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Tissue
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Disease
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Technology
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Cell
896
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
CELLxGENE
5,625 cells
•
Xiang et al., 2020
A Single-Cell Transcriptional Roadmap of the Mouse and Human Lymph Node Lymphatic Vasculature
Explore
h5ad
Mus musculus
Mus musculus
Endothelial cell of lymphatic vessel
Endothelial cell of lymphatic vessel
Peripheral lymph node
Peripheral lymph node
Prime adult stage
Prime adult stage
Normal
+1
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Endothelial cell of lymphatic vessel
Tissue
Peripheral lymph node
Developmental stage
Prime adult stage
Disease
Normal
Lymphadenitis
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE143877
med.stanford.edu
GEO series:GSE145121
igp.uu.se
CELLxGENE
5,617 cells
•
Joseph et al., 2021
Single‐cell analysis of mouse and human prostate reveals novel fibroblasts with specialized distribution and microenvironment interactions
Explore
h5ad
Mus musculus
Mus musculus
Fibroblast of connective tissue of prostate
+2
Fibroblast of connective tissue of prostate
Prostate gland
+1
Prostate gland
2-month-old stage
2-month-old stage
Normal
Normal
Male
Male
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Fibroblast of connective tissue of prostate
Smooth muscle cell of prostate
Fibroblast
Tissue
Prostate gland
Urethra
Developmental stage
2-month-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE172357
GEO series:GSE173096
strandlab.net
DOI:10.25548/17-DRBC
CELLxGENE
5,613 cells
•
Alkaslasi et al., 2021
Single nucleus RNA-sequencing defines unexpected diversity of cholinergic neuron types in the adult mouse spinal cord
Explore
h5ad
Mus musculus
Mus musculus
Visceromotor neuron
Visceromotor neuron
Cervical spinal cord
+2
Cervical spinal cord
8-week-old stage
8-week-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Visceromotor neuron
Tissue
Cervical spinal cord
Thoracic spinal cord
Lumbar spinal cord
Developmental stage
8-week-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
CELLxGENE
5,608 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
Mature nk t cell
+5
Mature nk t cell
Blood
Blood
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
Mature nk t cell
Platelet
Myeloid cell
Plasma cell
B cell
Dendritic cell
Tissue
Blood
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
CELLxGENE
5,572 cells
•
Leng et al., 2021
Molecular characterization of selectively vulnerable neurons in Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Mature microglial cell
Mature microglial cell
Entorhinal cortex
Entorhinal cortex
87-year-old stage
+7
87-year-old stage
Normal
+1
Normal
Male
Male
10x 3' v2
10x 3' v2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Mature microglial cell
Tissue
Entorhinal cortex
Developmental stage
87-year-old stage
71-year-old stage
82-year-old stage
50-year-old stage
72-year-old stage
80 year-old and over stage
77-year-old stage
60-year-old stage
Disease
Normal
Alzheimer disease
Sex
Male
Technology
10x 3' v2
Suspension type
Nucleus
Related Links
GEO series:GSE147528
kampmannlab.ucsf.edu
synapse.org:#!Synapse:syn21788402/wiki/601825
HumanCellAtlas:7dcffc32-7c82-4396-9a4f-88b5579bfe8a
CELLxGENE
5,535 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
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
CELLxGENE
5,500 cells
•
Leng et al., 2021
Molecular characterization of selectively vulnerable neurons in Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Mature astrocyte
Mature astrocyte
Entorhinal cortex
Entorhinal cortex
87-year-old stage
+7
87-year-old stage
Normal
+1
Normal
Male
Male
10x 3' v2
10x 3' v2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Mature astrocyte
Tissue
Entorhinal cortex
Developmental stage
87-year-old stage
71-year-old stage
82-year-old stage
50-year-old stage
72-year-old stage
80 year-old and over stage
77-year-old stage
60-year-old stage
Disease
Normal
Alzheimer disease
Sex
Male
Technology
10x 3' v2
Suspension type
Nucleus
Related Links
GEO series:GSE147528
kampmannlab.ucsf.edu
synapse.org:#!Synapse:syn21788402/wiki/601825
HumanCellAtlas:7dcffc32-7c82-4396-9a4f-88b5579bfe8a
CELLxGENE
5,499 cells
•
Bhattacharya et al., 2024
Single-Cell Transcriptomic Profiling Identifies Molecular Phenotypes of Newborn Human Lung Cells
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+10
T cell
Lung
Lung
Newborn stage (0-28 days)
Newborn stage (0-28 days)
Anencephaly
Anencephaly
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Stromal cell
Endothelial cell
Smooth muscle cell
Macrophage
Pulmonary alveolar type 1 cell
Fibroblast of lung
B cell
Pericyte
Myofibroblast cell
Pulmonary alveolar type 2 cell
Tissue
Lung
Developmental stage
Newborn stage (0-28 days)
Disease
Anencephaly
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
lungmap.net
protocols.io:603-3-amp-604-5-urmc-htc-whole-lung-and-lobe-proce-biz7kf9n
CELLxGENE
5,468 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
T cell
+18
T cell
Mammary gland
Mammary gland
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Microcebus murinus
Cell type
T cell
Neutrophil
Stromal cell
Natural killer cell
Endothelial cell of lymphatic vessel
Mature nk t cell
Cd8-positive, alpha-beta t cell
Endothelial cell of artery
Capillary endothelial cell
Macrophage
Plasma cell
Cd4-positive, alpha-beta t cell
Vein endothelial cell
B cell
Monocyte
Vascular associated smooth muscle cell
Conventional dendritic cell
Fibroblast
Dendritic cell
Tissue
Mammary gland
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
UCSC Cell Browser:tabula-microcebus
app.globus.org
CELLxGENE
5,467 cells
•
He et al., 2022
A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of lymphatic vessel
+8
Endothelial cell of lymphatic vessel
Lung
Lung
Carnegie stage 19
+7
Carnegie stage 19
Normal
Normal
Female
+1
Female
10x 5' v1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of lymphatic vessel
Erythrocyte
Endothelial cell
Endothelial cell of artery
Capillary endothelial cell
Primitive red blood cell
Vein endothelial cell
Reticulocyte
Erythroblast
Tissue
Lung
Developmental stage
Carnegie stage 19
15th week post-fertilization stage
20th week post-fertilization stage
9th week post-fertilization stage
18th week post-fertilization stage
22nd week post-fertilization stage
Carnegie stage 16
11th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
Suspension type
Cell
Related Links
ArrayExpress BioStudies:E-MTAB-11267
ArrayExpress BioStudies:E-MTAB-11265
Sanger Dataset:fetal-lung
genome.ucsc.edu
Github:Peng-He-Lab/Human_fetal_lung_cell_atlas_2022
ArrayExpress BioStudies:E-MTAB-11278
ArrayExpress BioStudies:E-MTAB-11266
CELLxGENE
5,463 cells
•
Klughammer et al., 2024
A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+6
T cell
Axilla
Axilla
38-year-old stage
38-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Endothelial cell
Mast cell
Macrophage
Malignant cell
Monocyte
Fibroblast
Tissue
Axilla
Developmental stage
38-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
humantumoratlas.org
dbGaP Study:phs002371
CELLxGENE
5,452 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
Chen Lab
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
GEO series:GSE197353
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