neuroendocrine cell
Myofibroblast cell
Blood vessel smooth muscle cell
Igg plasma cell
Smooth muscle cell of the pulmonary artery
Blood vessel endothelial cell
Chondrocyte
Lung interstitial macrophage
Vein endothelial cell
Fibroblast
Mast cell
Airway submucosal gland duct basal cell
Tissue
Bronchus
Developmental stage
Eighth decade stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
ENA Project:PRJEB52292
ArrayExpress BioStudies:E-MTAB-11640
Bioimage Archive:S-BIAD570
Sanger Dataset:5locationslung
HumanCellAtlas:957261f7-2bd6-4358-a6ed-24ee080d5cfc
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
Schwann cell
+20
Schwann cell
Hindlimb
Hindlimb
Carnegie stage 23
Carnegie stage 23
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Schwann cell
Reticulocyte
Osteoblast
Connective tissue cell
Endothelial cell of artery
Pericyte
Muscle cell
Smooth muscle cell
Muscle fibroblast
Macrophage
Primitive red blood cell
Basal cell
Fibroblast of dermis
Erythrocyte
Tendon cell
Hypertrophic chondrocyte
Chondrocyte
Articular chondrocyte
Vein endothelial cell
Fibroblast
Peridermal cell
Tissue
Hindlimb
Developmental stage
Carnegie stage 23
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Human Cell Atlas Developmental:embryonic-limb
ArrayExpress BioStudies:E-MTAB-10514
ArrayExpress BioStudies:E-MTAB-10367
ArrayExpress BioStudies:E-MTAB-8813
Github:Peng-He-Lab/limbcellatlas
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
Goblet cell
+20
Goblet cell
Bronchus
Bronchus
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
Goblet cell
Endothelial cell of artery
Respiratory tract suprabasal cell
Adventitial cell
Ciliated cell
Iga plasma cell
Non-myelinating schwann cell
Lung perichondrial fibroblast
Muscle cell
Lung pericyte
Fibroblast of lung
Lung secretory cell
Basal cell
Erythrocyte
Blood vessel smooth muscle cell
Igg plasma cell
Serous secreting cell of bronchus submucosal gland
Chondrocyte
Vein endothelial cell
Fibroblast
Airway submucosal gland duct basal cell
Tissue
Bronchus
Developmental stage
Seventh decade stage
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
ENA Project:PRJEB52292
HumanCellAtlas:957261f7-2bd6-4358-a6ed-24ee080d5cfc
ArrayExpress BioStudies:E-MTAB-11640
Sanger Dataset:5locationslung
Bioimage Archive:S-BIAD570
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
B cell
+5
B 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
B cell
Perivascular cell
Endothelial cell
Epithelial cell
Fibroblast
Myeloid cell
Tissue
Breast
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GEO series:GSE213688
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Regular atrial cardiac myocyte
+17
Regular atrial cardiac myocyte
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
Regular atrial cardiac myocyte
Atrioventricular bundle cell
Endothelial cell of artery
Regular ventricular cardiac myocyte
Pericyte
Endothelial cell of lymphatic vessel
Neutrophil
Cd8-positive, alpha-beta cytotoxic t cell
Smooth muscle cell
Macrophage
Fibroblast of cardiac tissue
Smooth muscle cell of the pulmonary artery
Endothelial cell
Dendritic cell, human
Capillary endothelial cell
Vein endothelial cell
Mast cell
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Atrioventricular node
Developmental stage
Fifth decade stage
Disease
Normal
Sex
Male
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
•
Zhang et al., 2023
A human embryonic limb cell atlas resolved in space and time
Explore
h5ad
Homo sapiens
Homo sapiens
Schwann cell
+9
Schwann cell
Hindlimb
Hindlimb
Carnegie stage 17
Carnegie stage 17
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Schwann cell
Skeletal muscle myoblast
Muscle cell
Mesenchymal cell
Chondroblast
Primitive red blood cell
Basal cell
Fibroblast of dermis
Tendon cell
Chondrocyte
Tissue
Hindlimb
Developmental stage
Carnegie stage 17
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Human Cell Atlas Developmental:embryonic-limb
ArrayExpress BioStudies:E-MTAB-10514
ArrayExpress BioStudies:E-MTAB-8813
Github:Peng-He-Lab/limbcellatlas
ArrayExpress BioStudies:E-MTAB-10367
CELLxGENE
4,992 cells
•
Gu et al., 2024
Immune microniches shape intestinal Treg function
Explore
h5ad
Mus musculus
Mus musculus
Enterocyte
+8
Enterocyte
Colon
Colon
Prime adult stage
Prime adult stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Mus musculus
Cell type
Enterocyte
Memory b cell
Transit amplifying cell
Myofibroblast cell
Macrophage
Stem cell
Enteric neuron
Germinal center b cell
Fibroblast
Tissue
Colon
Developmental stage
Prime adult stage
Disease
Normal
Sex
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Sanger Dataset:treg-gut-niches
ENA Project:PRJEB57700
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
Pulmonary alveolar type 2 cell
+15
Pulmonary alveolar type 2 cell
Lung
Lung
20th week post-fertilization stage
20th week post-fertilization stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Pulmonary alveolar type 2 cell
Bronchus fibroblast of lung
Club cell
Endothelial cell of artery
Lung multiciliated epithelial cell
Epithelial cell of lung
Large pre-b-ii cell
Pericyte
Fibroblast of lung
Cd4-positive, alpha-beta t cell
Tracheobronchial smooth muscle cell
Respiratory tract epithelial cell
Erythrocyte
Vascular associated smooth muscle cell
Pulmonary alveolar type 1 cell
Pulmonary interstitial fibroblast
Tissue
Lung
Developmental stage
20th 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
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
B cell
+11
B cell
Apex of heart
Apex of heart
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
B cell
Endothelial cell of artery
Regular ventricular cardiac myocyte
Glial cell
Pericyte
Endothelial cell of lymphatic vessel
Macrophage
Fibroblast of cardiac tissue
Endothelial cell
Capillary endothelial cell
Vein endothelial cell
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Apex of heart
Developmental stage
Fifth decade stage
Disease
Normal
Sex
Male
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
•
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
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
Cd14-low, cd16-positive monocyte
Regular atrial cardiac myocyte
Regular ventricular cardiac myocyte
Pericyte
Endothelial cell of lymphatic vessel
Neutrophil
Cd8-positive, alpha-beta cytotoxic t cell
Smooth muscle cell
Macrophage
Fibroblast of cardiac tissue
Adipocyte
Smooth muscle cell of the pulmonary artery
Dendritic cell, human
Capillary endothelial cell
Endocardial cell
Vein endothelial cell
Cardiac pacemaker cell of sinoatrial node
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-12916
ArrayExpress BioStudies:E-MTAB-12919
ArrayExpress BioStudies:E-MTAB-12975
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
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
+13
Natural killer cell
Skin of forehead
Skin of forehead
55-year-old stage
55-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
Regulatory t cell
Basal cell of epidermis
Cell of skeletal muscle
Pericyte
Endothelial cell of lymphatic vessel
Monocyte
Smooth muscle cell
Basal cell
Endothelial cell of vascular tree
Suprabasal keratinocyte
Chondrocyte
Fibroblast
Cytotoxic t cell
Tissue
Skin of forehead
Developmental stage
55-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
ArrayExpress BioStudies:E-MTAB-13084
HumanCellAtlas:e49e556a-da5a-442a-b45c-8691b457623e
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