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Disease
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Technology
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Cell
893
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
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Most cells
Fewest cells
2339
datasets
CELLxGENE
4,594 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
+6
B cell
Respiratory airway
Respiratory airway
66-year-old stage
66-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
Mature nk t cell
Erythrocyte
Epithelial cell
Mast cell
Myeloid cell
Tissue
Respiratory airway
Developmental stage
66-year-old stage
Disease
Covid-19
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
Mendeley Data Dataset:fm7v43jrbk/2
COVID-19 cell atlas
Github:simslab/cluster_diffex2018
CELLxGENE
4,562 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Notochordal cell
+15
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
CELLxGENE
4,526 cells
•
Matson et al., 2022
Single cell atlas of spinal cord injury in mice reveals a pro-regenerative signature in spinocerebellar neurons
Explore
h5ad
Mus musculus
Mus musculus
Astrocyte
Astrocyte
Spinal cord
Spinal cord
3-6 month-old mature stage
3-6 month-old mature stage
Normal
+1
Normal
Female
Female
10x 3' v2
10x 3' v2
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Astrocyte
Tissue
Spinal cord
Developmental stage
3-6 month-old mature stage
Disease
Normal
Spinal cord injury
Sex
Female
Technology
10x 3' v2
Suspension type
Nucleus
Related Links
GEO series:GSE172167
CELLxGENE
4,517 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Notochordal cell
+15
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal 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
4,507 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Notochordal cell
+15
Notochordal cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Notochordal cell
Spinal cord interneuron
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
Anterior visceral endoderm cell
Premigratory neural crest cell
Mesodermal cell
Neuroplacodal cell
Surface ectodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
CELLxGENE
4,494 cells
•
Oliver et al., 2024
Single-cell integration reveals metaplasia in inflammatory gut diseases
Explore
h5ad
Homo sapiens
Homo sapiens
Melanocyte
+3
Melanocyte
Gingiva
+2
Gingiva
32-year-old stage
+15
32-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Melanocyte
Basal cell
Keratinocyte
Epithelial cell
Tissue
Gingiva
Periodontium
Buccal mucosa
Developmental stage
32-year-old stage
31-year-old stage
21-year-old stage
24-year-old stage
57-year-old stage
28-year-old stage
33-year-old stage
35-year-old stage
61-year-old stage
39-year-old stage
Adult stage
Young adult stage
22-year-old stage
23-year-old stage
37-year-old stage
51-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
teichlab.org
ArrayExpress BioStudies:E-MTAB-14050
CELLxGENE
4,475 cells
•
Oliver et al., 2024
Single-cell integration reveals metaplasia in inflammatory gut diseases
Explore
h5ad
Homo sapiens
Homo sapiens
M cell of gut
+6
M cell of gut
Colon
Colon
16th week post-fertilization stage
+4
16th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 5' v2
+1
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
M cell of gut
Intestine goblet cell
Colonocyte
Enteroendocrine cell
Best4+ enterocyte
Epithelial cell
Intestinal crypt stem cell
Tissue
Colon
Developmental stage
16th week post-fertilization stage
15th week post-fertilization stage
19th week post-fertilization stage
12th week post-fertilization stage
17th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 3' v2
Suspension type
Cell
Related Links
teichlab.org
ArrayExpress BioStudies:E-MTAB-14050
CELLxGENE
4,454 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
T cell
+4
T cell
Skin of body
Skin of body
20-month-old stage and over
+1
20-month-old stage and over
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
T cell
Basal cell of epidermis
Stem cell of epidermis
Epidermal cell
Keratinocyte stem cell
Tissue
Skin of body
Developmental stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
Github:czbiohub/tabula-muris-senis
GEO series:GSE132042
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
CELLxGENE
4,425 cells
•
De Simone et al., 2024
A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmacytoid dendritic cell
+8
Plasmacytoid dendritic cell
Blood
Blood
42-year-old stage
42-year-old stage
Normal
Normal
Male
Male
Asteria scrna-seq kit
Asteria scrna-seq kit
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Cd14-low, cd16-positive monocyte
Natural killer cell
Dendritic cell
B cell
Cd4-positive, alpha-beta t cell
Megakaryocyte
Cd14-positive monocyte
Cytotoxic t cell
Tissue
Blood
Developmental stage
42-year-old stage
Disease
Normal
Sex
Male
Technology
Asteria scrna-seq kit
Suspension type
Cell
Related Links
ncbi.nlm.nih.gov
DOI:10.5281/zenodo.13910292
Github:danledinh/scRNAseq-repo
CELLxGENE
4,419 cells
•
Oliver et al., 2024
Single-cell integration reveals metaplasia in inflammatory gut diseases
Explore
h5ad
Homo sapiens
Homo sapiens
Progenitor cell
+2
Progenitor cell
Colon
Colon
10th week post-fertilization stage
+7
10th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 5' v2
+1
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Progenitor cell
Best4+ enterocyte
Epithelial cell
Tissue
Colon
Developmental stage
10th week post-fertilization stage
9th week post-fertilization stage
11th week post-fertilization stage
Carnegie stage 22
Carnegie stage 17
Carnegie stage 18
Carnegie stage 19
12th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 3' v2
Suspension type
Cell
Related Links
teichlab.org
ArrayExpress BioStudies:E-MTAB-14050
Single Cell Portal
4,397 cells
Explore
Mus musculus
Mus musculus
Osteoblast
+6
Osteoblast
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Osteoblast
Stromal cell of bone marrow
Cell of skeletal muscle
Smooth muscle cell
Macrophage
Endothelial cell
Chondrocyte
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
CELLxGENE
4,355 cells
•
Xiang et al., 2020
A Single-Cell Transcriptional Roadmap of the Mouse and Human Lymph Node Lymphatic Vasculature
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of lymphatic vessel
Endothelial cell of lymphatic vessel
Cervical lymph node
Cervical lymph node
Adult stage
Adult stage
Normal
Normal
Male
Male
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of lymphatic vessel
Tissue
Cervical lymph node
Developmental stage
Adult stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
med.stanford.edu
igp.uu.se
GEO series:GSE143877
GEO series:GSE145121
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