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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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Fewest cells
2328
datasets
CELLxGENE
45,118 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Neuron
Neuron
Inferior frontal gyrus
+78
Inferior frontal gyrus
50-year-old stage
+3
50-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Neuron
Tissue
Inferior frontal gyrus
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Posterior parahippocampal gyrus
Anterior olfactory nucleus
Brodmann (1909) area 38
Pretectal region
Subicular complex
Gray matter of midbrain
Brodmann (1909) area 14
Brodmann (1909) area 19
Inferior temporal gyrus
Hypothalamus
Brodmann (1909) area 32
Dentate gyrus of hippocampal formation
Lateral geniculate body
Bed nucleus of stria terminalis
Median tuberal portion
Brodmann (1909) area 13
Primary somatosensory cortex
Medial geniculate body
Preoptic area
Substantia innominata
Perirhinal cortex
Body of caudate nucleus
Extrastriate cortex
Lateral nuclear group of thalamus
Dorsal tegmental nucleus
Brodmann (1909) area 23
Centromedian nucleus of thalamus
Epithalamus
Substantia nigra
Central amygdaloid nucleus
Rostral ca3
Granular insular cortex
Agranular insular cortex
Globus pallidus
Basolateral amygdaloid nuclear complex
Ventral anterior nucleus of thalamus
Nucleus of dorsal thalamus
Anterior cortical amygdaloid nucleus
Anterior nuclear group
Brodmann (1909) area 43
Primary auditory cortex
Medial entorhinal cortex
Red nucleus
Corticomedial nuclear complex
Lateral posterior nucleus of thalamus
Brodmann (1909) area 46
Nucleus of medulla oblongata
Supraoptic nucleus
Uncal ca1
Temporal fusiform gyrus
Lateral entorhinal cortex
Brodmann (1909) area 25
Primary motor cortex
Pulvinar nucleus
Pontine tegmentum
Primary visual cortex
Subthalamic nucleus
Superior parietal cortex
Hippocampal field
Piriform cortex
Lateral amygdaloid nucleus
Brodmann (1909) area 40
Claustrum of brain
Midbrain tectum
Mammillary body
Pontine nuclear group
Medial dorsal nucleus of thalamus
Retrosplenial region
Nucleus accumbens
Medial zone of hypothalamus
Intralaminar nuclear group
Accessory basal amygdaloid nucleus
Superior temporal gyrus
Septal nuclear complex
Cuneus cortex
Developmental stage
50-year-old stage
60-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
Single Cell Portal
45,100 cells
•
Ordovas-Montanes et al., 2018
Allergic inflammatory memory in human respiratory epithelial progenitor cells
Explore
Homo sapiens
Homo sapiens
Macrophage
+13
Macrophage
Chronic rhinitis
+1
Chronic rhinitis
Seq-well
Seq-well
Organism
Homo sapiens
Cell type
Macrophage
Glandular secretory epithelial cell
Mast cell
Basal cell of olfactory epithelium
Neutrophil
Fibroblast
Endothelial cell
Plasma cell
T cell
Secretory cell
Eosinophil
Ciliated cell
Myeloid cell
Goblet cell
Tissue
Developmental stage
Disease
Chronic rhinitis
Normal
Sex
Technology
Seq-well
Suspension type
Related Links
cellxgene.cziscience.com
cellxgene.cziscience.com
cellxgene.cziscience.com
cellxgene.cziscience.com
cell.com
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
Cd4-positive, alpha-beta memory t cell
+18
Cd4-positive, alpha-beta memory t cell
Blood
Blood
Fourth decade stage
+9
Fourth decade stage
Normal
+1
Normal
Female
+1
Female
Seq-well
Seq-well
Cell
Cell
Organism
Homo sapiens
Cell type
Cd4-positive, alpha-beta memory t cell
Cd4-positive, alpha-beta t cell
Class switched memory b cell
Platelet
Effector cd8-positive, alpha-beta t cell
Naive t cell
Neutrophil
Monocyte
Cd14-positive monocyte
Granulocyte
Cd8-positive, alpha-beta memory t cell
Conventional dendritic cell
B cell
Igg plasmablast
Erythrocyte
Plasmacytoid dendritic cell
Iga plasmablast
Natural killer cell
Gamma-delta t cell
Tissue
Blood
Developmental stage
Fourth decade stage
80 year-old and over stage
48-year-old stage
37-year-old stage
36-year-old stage
Fifth decade stage
49-year-old stage
Seventh decade stage
Third decade stage
Sixth decade stage
Disease
Normal
Covid-19
Sex
Female
Male
Technology
Seq-well
Suspension type
Cell
Related Links
Github:ajwilk/2020_Wilk_COVID
med.stanford.edu
Single Cell Expression Atlas Experiment:E-GEOD-150728
UCSC Cell Browser:covid19-periph-immuno
GEO series:GSE150728
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
Early elongation stage spermatid
+10
Early elongation stage spermatid
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
Early elongation stage spermatid
Muscle cell
Terminal epithelial cell of testis
Early-mid elongation-stage spermatid
Spermatocyte
Spermatid
Pigment cell
Spermatogonium
Neuron
Hemocyte
Mid-late elongation-stage spermatid
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 thick ascending limb epithelial cell
+13
Kidney loop of henle thick ascending 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 thick ascending limb epithelial cell
Kidney connecting tubule epithelial cell
Leukocyte
Kidney distal convoluted tubule epithelial cell
Kidney interstitial fibroblast
Kidney collecting duct principal cell
Kidney loop of henle thin descending limb epithelial cell
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Podocyte
Pericyte
Endothelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial 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 23
+9
Theiler stage 23
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 23
Theiler stage 24
Theiler stage 21
Theiler stage 25
Theiler stage 26
Theiler stage 20
Theiler stage 19
Theiler stage 27
Theiler stage 15
Theiler stage 22
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
Retinal rod cell
+9
Retinal rod cell
Retina
Retina
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Retinal rod cell
Astrocyte
Retinal cone cell
Off-bipolar cell
On-bipolar cell
Mueller cell
Amacrine cell
Retinal pigment epithelial cell
Retina horizontal cell
Rod bipolar 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
4-month-old stage
7-week-old stage
5-week-old stage
25-week-old stage
2-week-old stage
9-week-old stage
8-week-old stage
11-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
Naive b cell
+23
Naive b cell
Blood
Blood
82-year-old stage
+8
82-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Naive b cell
Classical monocyte
Platelet
Non-classical monocyte
Lymphocyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Mucosal invariant t cell
Transitional stage b cell
Cd16-negative, cd56-bright natural killer cell, human
Neutrophil
Plasmablast
Conventional dendritic cell
Naive thymus-derived cd8-positive, alpha-beta t cell
Central memory cd4-positive, alpha-beta t cell
Effector memory cd8-positive, alpha-beta t cell
Hematopoietic stem cell
Cd4-positive, alpha-beta cytotoxic t cell
Plasmacytoid dendritic cell, human
Erythrocyte
Regulatory t cell
Memory b cell
Natural killer cell
Gamma-delta t cell
Immature neutrophil
Tissue
Blood
Developmental stage
82-year-old stage
62-year-old stage
46-year-old stage
67-year-old stage
63-year-old stage
54-year-old stage
61-year-old stage
73-year-old stage
38-year-old stage
Disease
Normal
Covid-19
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
Oligodendrocyte
+8
Oligodendrocyte
Neural tube
Neural tube
Carnegie stage 14
+3
Carnegie stage 14
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Oligodendrocyte
Sensory neuron
Neural crest cell
Mesodermal cell
Blood cell
Myoblast
Neural progenitor cell
Peripheral nervous system neuron
Neuron
Tissue
Neural tube
Developmental stage
Carnegie stage 14
Carnegie stage 12
Carnegie stage 19
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
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