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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
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2339
datasets
CELLxGENE
4,992 cells
•
Valdeolivas et al., 2024
Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+24
Natural killer cell
Rectosigmoid junction
Rectosigmoid junction
Eighth decade stage
Eighth decade stage
Colorectal cancer
Colorectal cancer
Male
Male
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Natural killer cell
Goblet cell
Regulatory t cell
B cell
Enterocyte
Pericyte
Iga plasma cell
Conventional dendritic cell
Endothelial cell of lymphatic vessel
Malignant cell
Smooth muscle cell
Cd4-positive, alpha-beta t cell
Myofibroblast cell
Macrophage
Cd8-positive, alpha-beta t cell
T follicular helper cell
Igg plasma cell
Endothelial tip cell
Inflammatory macrophage
Stromal cell
Transit amplifying cell of colon
Endothelial cell
Enteroglial cell
Mast cell
Endothelial stalk cell
Tissue
Rectosigmoid junction
Developmental stage
Eighth decade stage
Disease
Colorectal cancer
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:alberto-valdeolivas/ST_CRC_CMS
Zenodo record:7760264
Zenodo record:7744244
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
Dendritic cell
+10
Dendritic cell
Labial gland
Labial gland
69-year-old stage
69-year-old stage
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Dendritic cell
B cell
Iga plasma cell
Cd8-positive, alpha-beta cytotoxic t cell
Duct epithelial cell
Cd4-positive, alpha-beta t cell
Macrophage
Endothelial cell
Ionocyte
Fibroblast
Acinar cell of salivary gland
Tissue
Labial gland
Developmental stage
69-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:pranzatelli/scRNAseqNM2023
dbGaP Study:phs002446
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
Myoepithelial cell
+11
Myoepithelial 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
Myoepithelial cell
Dendritic cell
Cd8-positive, alpha-beta regulatory t cell
Iga plasma cell
Cd8-positive, alpha-beta cytotoxic t cell
Smooth muscle cell
Duct epithelial cell
Cd4-positive, alpha-beta t cell
Endothelial cell
Ionocyte
Fibroblast
Acinar cell of salivary gland
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
•
Pranzatelli et al., 2024
GZMK+CD8+ T cells Target A Specific Acinar Cell Type in Sjögren’s Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Myoepithelial cell
+4
Myoepithelial cell
Labial gland
Labial gland
62-year-old stage
+1
62-year-old stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Myoepithelial cell
Iga plasma cell
Duct epithelial cell
Fibroblast
Acinar cell of salivary gland
Tissue
Labial gland
Developmental stage
62-year-old stage
61-year-old stage
Disease
Normal
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:pranzatelli/scRNAseqNM2023
dbGaP Study:phs002446
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
Iga plasma cell
+3
Iga plasma cell
Labial gland
Labial gland
59-year-old stage
+1
59-year-old stage
Sjogren syndrome
Sjogren syndrome
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Iga plasma cell
Duct epithelial cell
Fibroblast
Acinar cell of salivary gland
Tissue
Labial gland
Developmental stage
59-year-old stage
47-year-old stage
Disease
Sjogren syndrome
Sex
Female
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Github:pranzatelli/scRNAseqNM2023
dbGaP Study:phs002446
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
+11
Schwann 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
Schwann cell
Muscle cell
Mesenchymal cell
Chondroblast
Primitive red blood cell
Basal cell
Fibroblast of dermis
Megakaryocyte
Tendon cell
Chondrocyte
Vein endothelial cell
Fibroblast
Tissue
Hindlimb
Developmental stage
Carnegie stage 19
Disease
Normal
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10514
ArrayExpress BioStudies:E-MTAB-10367
ArrayExpress BioStudies:E-MTAB-8813
Github:Peng-He-Lab/limbcellatlas
Human Cell Atlas Developmental:embryonic-limb
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
B cell
Smooth muscle cell
Endothelial cell
Epithelial cell
Fibroblast
Tissue
Thymus
Developmental stage
2-year-old stage
Disease
Normal
Sex
Male
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
Explore
h5ad
Homo sapiens
Homo sapiens
Neural cell
+4
Neural 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
Neural cell
Endothelial cell
Hematopoietic cell
Cardiac muscle cell
Cardiac mesenchymal 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
ebi.ac.uk
ebi.ac.uk
ebi.ac.uk
ebi.ac.uk
DOI:10.7554/eLife.107748.1
CELLxGENE
4,992 cells
•
Kuppe et al., 2022
Spatial multi-omic map of human myocardial infarction
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac muscle myoblast
+8
Cardiac muscle myoblast
Heart left ventricle
Heart left ventricle
57-year-old stage
57-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 muscle myoblast
Pericyte
Adipocyte of epicardial fat of left ventricle
Cardiac endothelial cell
Lymphoid lineage restricted progenitor cell
Fibroblast of cardiac tissue
Immature innate lymphoid cell
Smooth muscle myoblast
Mast cell
Tissue
Heart left ventricle
Developmental stage
57-year-old stage
Disease
Myocardial infarction
Sex
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
Zenodo record:6578553#.YvQwPezMI1w
Github:KramannLab/visium_heart
Zenodo record:6580069#.YvQwROzMI1w
Github:saezlab/visium_heart
kramannlab.com
EGA Study:EGAS00001006330
Zenodo record:6578617#.YvQwQuzMI1w
Zenodo record:6578047#.YvQwPezMI1w
HumanCellAtlas:e9f36305-d857-44a3-93f0-df4e6007dc97
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
+18
Endothelial cell of artery
Heart right ventricle
Heart right ventricle
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
Endothelial cell of artery
Regular ventricular cardiac myocyte
Glial cell
Pericyte
Endothelial cell of lymphatic vessel
Cd8-positive, alpha-beta cytotoxic t cell
Smooth muscle cell
Macrophage
Cd8-positive, alpha-beta t cell
Fibroblast of cardiac tissue
Adipocyte
Smooth muscle cell of the pulmonary artery
Dendritic cell, human
Endocardial cell
Vein endothelial cell
Plasma cell
Mucosal invariant t cell
Mesothelial cell
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Heart right ventricle
Developmental stage
Seventh 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
•
Suo et al., 2022
Mapping the developing human immune system across organs
Explore
h5ad
Homo sapiens
Homo sapiens
Dendritic cell
+10
Dendritic cell
Thymus
Thymus
18th week post-fertilization stage
18th week post-fertilization stage
Normal
Normal
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Dendritic cell
Medullary thymic epithelial cell type 3
T cell
Cycling t cell
Conventional dendritic cell
Alpha-beta t cell
Medullary thymic epithelial cell type 1
Cd4-positive, alpha-beta thymocyte
Epithelial cell
Fibroblast
Double-positive, alpha-beta thymocyte
Tissue
Thymus
Developmental stage
18th 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
ArrayExpress BioStudies:E-MTAB-11343
Github:Teichlab/Pan_fetal_immune
DOI:10.1016/j.stem.2018.12.011
BroadInstitute Single-Cell Portal:SCP1843
ArrayExpress BioStudies:E-MTAB-11341
UCSC Cell Browser:fetal-immune
HumanCellAtlas:fcaa53cd-ba57-4bfe-af9c-eaa958f95c1a
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
Plasmacytoid dendritic cell
+13
Plasmacytoid dendritic cell
Skin of temple
Skin of temple
33-year-old stage
33-year-old stage
Normal
Normal
Female
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Schwann cell
Natural killer cell
Basal cell of epidermis
Pericyte
Endothelial cell of lymphatic vessel
Smooth muscle cell
Macrophage
Basal cell
Endothelial cell of vascular tree
Suprabasal keratinocyte
Chondrocyte
Fibroblast
Plasma cell
Tissue
Skin of temple
Developmental stage
33-year-old stage
Disease
Normal
Sex
Female
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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