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Technology
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896
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
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Most cells
Fewest cells
2346
datasets
CELLxGENE
4,992 cells
•
Kuppe et al., 2022
Spatial multi-omic map of human myocardial infarction
Explore
h5ad
Homo sapiens
Homo sapiens
Adipocyte of epicardial fat of left ventricle
+9
Adipocyte of epicardial fat of left ventricle
Heart left ventricle
Heart left ventricle
74-year-old stage
74-year-old stage
Myocardial infarction
Myocardial infarction
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Adipocyte of epicardial fat of left ventricle
Cardiac endothelial cell
Mast cell
Lymphoid lineage restricted progenitor cell
Immature innate lymphoid cell
Neuronal receptor cell
Pericyte
Cardiac muscle myoblast
Smooth muscle myoblast
Fibroblast of cardiac tissue
Tissue
Heart left ventricle
Developmental stage
74-year-old stage
Disease
Myocardial infarction
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:KramannLab/visium_heart
Zenodo record:6580069#.YvQwROzMI1w
Github:saezlab/visium_heart
kramannlab.com
Zenodo record:6578047#.YvQwPezMI1w
Zenodo record:6578617#.YvQwQuzMI1w
HumanCellAtlas:e9f36305-d857-44a3-93f0-df4e6007dc97
Zenodo record:6578553#.YvQwPezMI1w
EGA Study:EGAS00001006330
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
Osteoblast
+12
Osteoblast
Hindlimb
Hindlimb
Carnegie stage 16
Carnegie stage 16
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Osteoblast
Muscle cell
Fibroblast of dermis
Tendon cell
Basal cell
Endothelial cell of artery
Schwann cell
Smooth muscle cell
Primitive red blood cell
Chondroblast
Mesenchymal cell
Skeletal muscle myoblast
Chondrocyte
Tissue
Hindlimb
Developmental stage
Carnegie stage 16
Disease
Normal
Sex
Female
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
•
Pranzatelli et al., 2024
GZMK+CD8+ T cells Target A Specific Acinar Cell Type in Sjögren’s Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+7
Endothelial cell
Labial gland
Labial gland
41-year-old stage
41-year-old stage
Immune system disorder
+1
Immune system disorder
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell
Iga plasma cell
Ionocyte
Duct epithelial cell
Acinar cell of salivary gland
Cd4-positive, alpha-beta t cell
Fibroblast
Dendritic cell
Tissue
Labial gland
Developmental stage
41-year-old stage
Disease
Immune system disorder
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:pranzatelli/scRNAseqNM2023
dbGaP Study:phs002446
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
+6
Perivascular 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
Perivascular cell
Endothelial cell
Epithelial cell
Myeloid cell
Malignant cell
B 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
GEO series:GSE213688
CELLxGENE
4,992 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Neutrophil
+10
Neutrophil
Right cardiac atrium
Right cardiac atrium
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
Neutrophil
Endocardial cell
Endothelial cell of artery
Smooth muscle cell
Smooth muscle cell of the pulmonary artery
Adipocyte
Glial cell
Vein endothelial cell
Regular atrial cardiac myocyte
Monocyte
Fibroblast of cardiac tissue
Tissue
Right cardiac atrium
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-12975
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
ArrayExpress BioStudies:E-MTAB-12919
CELLxGENE
4,992 cells
•
Kuppe et al., 2022
Spatial multi-omic map of human myocardial infarction
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac endothelial cell
+8
Cardiac endothelial cell
Heart left ventricle
Heart left ventricle
58-year-old stage
58-year-old stage
Myocardial infarction
Myocardial infarction
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Cardiac endothelial cell
Mast cell
Lymphoid lineage restricted progenitor cell
Immature innate lymphoid cell
Neuronal receptor cell
Pericyte
Cardiac muscle myoblast
Smooth muscle myoblast
Fibroblast of cardiac tissue
Tissue
Heart left ventricle
Developmental stage
58-year-old stage
Disease
Myocardial infarction
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Zenodo record:6578553#.YvQwPezMI1w
Zenodo record:6580069#.YvQwROzMI1w
Github:saezlab/visium_heart
kramannlab.com
Zenodo record:6578047#.YvQwPezMI1w
Zenodo record:6578617#.YvQwQuzMI1w
HumanCellAtlas:e9f36305-d857-44a3-93f0-df4e6007dc97
Github:KramannLab/visium_heart
EGA Study:EGAS00001006330
CELLxGENE
4,992 cells
•
Guilliams et al., 2022
Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
Explore
h5ad
Mus musculus
Mus musculus
Endothelial cell of hepatic sinusoid
+10
Endothelial cell of hepatic sinusoid
Liver
Liver
10-month-old stage
10-month-old stage
Normal
Normal
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Mus musculus
Cell type
Endothelial cell of hepatic sinusoid
Hepatocyte
Endothelial cell of periportal hepatic sinusoid
Erythrocyte
Kupffer cell
Intermediate monocyte
Endothelial cell of pericentral hepatic sinusoid
Cholangiocyte
Mesothelial cell
B cell
Fibroblast
Tissue
Liver
Developmental stage
10-month-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
•
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
+18
Muscle 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
Muscle cell
Airway submucosal gland duct basal cell
Ciliated cell
Lung secretory cell
Non-myelinating schwann cell
Iga plasma cell
Blood vessel smooth muscle cell
Basal cell
Goblet cell
Pulmonary alveolar type 1 cell
Serous secreting cell of bronchus submucosal gland
Vein endothelial cell
Respiratory tract suprabasal cell
Lung perichondrial fibroblast
Adventitial cell
Fibroblast
Pulmonary alveolar type 2 cell
Lung pericyte
Chondrocyte
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
Bioimage Archive:S-BIAD570
Sanger Dataset:5locationslung
ArrayExpress BioStudies:E-MTAB-11640
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
Club cell
+21
Club cell
Lung parenchyma
Lung parenchyma
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
Club cell
Muscle cell
Blood vessel endothelial cell
Ciliated cell
Endothelial cell of lymphatic vessel
Erythrocyte
Iga plasma cell
Blood vessel smooth muscle cell
Endothelial cell of artery
Igg plasma cell
Lung macrophage
Pulmonary alveolar type 1 cell
Plasmablast
Fibroblast of lung
Alveolar macrophage
Vein endothelial cell
Megakaryocyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Pulmonary artery endothelial cell
Adventitial cell
Conventional dendritic cell
Pulmonary alveolar type 2 cell
Tissue
Lung parenchyma
Developmental stage
Seventh decade stage
Disease
Normal
Sex
Male
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
•
Suo et al., 2022
Mapping the developing human immune system across organs
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+4
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
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
Human Cell Atlas Developmental:fetal-immune
Teichmann lab
UCSC Cell Browser:fetal-immune
Github:Teichlab/Pan_fetal_immune
DOI:10.1016/j.stem.2018.12.011
HumanCellAtlas:fcaa53cd-ba57-4bfe-af9c-eaa958f95c1a
ArrayExpress BioStudies:E-MTAB-11341
ArrayExpress BioStudies:E-MTAB-11343
BroadInstitute Single-Cell Portal:SCP1843
CELLxGENE
4,992 cells
•
Pranzatelli et al., 2024
GZMK+CD8+ T cells Target A Specific Acinar Cell Type in Sjögren’s Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+11
Endothelial cell
Labial gland
Labial gland
40-year-old stage
40-year-old stage
Immune system disorder
+1
Immune system disorder
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Endothelial cell
Iga plasma cell
Ionocyte
Smooth muscle cell
Myoepithelial cell
Cd8-positive, alpha-beta cytotoxic t cell
Duct epithelial cell
Acinar cell of salivary gland
Cd4-positive, alpha-beta t cell
Cd8-positive, alpha-beta regulatory t cell
Fibroblast
Dendritic cell
Tissue
Labial gland
Developmental stage
40-year-old stage
Disease
Immune system disorder
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:pranzatelli/scRNAseqNM2023
dbGaP Study:phs002446
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
+11
Natural killer cell
Skin of temple
Skin of temple
68-year-old stage
68-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
Mast cell
Basal cell
Schwann cell
Smooth muscle cell
Endothelial cell of vascular tree
Basal cell of epidermis
Macrophage
Pericyte
Suprabasal keratinocyte
Fibroblast
Tissue
Skin of temple
Developmental stage
68-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
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