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Cell Type
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Tissue
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Disease
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Technology
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Cell
893
Nucleus
659
Data Source
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
Bgee
15,668 cells
•
Li et al., 2021
Single-cell transcriptomics identifies limbal stem cell population and cell types mapping its differentiation trajectory in limbal basal epithelium of human cornea
Explore
scRNA-Seq droplet-based processed expression values per cell population in Homo sapiens (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Homo sapiens (h5ad)
Homo sapiens
Homo sapiens
Progenitor cell
+4
Progenitor cell
Corneo-scleral junction
Corneo-scleral junction
Third decade stage
Third decade stage
Normal
Normal
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Progenitor cell
Transit amplifying cell
Stem cell
Obsolete non-terminally differentiated cell
Corneal epithelial cell
Tissue
Corneo-scleral junction
Developmental stage
Third decade stage
Disease
Normal
Sex
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP269263
Single Cell Portal
15,620 cells
Explore
Mus musculus
Mus musculus
Neuron associated cell
+4
Neuron associated cell
Normal
Normal
Mixed sex
Mixed sex
10x 3' v2
+1
10x 3' v2
Organism
Mus musculus
Cell type
Neuron associated cell
Mesenchymal cell
Endothelial cell
Hematopoietic cell
Epithelial cell
Tissue
Developmental stage
Disease
Normal
Sex
Mixed sex
Technology
10x 3' v2
10x 3' v1
Suspension type
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 gray matter
+1
Brain gray 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 gray matter
Brain white matter
Developmental stage
20-month-old stage and over
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
www-ncbi-nlm-nih-gov.stanford.idm.oclc.org
Github:ISD-SystemsNeuroscience/Aging_Oligos_Microglia
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
Kidney loop of henle thick ascending limb epithelial cell
+13
Kidney loop of henle thick ascending limb epithelial cell
Kidney
Kidney
13-week-old stage
13-week-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney interstitial fibroblast
Leukocyte
Kidney proximal convoluted tubule epithelial cell
Macula densa epithelial cell
Podocyte
Kidney collecting duct principal cell
Macrophage
Blood vessel smooth muscle cell
Endothelial cell
Kidney collecting duct intercalated cell
Mesangial cell
Kidney granular cell
Kidney distal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
13-week-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
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
Spinal cord interneuron
+12
Spinal cord interneuron
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Spinal cord interneuron
Paraxial cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
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
Plasmacytoid dendritic cell
+34
Plasmacytoid dendritic 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
Plasmacytoid dendritic cell
Natural killer cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Erythroid lineage cell
Precursor b cell
Late promyelocyte
Effector memory cd8-positive, alpha-beta t cell
Erythroid progenitor cell
Cd4-positive, alpha-beta memory t cell
Non-classical monocyte
Naive b cell
Memory b cell
Gamma-delta t cell
Conventional dendritic cell
Central memory cd8-positive, alpha-beta t cell
Classical monocyte
Cd4-positive, alpha-beta cytotoxic t cell
Pro-b cell
Mesenchymal cell
Naive thymus-derived cd8-positive, alpha-beta t cell
Lymphoid lineage restricted progenitor cell
Immature b cell
Class switched memory b cell
Common dendritic progenitor
Unswitched memory b cell
Basophil mast progenitor cell
Cd16-negative, cd56-bright natural killer cell, human
Early promyelocyte
Hematopoietic multipotent progenitor cell
Megakaryocyte-erythroid progenitor cell
Plasma cell
Cd8-positive, alpha-beta memory t cell
Megakaryocyte progenitor cell
Myelocyte
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Blood
Bone marrow
Developmental stage
41-year-old stage
Disease
Normal
Sex
Male
Technology
Bd rhapsody targeted mrna
Suspension type
Cell
Related Links
EMBL GitLab:triana/nrn
figshare.com
figshare.com
abseqapp.shiny.embl.de
EGA Study:EGAS00001005593
CELLxGENE
15,481 cells
•
Guilliams et al., 2022
Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+7
Hepatocyte
Liver
Liver
66-year-old stage
+13
66-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
+1
Cell
Organism
Homo sapiens
Cell type
Hepatocyte
Hepatic stellate cell
Endothelial cell of hepatic sinusoid
Cholangiocyte
Endothelial cell of periportal hepatic sinusoid
Endothelial cell of pericentral hepatic sinusoid
Vascular associated smooth muscle cell
Fibroblast
Tissue
Liver
Developmental stage
66-year-old stage
49-year-old stage
64-year-old stage
46-year-old stage
68-year-old stage
55-year-old stage
28-year-old stage
33-year-old stage
75-year-old stage
77-year-old stage
Adult stage
72-year-old stage
67-year-old stage
58-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Nucleus
Related Links
GEO series:GSE192742
livercellatlas.org
HumanCellAtlas:425c2759-db66-4c93-a358-a562c069b1f1
ASAP
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
Adult malpighian tubule stellate cell of main segment
+20
Adult malpighian tubule stellate cell of main segment
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
Adult malpighian tubule stellate cell of main segment
Male germline cell
Tracheolar cell
Muscle cell
Adult malpighian tubule bar-shaped cell of initial segment
Fat cell
Epithelial cell
Adult malpighian tubule principal cell
Hemocyte
Adult oenocyte
Oenocyte
Adult malpighian tubule principal cell of lower segment
Stem cell
Somatic precursor cell
Adult renal stem cell
Adult malpighian tubule principal cell of initial segment
Adult malpighian tubule principal cell of main segment
Adult malpighian tubule principal cell of transitional segment
Adult malpighian tubule principal cell of lower ureter
Visceral muscle cell
Adult tracheocyte
Tissue
Malpighian tubule
Developmental stage
Day 5 of adulthood
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10519
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
24-year-old stage
28-year-old stage
33-year-old stage
48-year-old stage
Adult stage
53-year-old stage
29-year-old stage
41-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
DOI:10.5281/zenodo.14001210
GEO series:GSE281356
HumanCellAtlas:df8eb7ce-3707-46af-b823-e081a562e954
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
Melanocyte
+9
Melanocyte
Zone of skin
Zone of skin
25-year-old stage
+4
25-year-old stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Melanocyte
T cell
Pericyte
Endothelial cell of lymphatic vessel
Stem cell of epidermis
Macrophage
Endothelial cell of vascular tree
Erythrocyte
Keratinocyte
Skin fibroblast
Tissue
Zone of skin
Developmental stage
25-year-old stage
27-year-old stage
53-year-old stage
69-year-old stage
70-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
HumanCellAtlas:51f02950-ee25-4f4b-8d07-59aa99bb3498
UCSC Cell Browser:aging-human-skin
GEO series:GSE130973
UCSC Genome Browser:hgTrackUi?db=hg38&g=skinSoleBoldo&position=default
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
Notochordal cell
+13
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
CELLxGENE
15,438 cells
•
Pelka et al., 2021
Spatially organized multicellular immune hubs in human colorectal cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Schwann cell
+10
Schwann cell
Colorectum
Colorectum
62-year-old stage
+34
62-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Schwann cell
Colon endothelial cell
Endothelial cell of artery
Pericyte
Endothelial cell of lymphatic vessel
Smooth muscle cell
Myofibroblast cell
Endothelial tip cell
Capillary endothelial cell
Fibroblast
Endothelial cell of venule
Tissue
Colorectum
Developmental stage
62-year-old stage
49-year-old stage
42-year-old stage
59-year-old stage
64-year-old stage
91-year-old stage
56-year-old stage
55-year-old stage
82-year-old stage
57-year-old stage
60-year-old stage
35-year-old stage
77-year-old stage
76-year-old stage
61-year-old stage
48-year-old stage
36-year-old stage
89-year-old stage
78-year-old stage
72-year-old stage
67-year-old stage
47-year-old stage
81-year-old stage
52-year-old stage
58-year-old stage
84-year-old stage
90-year-old stage
50-year-old stage
45-year-old stage
53-year-old stage
69-year-old stage
73-year-old stage
51-year-old stage
70-year-old stage
71-year-old stage
Disease
Normal
Colon adenocarcinoma
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
BroadInstitute Single-Cell Portal:SCP1162/human-colon-cancer-atlas-c295#study-visualize
broad.io
GEO series:GSE178341
dbGaP Study:phs002407
HumanCellAtlas:6f03e4ad-9305-4bfa-a5b6-929ffb1d94bd
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