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890
Nucleus
655
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Asap
43
Bgee
40
Cellxgene
2,066
Single cell portal
179
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Most cells
Fewest cells
2328
datasets
CELLxGENE
59,572 cells
•
Lee et al., 2020
Immunophenotyping of COVID-19 and influenza highlights the role of type I interferons in development of severe COVID-19
Explore
h5ad
Homo sapiens
Homo sapiens
Classical monocyte
+13
Classical monocyte
Blood
Blood
82-year-old stage
+13
82-year-old stage
Normal
+2
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Classical monocyte
Platelet
Non-classical monocyte
Effector cd8-positive, alpha-beta t cell
Cd4-positive helper t cell
Blood cell
Igg-negative class switched memory b cell
Intermediate monocyte
Cd8-positive, alpha-beta t cell
Effector cd4-positive, alpha-beta t cell
Dendritic cell
Erythrocyte
Natural killer cell
Igg memory b cell
Tissue
Blood
Developmental stage
82-year-old stage
70-year-old stage
62-year-old stage
46-year-old stage
67-year-old stage
75-year-old stage
78-year-old stage
63-year-old stage
54-year-old stage
56-year-old stage
68-year-old stage
61-year-old stage
73-year-old stage
38-year-old stage
Disease
Normal
Influenza
Covid-19
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
HumanCellAtlas:95f07e6e-6a73-4e1b-a880-c83996b3aa5c
UCSC Cell Browser:covid19-influenza-response
GEO series:GSE149689
Single Cell Expression Atlas Experiment:E-GEOD-149689
CELLxGENE
59,506 cells
•
Ballestar et al., 2020
Single cell profiling of COVID-19 patients: an international data resource from multiple tissues
Explore
h5ad
Homo sapiens
Homo sapiens
Cd4-positive, alpha-beta t cell
+9
Cd4-positive, alpha-beta t cell
Blood
Blood
60-79 year-old stage
+2
60-79 year-old stage
Normal
+1
Normal
10x 5' v1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Cd4-positive, alpha-beta t cell
Platelet
Monocyte
Plasmablast
Alpha-beta t cell
B cell
Cd8-positive, alpha-beta t cell
Dendritic cell
Plasmacytoid dendritic cell
Natural killer cell
Tissue
Blood
Developmental stage
60-79 year-old stage
80 year-old and over stage
Adult stage
Disease
Normal
Covid-19
Sex
Technology
10x 5' v1
Suspension type
Cell
Related Links
dx.doi.org
DOI:10.17504/protocols.io.bjhnkj5e
protocols.io:cite-seq-for-pbmcs-8epv514qjl1b/v1
DOI:10.17504/protocols.io.bjj8kkrw
covid19cellatlas.org
Github:simslab/cluster_diffex2018
DOI:10.17504/protocols.io.bjm6kk9e
CELLxGENE
59,505 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+10
Astrocyte
Substantia nigra
Substantia nigra
50-year-old stage
+2
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Leukocyte
Vascular associated smooth muscle cell
Fibroblast
Ependymal cell
Pericyte
Endothelial cell
Neuron
Central nervous system macrophage
Tissue
Substantia nigra
Developmental stage
50-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
CELLxGENE
59,341 cells
•
Litviňuková et al., 2020
Cells of the adult human heart
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
Fibroblast
Interventricular septum
+5
Interventricular septum
Eighth decade stage
+3
Eighth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Tissue
Interventricular septum
Apex of heart
Heart left ventricle
Left cardiac atrium
Right cardiac atrium
Heart right ventricle
Developmental stage
Eighth decade stage
Fifth decade stage
Seventh decade stage
Sixth decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
UCSC Cell Browser:heart-cell-atlas
ENA Project:ERP123138
support.10xgenomics.com
HumanCellAtlas:ad98d3cd-26fb-4ee3-99c9-8a2ab085e737
Teichmann lab
Github:cartal/HCA_Heart
heartcellatlas.org
UCSC Genome Browser:hgTrackUi?db=hg38&g=heartCellAtlas&position=default
Single Cell Portal
59,286 cells
Explore
Homo sapiens
Homo sapiens
Cytotoxic t cell
+6
Cytotoxic t cell
Disease
+1
Disease
Seq-well
Seq-well
Organism
Homo sapiens
Cell type
Cytotoxic t cell
Monocyte
Plasmablast
B cell
Dendritic cell
T cell
Natural killer cell
Tissue
Developmental stage
Disease
Disease
Hiv infectious disease
Sex
Technology
Seq-well
Suspension type
CELLxGENE
59,217 cells
•
Reichart et al., 2022
Pathogenic variants damage cell composition and single cell transcription in cardiomyopathies
Explore
h5ad
Homo sapiens
Homo sapiens
Myeloid cell
Myeloid cell
Interventricular septum
+3
Interventricular septum
Fourth decade stage
+7
Fourth decade stage
Normal
+3
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Myeloid cell
Tissue
Interventricular septum
Apex of heart
Heart left ventricle
Heart right ventricle
Developmental stage
Fourth decade stage
Postnatal stage
Eighth decade stage
Fifth decade stage
Pediatric stage
Seventh decade stage
Third decade stage
Sixth decade stage
Disease
Normal
Dilated cardiomyopathy
Non-compaction cardiomyopathy
Arrhythmogenic right ventricular cardiomyopathy
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
Github:heiniglab/DCM_heart_cell_atlas
Zenodo record:6962685#.YuyuihxBzKE
EGA Study:EGAS00001006374
CELLxGENE
58,417 cells
•
Khouri-Farah et al., 2025
Gene expression patterns of the developing human face at single cell resolution reveal cell type contributions to normal facial variation and disease risk
Explore
h5ad
Homo sapiens
Homo sapiens
Osteoblast
+1
Osteoblast
Pharyngeal arch system
Pharyngeal arch system
Carnegie stage 14
+5
Carnegie stage 14
Normal
Normal
Female
+1
Female
10x multiome
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Osteoblast
Mesenchymal cell
Tissue
Pharyngeal arch system
Developmental stage
Carnegie stage 14
Carnegie stage 12
Carnegie stage 13
Carnegie stage 17
Carnegie stage 20
Carnegie stage 16
Disease
Normal
Sex
Female
Male
Technology
10x multiome
Suspension type
Nucleus
Related Links
DOI:10.5281/zenodo.14343226
Github:cotneylab/craniofacial_snrna
DOI:10.25550/8D-2JQ0
DOI:10.25550/7N-54BY
CELLxGENE
58,265 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Sst gabaergic interneuron
Sst gabaergic interneuron
Middle temporal gyrus
Middle temporal gyrus
80-year-old stage
+23
80-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Sst gabaergic interneuron
Tissue
Middle temporal gyrus
Developmental stage
80-year-old stage
85-year-old stage
82-year-old stage
70-year-old stage
77-year-old stage
50-year-old stage
86-year-old stage
60-year-old stage
80 year-old and over stage
89-year-old stage
65-year-old stage
75-year-old stage
Adult stage
78-year-old stage
68-year-old stage
72-year-old stage
88-year-old stage
84-year-old stage
69-year-old stage
43-year-old stage
29-year-old stage
87-year-old stage
81-year-old stage
83-year-old stage
Disease
Normal
Dementia
Sex
Female
Male
Technology
10x 3' v3
10x multiome
Suspension type
Nucleus
Related Links
Alzheimer's Disease Research Center
Adult Changes in Thought Study
BRaIN-lab
Allen Brain Map:seattle-alzheimers-disease
AWS Open Data:allen-sea-ad-atlas
AD knowledge portal:syn26223298
CELLxGENE
58,096 cells
•
Krienen et al., 2023
A marmoset brain cell census reveals regional specialization of cellular identities
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Medium spiny neuron
Medium spiny neuron
Putamen
+2
Putamen
Prime adult stage
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Medium spiny neuron
Tissue
Putamen
Caudate nucleus
Nucleus accumbens
Developmental stage
Prime adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
submit.brainimagelibrary.org
NeMo archive:dat-1je0mn3
Single Cell Portal
58,090 cells
Explore
Rattus norvegicus
Rattus norvegicus
Oligodendrocyte
+10
Oligodendrocyte
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Rattus norvegicus
Cell type
Oligodendrocyte
Leukocyte
Mesothelial cell
Erythroid lineage cell
Adipocyte
Monocyte
Endothelial cell
B cell
T cell
Mesenchymal stem cell of adipose tissue
Smooth muscle cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Related Links
GEO series:GSE244451
Github:naultran/BAT_taPVAT_snRNAseq
CELLxGENE
58,054 cells
•
Maatz et al., 2025
The cellular and molecular cardiac tissue responses in human inflammatory cardiomyopathies after SARS-CoV-2 infection and COVID-19 vaccination
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac endothelial cell
+2
Cardiac endothelial cell
Apex of heart
+1
Apex of heart
19-year-old stage
+22
19-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Cardiac endothelial cell
Pericyte
Smooth muscle cell
Tissue
Apex of heart
Heart left ventricle
Developmental stage
19-year-old stage
70-year-old stage
21-year-old stage
32-year-old stage
52-year-old stage
64-year-old stage
25-year-old stage
Eighth decade stage
27-year-old stage
28-year-old stage
Fifth decade stage
31-year-old stage
61-year-old stage
49-year-old stage
30-year-old stage
24-year-old stage
Seventh decade stage
26-year-old stage
Third decade stage
29-year-old stage
38-year-old stage
55-year-old stage
Sixth decade stage
Disease
Normal
Myocarditis
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
ENA Project:PRJEB39602
EGA dataset:EGAD00001009292
DOI:10.1126/science.abo1984
DOI:10.1038/s41586-020-2797-4
EGA Study:EGAS50000000769
CELLxGENE
57,918 cells
•
Watanabe et al., 2022
Anomalous Epithelial Variations and Ectopic Inflammatory Response in Chronic Obstructive Pulmonary Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Pulmonary alveolar type 1 cell
+20
Pulmonary alveolar type 1 cell
Lung parenchyma
Lung parenchyma
79-year-old stage
+14
79-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Pulmonary alveolar type 1 cell
Capillary endothelial cell
Endothelial cell of lymphatic vessel
Cd4-positive, alpha-beta t cell
Pulmonary alveolar type 2 cell
Club cell
Leukocyte
Macrophage
Mast cell
Neutrophil
Monocyte
Lung multiciliated epithelial cell
Vein endothelial cell
Conventional dendritic cell
Fibroblast
Endothelial cell
B cell
Cd8-positive, alpha-beta t cell
Plasma cell
Smooth muscle cell
Natural killer cell
Tissue
Lung parenchyma
Developmental stage
79-year-old stage
77-year-old stage
76-year-old stage
62-year-old stage
64-year-old stage
33-year-old stage
65-year-old stage
67-year-old stage
71-year-old stage
56-year-old stage
58-year-old stage
61-year-old stage
51-year-old stage
72-year-old stage
81-year-old stage
Disease
Normal
Chronic obstructive pulmonary disease
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE173896
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