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Cell Type
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Tissue
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Developmental Stage
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Disease
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Sex
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Technology
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Cell
893
Nucleus
659
Data Source
0
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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
2,487 cells
•
Szabo et al., 2021
Longitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19
Explore
h5ad
Homo sapiens
Homo sapiens
B cell
+7
B cell
Respiratory airway
Respiratory airway
49-year-old stage
49-year-old stage
Covid-19
Covid-19
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
B cell
Neutrophil
Mature nk t cell
Erythrocyte
Ionocyte
Epithelial cell
Mast cell
Myeloid cell
Tissue
Respiratory airway
Developmental stage
49-year-old stage
Disease
Covid-19
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Mendeley Data Dataset:fm7v43jrbk/2
Github:simslab/cluster_diffex2018
COVID-19 cell atlas
CELLxGENE
2,477 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
+15
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
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
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
2,432 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Bladder urothelial cell
+1
Bladder urothelial cell
Bladder lumen
Bladder lumen
20-month-old stage and over
+2
20-month-old stage and over
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
Bladder urothelial cell
Bladder cell
Tissue
Bladder lumen
Developmental stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
CELLxGENE
2,410 cells
•
Chen et al., 2025
Determinants of sensitivity to HER2-targeted antibody drug conjugates in urothelial cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Neoplastic cell
Neoplastic cell
Urinary bladder
Urinary bladder
Adult stage
Adult stage
Urinary bladder cancer
Urinary bladder cancer
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neoplastic cell
Tissue
Urinary bladder
Developmental stage
Adult stage
Disease
Urinary bladder cancer
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
CELLxGENE
2,346 cells
•
Andrews et al., 2021
Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+4
Natural killer cell
Caudate lobe of liver
Caudate lobe of liver
Young adult stage
+1
Young adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
+1
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Gamma-delta t cell
Alpha-beta t cell
Mature b cell
Plasma cell
Tissue
Caudate lobe of liver
Developmental stage
Young adult stage
Prime adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Nucleus
Related Links
Github:tallulandrews/Liver_sc_sn_paper_scripts
GEO series:GSE185477
protocols.io:human-liver-caudate-lobe-dissociation-for-scrna-se-q26g77j1gwz1/v2
macparlandlab.shinyapps.io
HumanCellAtlas:8a666b76-daaf-4b1f-9414-e4807a1d1e8b
CELLxGENE
2,303 cells
•
Wiedemann et al., 2023
Differential cell composition and split epidermal differentiation in human palm, sole, and hip skin
Explore
h5ad
Homo sapiens
Homo sapiens
Skin fibroblast
Skin fibroblast
Dermis
+1
Dermis
56-year-old stage
+3
56-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Skin fibroblast
Tissue
Dermis
Skin of body
Developmental stage
56-year-old stage
39-year-old stage
65-year-old stage
40-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
skingenes.org
GEO series:GSE202352
HumanCellAtlas:da74b507-60ee-4dd1-bd02-807bb051a337
CELLxGENE
2,276 cells
•
Klughammer et al., 2024
A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+7
T cell
Breast
Breast
52-year-old stage
52-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Malignant cell
Mature nk t cell
Macrophage
Endothelial cell
Fibroblast
Plasma cell
Mast cell
Tissue
Breast
Developmental stage
52-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
humantumoratlas.org
dbGaP Study:phs002371
CELLxGENE
2,223 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Natural killer cell
+6
Natural killer cell
Brown adipose tissue
Brown adipose tissue
20-month-old stage and over
+2
20-month-old stage and over
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
Natural killer cell
T cell
B cell
Endothelial cell
Epithelial cell
Mesenchymal stem cell of adipose tissue
Myeloid cell
Tissue
Brown adipose tissue
Developmental stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
CELLxGENE
2,199 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmacytoid dendritic cell
+10
Plasmacytoid dendritic cell
Hindgut
+2
Hindgut
10th week post-fertilization stage
+11
10th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Natural killer cell
Dendritic cell
Precursor b cell
Leukocyte
B cell
Monocyte
Macrophage
Group 3 innate lymphoid cell
Naive t cell
Mast cell
Tissue
Hindgut
Colon
Ileum
Developmental stage
10th week post-fertilization stage
14th week post-fertilization stage
16th week post-fertilization stage
11th week post-fertilization stage
21st week post-fertilization stage
Carnegie stage 22
20th week post-fertilization stage
23rd week post-fertilization stage
19th week post-fertilization stage
13th week post-fertilization stage
18th week post-fertilization stage
17th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE158328
simmonslab.shinyapps.io
Mendeley Data Dataset:gncg57p5x9/2
dropbox.com
GEO series:GSE158702
HumanCellAtlas:fa3f460f-4fb9-4ced-b548-8ba6a8ecae3f
Single Cell Portal
2,151 cells
Explore
Mus musculus
Mus musculus
Oligodendrocyte
+3
Oligodendrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Oligodendrocyte
Astrocyte
Brain microvascular endothelial cell
Obsolete inhibitory neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD711) (section 121)
Corresponding registered brain section (MD711) (section 122)
Corresponding registered brain section (MD711) (section 123)
Corresponding registered brain section (MD711) (section 124)
Corresponding registered brain section (MD711) (section 125)
Corresponding registered brain section (MD711) (section 126)
CELLxGENE
2,126 cells
•
Muraro et al., 2016
A Single-Cell Transcriptome Atlas of the Human Pancreas
Explore
h5ad
Homo sapiens
Homo sapiens
Pancreatic d cell
+9
Pancreatic d cell
Pancreas
Pancreas
54-year-old stage
+3
54-year-old stage
Normal
Normal
Female
+1
Female
Cel-seq2
Cel-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Pancreatic d cell
Pancreatic endocrine cell
Pancreatic acinar cell
Type b pancreatic cell
Mesenchymal cell
Pancreatic epsilon cell
Endothelial cell
Pancreatic pp cell
Pancreatic ductal cell
Pancreatic a cell
Tissue
Pancreas
Developmental stage
54-year-old stage
59-year-old stage
48-year-old stage
23-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Cel-seq2
Suspension type
Cell
Related Links
GEO series:GSE85241
van Oudenaarden lab
HumanCellAtlas:894ae6ac-5b48-41a8-a72f-315a9b60a62e
CELLxGENE
2,113 cells
•
Henry et al., 2018
A Cellular Anatomy of the Normal Adult Human Prostate and Prostatic Urethra
Explore
h5ad
Homo sapiens
Homo sapiens
Smooth muscle cell of prostate
+1
Smooth muscle cell of prostate
Peripheral zone of prostate
+1
Peripheral zone of prostate
31-year-old stage
+1
31-year-old stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Smooth muscle cell of prostate
Fibroblast of connective tissue of prostate
Tissue
Peripheral zone of prostate
Transition zone of prostate
Developmental stage
31-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
DOI:10.25548/W-R8CM
UCSC Cell Browser:prostate-prostatic-urethra
strandlab.net
git.biohpc.swmed.edu
HumanCellAtlas:53c53cd4-8127-4e12-bc7f-8fe1610a715c
GEO series:GSE120716
GEO series:GSE117403
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