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871
Nucleus
653
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Asap
43
Bgee
40
Cellxgene
2,045
Single cell portal
176
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Most cells
Fewest cells
2304
datasets
CELLxGENE
44,721 cells
•
Wilk et al., 2020
A single-cell atlas of the peripheral immune response in patients with severe COVID-19
Explore
h5ad
Homo sapiens
Homo sapiens
Class switched memory b cell
+18
Class switched memory b cell
Blood
Blood
80 year-old and over stage
+9
80 year-old and over stage
Covid-19
+1
Covid-19
Female
+1
Female
Seq-well
Seq-well
Cell
Cell
Organism
Homo sapiens
Cell type
Class switched memory b cell
Iga plasmablast
Granulocyte
Cd14-positive monocyte
Naive t cell
Neutrophil
Cd4-positive, alpha-beta memory t cell
B cell
Gamma-delta t cell
Plasmacytoid dendritic cell
Igg plasmablast
Effector cd8-positive, alpha-beta t cell
Natural killer cell
Platelet
Erythrocyte
Conventional dendritic cell
Monocyte
Cd8-positive, alpha-beta memory t cell
Cd4-positive, alpha-beta t cell
Tissue
Blood
Developmental stage
80 year-old and over stage
Third decade stage
Sixth decade stage
49-year-old stage
36-year-old stage
Fourth decade stage
48-year-old stage
Fifth decade stage
37-year-old stage
Seventh decade stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
Seq-well
Suspension type
Cell
Related Links
med.stanford.edu
GEO series:GSE150728
Single Cell Expression Atlas Experiment:E-GEOD-150728
Github:ajwilk/2020_Wilk_COVID
UCSC Cell Browser:covid19-periph-immuno
ASAP
44,621 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Spermatogonium
+10
Spermatogonium
Testis
Testis
Day 1 of adulthood
Day 1 of adulthood
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Spermatogonium
Early-mid elongation-stage spermatid
Spermatocyte
Hemocyte
Neuron
Mid-late elongation-stage spermatid
Spermatid
Pigment cell
Terminal epithelial cell of testis
Early elongation stage spermatid
Muscle cell
Tissue
Testis
Developmental stage
Day 1 of adulthood
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10519
CELLxGENE
44,588 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Homo sapiens
Homo sapiens
Kidney loop of henle thin descending limb epithelial cell
+13
Kidney loop of henle thin descending limb epithelial cell
Renal medulla
Renal medulla
62-year-old stage
62-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Kidney loop of henle thin descending limb epithelial cell
Kidney loop of henle thick ascending limb epithelial cell
Kidney proximal convoluted tubule epithelial cell
Podocyte
Kidney connecting tubule epithelial cell
Pericyte
Kidney interstitial fibroblast
Leukocyte
Kidney distal convoluted tubule epithelial cell
Mesangial cell
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Kidney collecting duct principal cell
Endothelial cell
Tissue
Renal medulla
Developmental stage
62-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
GEO series:GSE190094
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
CELLxGENE
44,352 cells
•
Qiu et al., 2024
A single-cell time-lapse of mouse prenatal development from gastrula to birth
Explore
h5ad
Mus musculus
Mus musculus
B cell
B cell
Embryo
Embryo
Theiler stage 26
+9
Theiler stage 26
Normal
Normal
Female
+1
Female
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
B cell
Tissue
Embryo
Developmental stage
Theiler stage 26
Theiler stage 24
Theiler stage 15
Theiler stage 23
Theiler stage 20
Theiler stage 22
Theiler stage 21
Theiler stage 25
Theiler stage 27
Theiler stage 19
Disease
Normal
Sex
Female
Male
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
GEO series:GSE186069
Ontogeny of Mouse, Graphed
GEO series:GSE228590
CELLxGENE
43,857 cells
•
Cowan et al., 2020
Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Off-bipolar cell
+9
Off-bipolar cell
Retina
Retina
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Off-bipolar cell
Retinal rod cell
Astrocyte
Amacrine cell
Retina horizontal cell
Retinal pigment epithelial cell
Rod bipolar cell
Retinal cone cell
On-bipolar cell
Mueller cell
Tissue
Retina
Developmental stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
EGA Study:EGAS00001004561
DOI:10.17632/sm67hr5bpm.1
HumanCellAtlas:1dddae6e-3753-48af-b20e-fa22abad125d
CELLxGENE
43,823 cells
•
Li et al., 2024
Comprehensive single-cell atlas of the mouse retina
Explore
h5ad
Mus musculus
Mus musculus
Gabaergic amacrine cell
+2
Gabaergic amacrine cell
Retina
Retina
12-week-old stage
+8
12-week-old stage
Normal
Normal
Male
Male
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Gabaergic amacrine cell
Amacrine cell
Glycinergic amacrine cell
Tissue
Retina
Developmental stage
12-week-old stage
11-week-old stage
8-week-old stage
5-week-old stage
7-week-old stage
9-week-old stage
4-month-old stage
2-week-old stage
25-week-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE243413
Single Cell Portal
43,823 cells
•
Li et al., 2024
Comprehensive single-cell atlas of the mouse retina
Explore
Mus musculus
Mus musculus
Gabaergic amacrine cell
+2
Gabaergic amacrine cell
Normal
Normal
10x 3' v3
+1
10x 3' v3
Organism
Mus musculus
Cell type
Gabaergic amacrine cell
Amacrine cell
Glycinergic amacrine cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
10x 3' v2
Suspension type
Related Links
DOI:10.1101/2024.01.24.577060
CELLxGENE
43,512 cells
•
Jin et al., 2021
An interactive single cell web portal identifies gene and cell networks in COVID-19 host responses
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmablast
+23
Plasmablast
Blood
Blood
54-year-old stage
+8
54-year-old stage
Covid-19
+1
Covid-19
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmablast
Mucosal invariant t cell
Effector memory cd8-positive, alpha-beta t cell
Cd4-positive, alpha-beta cytotoxic t cell
Central memory cd4-positive, alpha-beta t cell
Neutrophil
Memory b cell
Immature neutrophil
Gamma-delta t cell
Regulatory t cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Naive thymus-derived cd8-positive, alpha-beta t cell
Hematopoietic stem cell
Non-classical monocyte
Plasmacytoid dendritic cell, human
Lymphocyte
Cd16-negative, cd56-bright natural killer cell, human
Natural killer cell
Platelet
Erythrocyte
Conventional dendritic cell
Classical monocyte
Naive b cell
Transitional stage b cell
Tissue
Blood
Developmental stage
54-year-old stage
62-year-old stage
73-year-old stage
61-year-old stage
82-year-old stage
38-year-old stage
63-year-old stage
46-year-old stage
67-year-old stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
cincinnatichildrens.org
toppcell.cchmc.org
CELLxGENE
43,485 cells
•
Rayon et al., 2021
Single-cell transcriptome profiling of the human developing spinal cord reveals a conserved genetic programme with human-specific features
Explore
h5ad
Homo sapiens
Homo sapiens
Neural progenitor cell
+8
Neural progenitor cell
Neural tube
Neural tube
Carnegie stage 19
+3
Carnegie stage 19
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neural progenitor cell
Peripheral nervous system neuron
Oligodendrocyte
Blood cell
Sensory neuron
Mesodermal cell
Myoblast
Neuron
Neural crest cell
Tissue
Neural tube
Developmental stage
Carnegie stage 19
Carnegie stage 12
Carnegie stage 14
Carnegie stage 17
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE171892
ASAP
43,454 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Hemocyte
Hemocyte
Testis
Testis
Day 1 of adulthood
Day 1 of adulthood
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Hemocyte
Tissue
Testis
Developmental stage
Day 1 of adulthood
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10519
CELLxGENE
43,177 cells
•
Chiou et al., 2023
A single-cell multi-omic atlas spanning the adult rhesus macaque brain
Explore
h5ad
Macaca mulatta
Macaca mulatta
Basket cell
Basket cell
Primary motor cortex
+26
Primary motor cortex
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Macaca mulatta
Cell type
Basket cell
Tissue
Primary motor cortex
Perirhinal cortex
Inferior temporal gyrus
Midbrain
Cerebrocerebellum
Primary visual cortex
Nucleus accumbens
Dorsolateral prefrontal cortex
Primary somatosensory cortex
Medial dorsal nucleus of thalamus
Lateral geniculate body
Ventral lateral nucleus of thalamus
Amygdala
Brodmann (1909) area 19
Inferior parietal cortex
Primary auditory cortex
Cerebellar vermis
Pons
Entorhinal cortex
Hippocampal formation
Anterior cingulate cortex
Prefrontal cortex
Superior parietal cortex
Superior temporal sulcus
Corpus callosum
Medulla oblongata
Head of caudate nucleus
Developmental stage
Prime adult stage
Juvenile stage
Disease
Normal
Sex
Female
Male
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
DOI:10.17504/protocols.io.9yih7ue
NeMo archive:dat-rtmm5q2
Zenodo record:7925943
Zenodo record:7925933
Zenodo record:7925925
CELLxGENE
42,921 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Lamp5 gabaergic interneuron
Lamp5 gabaergic interneuron
Middle temporal gyrus
Middle temporal gyrus
Adult stage
+23
Adult stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Lamp5 gabaergic interneuron
Tissue
Middle temporal gyrus
Developmental stage
Adult stage
78-year-old stage
80 year-old and over stage
72-year-old stage
83-year-old stage
85-year-old stage
81-year-old stage
82-year-old stage
86-year-old stage
70-year-old stage
75-year-old stage
50-year-old stage
89-year-old stage
68-year-old stage
29-year-old stage
77-year-old stage
69-year-old stage
88-year-old stage
87-year-old stage
60-year-old stage
80-year-old stage
84-year-old stage
43-year-old stage
65-year-old stage
Disease
Dementia
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
Adult Changes in Thought Study
BRaIN-lab
Allen Brain Map:seattle-alzheimers-disease
AWS Open Data:allen-sea-ad-atlas
Alzheimer's Disease Research Center
AD knowledge portal:syn26223298
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