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Cell Type
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Tissue
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Disease
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Sex
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Technology
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Cell
896
Nucleus
659
Data Source
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
CELLxGENE
1,284 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
Motor neuron
Motor 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
Motor 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
1,281 cells
•
Khouri-Farah et al., 2025
Gene expression patterns of the developing human face at single cell resolution reveal cell type contributions to normal facial variation and disease risk
Explore
h5ad
Mus musculus
Mus musculus
Schwann cell
+2
Schwann cell
Cranial neural crest
Cranial neural crest
Theiler stage 22
+5
Theiler stage 22
Normal
Normal
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Schwann cell
Melanocyte
Neural crest cell
Tissue
Cranial neural crest
Developmental stage
Theiler stage 22
Theiler stage 17
Theiler stage 19
Theiler stage 20
Theiler stage 21
Theiler stage 23
Disease
Normal
Sex
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
DOI:10.5281/zenodo.14343226
DOI:10.25550/8D-2JQ0
DOI:10.25550/7N-54BY
Github:cotneylab/craniofacial_snrna
CELLxGENE
1,250 cells
•
Andrews et al., 2024
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmablast
+2
Plasmablast
Caudate lobe of liver
Caudate lobe of liver
Late adult stage
+2
Late adult stage
Normal
Normal
Female
+1
Female
10x 5' v1
+1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmablast
B cell
Naive b cell
Tissue
Caudate lobe of liver
Developmental stage
Late adult stage
Prime adult stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
10x 3' v2
Suspension type
Cell
Related Links
nature.com
GEO series:GSE240429
GEO series:GSE115469
GEO series:GSE243977
GEO series:GSE247128
GEO series:GSE245620
CELLxGENE
1,248 cells
•
Isola et al., 2024
A single-cell atlas of the aging mouse ovary
Explore
h5ad
Mus musculus
Mus musculus
Granulosa cell
+3
Granulosa cell
Ovary
Ovary
3-month-old stage
+1
3-month-old stage
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Granulosa cell
Endothelial cell of lymphatic vessel
Epithelial cell
Endothelial cell of vascular tree
Tissue
Ovary
Developmental stage
3-month-old stage
9-month-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
omrf.shinyapps.io
GEO series:GSE232309
Github:StoutLab/OvarianAgingAtlas
Single Cell Portal
1,226 cells
Explore
Mus musculus
Mus musculus
Neuron
Neuron
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Bgee
1,205 cells
•
Scialdone et al., 2016
Resolving early mesoderm diversification through single-cell expression profiling
Explore
scRNA-Seq full-length processed expression values per cell population in Mus musculus (tsv.gz)
scRNA-Seq full-length H5AD data per cell in Mus musculus (h5ad)
Mus musculus
Mus musculus
Mesodermal cell
+1
Mesodermal cell
Embryo
Embryo
Theiler stage 11c
+3
Theiler stage 11c
Normal
Normal
Smart-seq2
Smart-seq2
Organism
Mus musculus
Cell type
Mesodermal cell
Epiblast cell
Tissue
Embryo
Developmental stage
Theiler stage 11c
Neurula stage
Theiler stage 09
Theiler stage 10
Disease
Normal
Sex
Technology
Smart-seq2
Suspension type
Related Links
ncbi.nlm.nih.gov
CELLxGENE
1,203 cells
•
Moorman et al., 2025
Author Correction: Progressive plasticity during colorectal cancer metastasis
Explore
h5ad
Homo sapiens
Homo sapiens
Malignant cell
Malignant cell
Liver
+1
Liver
55-year-old stage
55-year-old stage
Colorectal cancer
Colorectal cancer
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Malignant cell
Tissue
Liver
Sigmoid colon
Developmental stage
55-year-old stage
Disease
Colorectal cancer
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
Github:dpeerlab/progressive-plasticity-crc-metastasis.git
CELLxGENE
1,096 cells
•
Apostolov et al., 2024
Profiling of epithelial functional states and fibroblast phenotypes in hormone therapy-naïve localised prostate cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Glial cell
+1
Glial cell
Prostate gland
Prostate gland
69-year-old stage
+14
69-year-old stage
Prostatic acinar adenocarcinoma
Prostatic acinar adenocarcinoma
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Glial cell
Myelinating schwann cell
Tissue
Prostate gland
Developmental stage
69-year-old stage
75-year-old stage
71-year-old stage
61-year-old stage
54-year-old stage
68-year-old stage
72-year-old stage
59-year-old stage
64-year-old stage
45-year-old stage
62-year-old stage
70-year-old stage
46-year-old stage
60-year-old stage
63-year-old stage
Disease
Prostatic acinar adenocarcinoma
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE145843
Single Cell Portal
1,092 cells
•
Ziegler et al., 2020
SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues
Explore
Macaca fascicularis
Macaca fascicularis
Secretory cell
+3
Secretory cell
Tuberculosis
Tuberculosis
Seq-well
Seq-well
Organism
Macaca fascicularis
Cell type
Secretory cell
Pulmonary alveolar type 1 cell
Ciliated epithelial cell
Pulmonary alveolar type 2 cell
Tissue
Developmental stage
Disease
Tuberculosis
Sex
Technology
Seq-well
Suspension type
Related Links
cellxgene.cziscience.com
CELLxGENE
1,074 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
Neutrophil
+6
Neutrophil
Respiratory airway
Respiratory airway
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
Neutrophil
Erythrocyte
Mature nk t cell
Mast cell
Epithelial cell
Myeloid cell
B cell
Tissue
Respiratory airway
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
COVID-19 cell atlas
Github:simslab/cluster_diffex2018
CELLxGENE
1,062 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Neutrophil
+10
Neutrophil
Retina
Retina
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Male
Male
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Microcebus murinus
Cell type
Neutrophil
Non-myelinating schwann cell
Off-bipolar cell
Erythroid lineage cell
On-bipolar cell
Retinal bipolar neuron
Macrophage
Retinal cone cell
Retinal rod cell
Retina horizontal cell
Mueller cell
Tissue
Retina
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Male
Technology
Smart-seq2
10x 3' v2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
UCSC Cell Browser:tabula-microcebus
app.globus.org
CELLxGENE
1,011 cells
•
Andrews et al., 2024
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Explore
h5ad
Homo sapiens
Homo sapiens
Intrahepatic cholangiocyte
Intrahepatic cholangiocyte
Caudate lobe of liver
Caudate lobe of liver
Late adult stage
+2
Late adult stage
Normal
Normal
Female
+1
Female
10x 5' v1
+1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Intrahepatic cholangiocyte
Tissue
Caudate lobe of liver
Developmental stage
Late adult stage
Prime adult stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
10x 3' v2
Suspension type
Cell
Related Links
nature.com
GEO series:GSE115469
GEO series:GSE243977
GEO series:GSE247128
GEO series:GSE245620
GEO series:GSE240429
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