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Technology
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Cell
934
Nucleus
679
Data Source
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ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
Sort
Most cells
Fewest cells
2515
datasets
CELLxGENE
15,601 cells
•
Kaya et al., 2022
CD8+ T cells induce interferon-responsive oligodendrocytes and microglia in white matter aging
Explore
h5ad
Mus musculus
Mus musculus
Microglial cell
Microglial cell
Brain white matter
+1
Brain white matter
20-month-old stage and over
20-month-old stage and over
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Microglial cell
Tissue
Brain white matter
Brain gray matter
Developmental stage
20-month-old stage and over
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE202579
github.com
CELLxGENE
15,592 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Mus musculus
Mus musculus
Podocyte
+13
Podocyte
Kidney
Kidney
13-week-old stage
13-week-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Podocyte
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney granular cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Macula densa epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
13-week-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
ncbi.nlm.nih.gov
Kidney Slide-seq Github
protocols.io
Macosko Lab Slide-seq Github
grekalab.org
CELLxGENE
15,583 cells
•
Article
Explore
h5ad
Mus musculus
Mus musculus
T cell
+22
T cell
Ovary
Ovary
9-month-old stage
9-month-old stage
Normal
Normal
Female
Female
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
T cell
Granulosa cell
Blood vessel endothelial cell
Stromal cell
Endothelial cell of lymphatic vessel
Cumulus granulosa cell
Mast cell
Smooth muscle cell
Steroidogenic stromal cell of ovary
Endothelial cell of vascular tree
Ovarian surface epithelial cell
Adipocyte
Macrophage
Oviduct secretory cell
Plasma cell
Oocyte
Late luteal cell
Atretic granulosa cell
Early luteal cell
Theca cell
Dendritic cell
Ovarian fibroblast
Mural granulosa cell
Tissue
Ovary
Developmental stage
9-month-old stage
Disease
Normal
Sex
Female
Technology
Slide-seqv2
Suspension type
CELLxGENE
15,516 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+12
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Neuroplacodal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
15,511 cells
•
Article
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+8
Natural killer cell
Lung
Lung
2-year-old stage
+9
2-year-old stage
Cystic fibrosis
+1
Cystic fibrosis
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Gamma-delta t cell
Mature nk t cell
Lung resident memory cd8-positive, alpha-beta t cell
Lung resident memory cd4-positive, alpha-beta t cell
Cd4-positive, cd25-positive, alpha-beta regulatory t cell
Innate lymphoid cell
Cd4-positive, alpha-beta t cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Tissue
Lung
Developmental stage
2-year-old stage
8-year-old stage
6-month-old stage
10-month-old stage
3-year-old stage
1-year-old stage
11-month-old stage
5-year-old stage
6-year-old stage
4-year-old stage
Disease
Cystic fibrosis
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
protocols.io
CELLxGENE
15,502 cells
•
Triana et al., 2021
Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+34
Natural killer cell
Blood
+1
Blood
41-year-old stage
41-year-old stage
Normal
Normal
Male
Male
Bd rhapsody targeted mrna
Bd rhapsody targeted mrna
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Erythroid progenitor cell
Gamma-delta t cell
Pro-b cell
Erythroid lineage cell
Classical monocyte
Plasmacytoid dendritic cell
Precursor b cell
Lymphoid lineage restricted progenitor cell
Basophil mast progenitor cell
Megakaryocyte progenitor cell
Common dendritic progenitor
Cd8-positive, alpha-beta memory t cell
Cd4-positive, alpha-beta cytotoxic t cell
Naive thymus-derived cd8-positive, alpha-beta t cell
Unswitched memory b cell
Memory b cell
Cd16-positive, cd56-dim natural killer cell, human
Myelocyte
Plasma cell
Late promyelocyte
Mesenchymal cell
Hematopoietic multipotent progenitor cell
Cd4-positive, alpha-beta memory t cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Early promyelocyte
Immature b cell
Megakaryocyte-erythroid progenitor cell
Central memory cd8-positive, alpha-beta t cell
Naive b cell
Conventional dendritic cell
Class switched memory b cell
Cd16-negative, cd56-bright natural killer cell, human
Effector memory cd8-positive, alpha-beta t cell
Non-classical monocyte
Tissue
Blood
Bone marrow
Developmental stage
41-year-old stage
Disease
Normal
Sex
Male
Technology
Bd rhapsody targeted mrna
Suspension type
Cell
Related Links
ega-archive.org
git.embl.de
figshare.com
figshare.com
ABseq App
CELLxGENE
15,481 cells
•
Guilliams et al., 2022
Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of hepatic sinusoid
+7
Endothelial cell of hepatic sinusoid
Liver
Liver
66-year-old stage
+13
66-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Endothelial cell of hepatic sinusoid
Hepatocyte
Endothelial cell of periportal hepatic sinusoid
Hepatic stellate cell
Endothelial cell of pericentral hepatic sinusoid
Cholangiocyte
Vascular associated smooth muscle cell
Fibroblast
Tissue
Liver
Developmental stage
66-year-old stage
75-year-old stage
68-year-old stage
55-year-old stage
28-year-old stage
72-year-old stage
49-year-old stage
58-year-old stage
Adult stage
67-year-old stage
77-year-old stage
33-year-old stage
64-year-old stage
46-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
GSE192742
livercellatlas.org
explore.data.humancellatlas.org
ASAP
v5
15,477 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Fat cell
+16
Fat cell
Malpighian tubule
Malpighian tubule
Day 5 of adulthood
Day 5 of adulthood
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Fat cell
Adult malpighian tubule principal cell of initial segment
Adult malpighian tubule principal cell
Tracheolar cell
Somatic precursor cell
Visceral muscle cell
Adult renal stem cell
Hemocyte
Epithelial cell
Muscle cell
Adult malpighian tubule principal cell of lower segment
Adult tracheocyte
Adult malpighian tubule principal cell of lower ureter
Oenocyte
Adult oenocyte
Adult malpighian tubule bar-shaped cell of initial segment
Adult malpighian tubule stellate cell of main segment
Tissue
Malpighian tubule
Developmental stage
Day 5 of adulthood
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Related Links
ebi.ac.uk
CELLxGENE
15,460 cells
•
Lazarescu et al., 2025
Human subcutaneous and visceral adipocyte atlases uncover classical and nonclassical adipocytes and depot-specific patterns
Explore
h5ad
Homo sapiens
Homo sapiens
Adipocyte of omentum tissue
Adipocyte of omentum tissue
Visceral fat
Visceral fat
34-year-old stage
+8
34-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Adipocyte of omentum tissue
Tissue
Visceral fat
Developmental stage
34-year-old stage
53-year-old stage
48-year-old stage
29-year-old stage
28-year-old stage
24-year-old stage
Adult stage
33-year-old stage
41-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Zenodo code
GSE281356
HCA
CELLxGENE
15,457 cells
•
Solé-Boldo et al., 2020
Single-cell transcriptomes of the human skin reveal age-related loss of fibroblast priming
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+9
T cell
Zone of skin
Zone of skin
69-year-old stage
+4
69-year-old stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Endothelial cell of lymphatic vessel
Erythrocyte
Stem cell of epidermis
Melanocyte
Endothelial cell of vascular tree
Macrophage
Skin fibroblast
Keratinocyte
Pericyte
Tissue
Zone of skin
Developmental stage
69-year-old stage
53-year-old stage
25-year-old stage
70-year-old stage
27-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
genome.ucsc.edu
explore.data.humancellatlas.org
cells.ucsc.edu
GSE130973
CELLxGENE
15,452 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+13
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
15,438 cells
•
Pelka et al., 2021
Spatially organized multicellular immune hubs in human colorectal cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial tip cell
+10
Endothelial tip cell
Colorectum
Colorectum
69-year-old stage
+34
69-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial tip cell
Endothelial cell of venule
Endothelial cell of lymphatic vessel
Colon endothelial cell
Endothelial cell of artery
Capillary endothelial cell
Schwann cell
Smooth muscle cell
Pericyte
Myofibroblast cell
Fibroblast
Tissue
Colorectum
Developmental stage
69-year-old stage
91-year-old stage
42-year-old stage
89-year-old stage
71-year-old stage
53-year-old stage
61-year-old stage
52-year-old stage
48-year-old stage
56-year-old stage
55-year-old stage
84-year-old stage
82-year-old stage
50-year-old stage
90-year-old stage
51-year-old stage
57-year-old stage
72-year-old stage
81-year-old stage
49-year-old stage
35-year-old stage
58-year-old stage
59-year-old stage
67-year-old stage
77-year-old stage
64-year-old stage
45-year-old stage
62-year-old stage
70-year-old stage
60-year-old stage
78-year-old stage
36-year-old stage
47-year-old stage
76-year-old stage
73-year-old stage
Disease
Normal
Colon adenocarcinoma
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
Broad Institute Single Cell Portal
CRC Immune Hubs
GSE178341
dbGAP
HCA
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