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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
CELLxGENE
4,335 cells
•
Voigt et al., 2019
Single-cell transcriptomics of the human retinal pigment epithelium and choroid in health and macular degeneration
Explore
h5ad
Homo sapiens
Homo sapiens
Schwann cell
+9
Schwann cell
Fovea centralis
+1
Fovea centralis
54-year-old stage
+2
54-year-old stage
Cataract
+2
Cataract
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Schwann cell
Melanocyte
B cell
Pericyte
Retinal pigment epithelial cell
Mature nk t cell
Macrophage
Endothelial cell
Fibroblast
Mast cell
Tissue
Fovea centralis
Peripheral region of retina
Developmental stage
54-year-old stage
82-year-old stage
79-year-old stage
Disease
Cataract
Basal laminar drusen
Age related macular degeneration 7
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
UCSC Cell Browser:retinal-pigment-epi
GEO series:GSE135922
Single Cell Expression Atlas Experiment:E-GEOD-135922
HumanCellAtlas:7880637a-35a1-4047-b422-b5eac2a2a358
CELLxGENE
4,333 cells
•
Guilliams et al., 2022
Spatial proteogenomics reveals distinct and evolutionarily conserved hepatic macrophage niches
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmacytoid dendritic cell
+16
Plasmacytoid dendritic cell
Liver
Liver
59-year-old stage
+2
59-year-old stage
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Hepatocyte
Hepatic stellate cell
Cholangiocyte
B cell
Non-classical monocyte
Conventional dendritic cell
Neutrophil
Kupffer cell
Endothelial cell of periportal hepatic sinusoid
Macrophage
Erythrocyte
Endothelial cell of pericentral hepatic sinusoid
Vascular associated smooth muscle cell
Basophil
Fibroblast
Plasma cell
Tissue
Liver
Developmental stage
59-year-old stage
68-year-old stage
58-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
GEO series:GSE192742
livercellatlas.org
HumanCellAtlas:425c2759-db66-4c93-a358-a562c069b1f1
CELLxGENE
4,329 cells
•
Wang et al., 2019
Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine
Explore
h5ad
Homo sapiens
Homo sapiens
Colon goblet cell
+6
Colon goblet cell
Ascending colon
Ascending colon
54-year-old stage
+1
54-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Colon goblet cell
Progenitor cell
Colonocyte
Stem cell
Transit amplifying cell of colon
Enteroendocrine cell of colon
Paneth cell of colon
Tissue
Ascending colon
Developmental stage
54-year-old stage
67-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
UCSC Cell Browser:human-intestine
GEO series:GSE125970
Single Cell Expression Atlas Experiment:E-GEOD-125970
CELLxGENE
4,328 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Vascular leptomeningeal cell
Vascular leptomeningeal cell
Middle temporal gyrus
Middle temporal gyrus
68-year-old stage
+21
68-year-old stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Vascular leptomeningeal cell
Tissue
Middle temporal gyrus
Developmental stage
68-year-old stage
88-year-old stage
86-year-old stage
82-year-old stage
83-year-old stage
75-year-old stage
80-year-old stage
77-year-old stage
Adult stage
89-year-old stage
78-year-old stage
72-year-old stage
80 year-old and over stage
81-year-old stage
87-year-old stage
84-year-old stage
65-year-old stage
85-year-old stage
50-year-old stage
29-year-old stage
69-year-old stage
70-year-old stage
Disease
Dementia
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
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
4,289 cells
•
Bakken et al., 2021
Comparative cellular analysis of motor cortex in human, marmoset and mouse
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Oligodendrocyte
+6
Oligodendrocyte
Primary motor cortex
Primary motor cortex
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Oligodendrocyte
Astrocyte
Microglial cell
Oligodendrocyte precursor cell
Leptomeningeal cell
Pericyte
Endothelial cell
Tissue
Primary motor cortex
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
nemoanalytics.org
protocols.io:isolation-of-nuclei-from-adult-human-brain-tissue-eq2lyd1nqlx9/v2
Github:broadinstitute/Drop-seq
viewer.cytosplore.org
nemoanalytics.org
Github:AllenInstitute/BICCN_M1_Evo
Github:AllenInstitute/scrattch.hicat
NeMo archive:dat-ek5dbmu
protocols.io:extraction-of-nuclei-from-brain-tissue-2srged6
protocols.io:isolation-of-nuclei-from-adult-human-brain-tissue-j8nlk56k1l5r/v1
protocols.io:human-tissue-slicing-and-dissections-for-nuclear-i-dm6gpre85vzp
protocols.io:preparation-of-frozen-nuclei-for-single-nucleus-rn-eq2lyrdpgx9k/v1
CELLxGENE
4,232 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
+4
B cell
Blood
Blood
82-year-old stage
82-year-old stage
Covid-19
Covid-19
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
B cell
Platelet
Mature nk t cell
Plasma cell
Myeloid cell
Tissue
Blood
Developmental stage
82-year-old stage
Disease
Covid-19
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
Mendeley Data Dataset:fm7v43jrbk/2
Github:simslab/cluster_diffex2018
COVID-19 cell atlas
CELLxGENE
4,211 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Interstitial cell of cajal
+3
Interstitial cell of cajal
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
Interstitial cell of cajal
Enteric smooth muscle cell
Smooth muscle cell of large intestine
Smooth muscle cell of small intestine
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
simmonslab.shinyapps.io
Mendeley Data Dataset:gncg57p5x9/2
dropbox.com
GEO series:GSE158702
GEO series:GSE158328
HumanCellAtlas:fa3f460f-4fb9-4ced-b548-8ba6a8ecae3f
CELLxGENE
4,166 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
+9
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
Gut endothelial cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
GEO series:GSE197353
CELLxGENE
4,163 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Pericyte
Pericyte
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
Pericyte
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
simmonslab.shinyapps.io
Mendeley Data Dataset:gncg57p5x9/2
dropbox.com
GEO series:GSE158702
GEO series:GSE158328
HumanCellAtlas:fa3f460f-4fb9-4ced-b548-8ba6a8ecae3f
Single Cell Portal
4,158 cells
Explore
Mus musculus
Mus musculus
Astrocyte
+3
Astrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Astrocyte
Obsolete excitatory neuron
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 (MD703) (section 281)
CELLxGENE
4,154 cells
•
Fawkner-Corbett et al., 2021
Spatiotemporal analysis of human intestinal development at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Gut endothelial cell
Gut endothelial 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
Gut endothelial 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
HumanCellAtlas:fa3f460f-4fb9-4ced-b548-8ba6a8ecae3f
GEO series:GSE158702
CELLxGENE
4,147 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
+8
B cell
Respiratory airway
Respiratory airway
74-year-old stage
74-year-old stage
Covid-19
Covid-19
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
B cell
Neutrophil
Platelet
Mature nk t cell
Erythrocyte
Ionocyte
Epithelial cell
Mast cell
Myeloid cell
Tissue
Respiratory airway
Developmental stage
74-year-old stage
Disease
Covid-19
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
Mendeley Data Dataset:fm7v43jrbk/2
Github:simslab/cluster_diffex2018
COVID-19 cell atlas
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