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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
934
Nucleus
679
Data Source
0
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ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
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Most cells
Fewest cells
2515
datasets
CELLxGENE
4,004 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+15
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Neurectodermal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Anterior visceral endoderm cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
3,977 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
Kupffer cell
+1
Kupffer cell
Caudate lobe of liver
Caudate lobe of liver
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Kupffer cell
Inflammatory macrophage
Tissue
Caudate lobe of liver
Developmental stage
Prime adult stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
github.com
GSE185477
explore.data.humancellatlas.org
protocols.io
macparlandlab.shinyapps.io
CELLxGENE
3,961 cells
•
Litviňuková et al., 2020
Cells of the adult human heart
Explore
h5ad
Homo sapiens
Homo sapiens
Neural cell
Neural cell
Heart right ventricle
+5
Heart right ventricle
Sixth decade stage
+3
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Neural cell
Tissue
Heart right ventricle
Right cardiac atrium
Apex of heart
Heart left ventricle
Left cardiac atrium
Interventricular septum
Developmental stage
Sixth decade stage
Fifth decade stage
Seventh decade stage
Eighth decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
cells.ucsc.edu
ERP123138
support.10xgenomics.com
explore.data.humancellatlas.org
genome.ucsc.edu
teichlab.org
github.com
heartcellatlas.org
CELLxGENE
3,951 cells
•
Nowicki-Osuch et al., 2023
Single-Cell RNA Sequencing Unifies Developmental Programs of Esophageal and Gastric Intestinal Metaplasia
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of artery
+2
Endothelial cell of artery
Duodenum
+7
Duodenum
69-year-old stage
+23
69-year-old stage
Barrett esophagus
+3
Barrett esophagus
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of artery
Capillary endothelial cell
Vein endothelial cell
Tissue
Duodenum
Epithelium of rectum
Submucosal esophageal gland
Body of stomach
Cardia of stomach
Ascending colon epithelium
Esophagogastric junction
Lower esophagus
Developmental stage
69-year-old stage
34-year-old stage
43-year-old stage
53-year-old stage
54-year-old stage
68-year-old stage
48-year-old stage
29-year-old stage
56-year-old stage
55-year-old stage
50-year-old stage
51-year-old stage
57-year-old stage
74-year-old stage
80 year-old and over stage
58-year-old stage
67-year-old stage
77-year-old stage
45-year-old stage
62-year-old stage
41-year-old stage
63-year-old stage
83-year-old stage
27-year-old stage
Disease
Barrett esophagus
Normal
Gastric intestinal metaplasia
Gastritis
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
EGAD00001010074
github.com
CELLxGENE
3,941 cells
•
Choksi et al., 2024
An alternative cell cycle coordinates multiciliated cell differentiation
Explore
h5ad
Mus musculus
Mus musculus
Tracheal epithelial cell
Tracheal epithelial cell
Tracheal epithelial cell
Tracheal epithelial cell
Mature stage
Mature stage
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Tracheal epithelial cell
Tissue
Tracheal epithelial cell
Developmental stage
Mature stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
GSE228110
github.com
zenodo.org
zenodo.org
zenodo.org
CELLxGENE
3,934 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Microglial cell
Microglial cell
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Microglial cell
Tissue
Neocortex
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Allen Brain Map
Reference middle temporal gyrus taxonomy
Allen Brain Map Patch-seq
assets.nemoarchive.org
github.com
CELLxGENE
3,933 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+15
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Neurectodermal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Anterior visceral endoderm cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
3,933 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+15
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Neurectodermal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Anterior visceral endoderm cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
insitubiology.org
GSE197353
figshare.com
figshare.com
figshare.com
CELLxGENE
3,923 cells
•
Chan et al., 2021
Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Epithelial cell
Epithelial cell
Pleural effusion
Pleural effusion
75-year-old stage
75-year-old stage
Small cell lung carcinoma
Small cell lung carcinoma
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Epithelial cell
Tissue
Pleural effusion
Developmental stage
75-year-old stage
Disease
Small cell lung carcinoma
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
data.humantumoratlas.org
phs002371
CELLxGENE
3,912 cells
•
Gu et al., 2024
Immune microniches shape intestinal Treg function
Explore
h5ad
Mus musculus
Mus musculus
Germinal center b cell
+5
Germinal center b cell
Caecum
+3
Caecum
Prime adult stage
Prime adult stage
Normal
Normal
10x 5' v2
10x 5' v2
Cell
Cell
Organism
Mus musculus
Cell type
Germinal center b cell
B cell zone reticular cell
Igm plasmablast
Memory b cell
Plasma cell
Naive b cell
Tissue
Caecum
Lamina propria of small intestine
Small intestine peyer's patch
Mesenteric lymph node
Developmental stage
Prime adult stage
Disease
Normal
Sex
Technology
10x 5' v2
Suspension type
Cell
Related Links
treg-gut-niches.cellgeni.sanger.ac.uk
scRNA-seq, scTCR-seq and Visium data
Single Cell Portal
3,908 cells
Explore
Mus musculus
Mus musculus
Obsolete inhibitory neuron
+4
Obsolete inhibitory neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Obsolete inhibitory neuron
Oligodendrocyte precursor cell
Brain microvascular endothelial cell
Obsolete excitatory neuron
Astrocyte
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD702) (section 281)
CELLxGENE
3,855 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
T cell
+5
T cell
Limb muscle
Limb muscle
3-month-old stage
+2
3-month-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
T cell
Endothelial cell
Skeletal muscle satellite cell
Macrophage
B cell
Mesenchymal stem cell
Tissue
Limb muscle
Developmental stage
3-month-old stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GSE132042
Processed files
Tabula Muris Senis
SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries V.1
github.com
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