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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
Sort
Most cells
Fewest cells
2339
datasets
CELLxGENE
6,639 cells
•
Serizay et al., 2025
Cyclin switch tailors a cell cycle variant to orchestrate multiciliogenesis
Explore
h5ad
Mus musculus
Mus musculus
Neuron associated cell
+3
Neuron associated cell
Multiciliated ependymal cell
Multiciliated ependymal cell
Theiler stage 27
Theiler stage 27
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Neuron associated cell
Multiciliated ependymal cell
Deuterosomal cell
Radial glial cell
Tissue
Multiciliated ependymal cell
Developmental stage
Theiler stage 27
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
DOI:10.1016/j.celrep.2024.115117
DOI:10.5281/zenodo.14105247
GEO series:GSE201773
CELLxGENE
6,562 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Spinal cord interneuron
+13
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
Paraxial cell
Neurectodermal cell
Gut endothelial cell
Splanchnic mesodermal cell
Hemangioblast
Cardiac valve cell
Endodermal cell
Primitive red blood cell
Midbrain dopaminergic neuron
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:E9_0_Embryo_h5ad/21695879/1
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
CELLxGENE
6,560 cells
•
Opasawatchai et al., 2022
Single-Cell Transcriptomic Profiling of Human Dental Pulp in Sound and Carious Teeth: A Pilot Study
Explore
h5ad
Homo sapiens
Homo sapiens
Schwann cell
+12
Schwann cell
Dental pulp
Dental pulp
21-year-old stage
+3
21-year-old stage
Enamel caries
+2
Enamel caries
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Schwann cell
Natural killer cell
Dendritic cell
T cell
B cell
Glial cell
Non-classical monocyte
Macrophage
Endothelial cell
Hematopoietic stem cell
Fibroblast
Plasma cell
Odontoblast
Tissue
Dental pulp
Developmental stage
21-year-old stage
26-year-old stage
36-year-old stage
20-year-old stage
Disease
Enamel caries
Pulpitis
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE185222
Github:vclabsysbio/scRNAseq_Dentalpulp
CELLxGENE
6,541 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Dendritic cell
+17
Dendritic cell
Tongue
+2
Tongue
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Microcebus murinus
Cell type
Dendritic cell
T cell
Endothelial cell of artery
Pericyte
Endothelial cell of lymphatic vessel
Non-myelinating schwann cell
Macrophage
Myelinating schwann cell
Vascular associated smooth muscle cell
Tendon cell
Stromal cell
Oral mucosa squamous cell
Capillary endothelial cell
Fast muscle cell
Basophil
Vein endothelial cell
Fibroblast
Skeletal muscle satellite stem cell
Tissue
Tongue
Epithelium of tongue
Tongue muscle
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Smart-seq2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
UCSC Cell Browser:tabula-microcebus
app.globus.org
CELLxGENE
6,528 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Lymphocyte
+8
Lymphocyte
Testis
Testis
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Male
Male
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Microcebus murinus
Cell type
Lymphocyte
Macrophage
Stromal cell
Spermatocyte
Capillary endothelial cell
Spermatogonium
Spermatid
Eosinophil
Mesothelial cell
Tissue
Testis
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Male
Technology
10x 3' v2
Smart-seq2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
UCSC Cell Browser:tabula-microcebus
app.globus.org
ASAP
6,527 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Male germline cell
+13
Male germline cell
Haltere
Haltere
Day 5 of adulthood
Day 5 of adulthood
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Male germline cell
Neuron
Tracheolar cell
Neuron
Adult glial cell
Muscle cell
Fat cell
Epithelial cell
Female germline cell
Hemocyte
Sensory neuron
Oenocyte
Somatic precursor cell
Glial cell
Tissue
Haltere
Developmental stage
Day 5 of adulthood
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10519
CELLxGENE
6,512 cells
•
Duran et al., 2025
A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments
Explore
h5ad
Danio rerio
Danio rerio
Motor neuron
+2
Motor neuron
Multicellular anatomical structure
+2
Multicellular anatomical structure
Segmentation:14-19 somites
+9
Segmentation:14-19 somites
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Motor neuron
Lateral motor column neuron
Cranial motor neuron
Tissue
Multicellular anatomical structure
Head
Spinal cord
Developmental stage
Segmentation:14-19 somites
Hatching:pec-fin
Larval:protruding-mouth
Pharyngula:prim-5
Pharyngula:high-pec
Hatching:long-pec
Segmentation:20-25 somites
Segmentation:26+ somites
Pharyngula:prim-15
Pharyngula:prim-25
Disease
Normal
Sex
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
GEO series:GSE295164
cole-trapnelllab.github.io
DOI:10.1038/s41586-023-06720-2
CELLxGENE
6,497 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
B cell
+15
B cell
Apex of heart
Apex of heart
Seventh decade stage
+1
Seventh decade stage
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
B cell
Endothelial cell of artery
Regular ventricular cardiac myocyte
Glial cell
Pericyte
Endothelial cell of lymphatic vessel
Monocyte
Smooth muscle cell
Macrophage
Fibroblast of cardiac tissue
Smooth muscle cell of the pulmonary artery
Endothelial cell
Capillary endothelial cell
Endocardial cell
Vein endothelial cell
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Apex of heart
Developmental stage
Seventh decade stage
Fifth decade stage
Disease
Normal
Sex
Female
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
ArrayExpress BioStudies:E-MTAB-12916
ArrayExpress BioStudies:E-MTAB-12919
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
ArrayExpress BioStudies:E-MTAB-12975
Bgee
6,490 cells
•
Guo et al., 2018
The adult human testis transcriptional cell atlas
Explore
scRNA-Seq droplet-based processed expression values per cell population in Homo sapiens (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Homo sapiens (h5ad)
Homo sapiens
Homo sapiens
Sertoli cell
+9
Sertoli cell
Testis
Testis
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Male
Male
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Sertoli cell
Peritubular myoid cell
Macrophage
Primary spermatocyte
Endothelial cell
Spermatogonium
Obsolete male germ line stem cell (sensu vertebrata)
Spermatid
Leydig cell
Sperm
Tissue
Testis
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Male
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP135999
CELLxGENE
6,465 cells
Explore
h5ad
Homo sapiens
Homo sapiens
Schwann cell
+6
Schwann cell
Forebrain meninges
+2
Forebrain meninges
Carnegie stage 21
+8
Carnegie stage 21
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Schwann cell
Neuroblast (sensu vertebrata)
Mechanoreceptor cell
Schwann cell precursor
Neural crest cell
Epithelial cell
Radial glial cell
Tissue
Forebrain meninges
Brain meninx
Meninx
Developmental stage
Carnegie stage 21
10th week post-fertilization stage
9th week post-fertilization stage
Carnegie stage 20
Carnegie stage 16
Carnegie stage 23
Carnegie stage 18
13th week post-fertilization stage
12th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Github:linnarsson-lab/human-meninges-development
CELLxGENE
6,362 cells
•
Fernandes Matuck et al., 2024
The Immunoregulatory Architecture of the Adult Oral Cavity
Explore
h5ad
Homo sapiens
Homo sapiens
Dendritic cell
+7
Dendritic cell
Parotid gland
+2
Parotid gland
62-year-old stage
+11
62-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Dendritic cell
Innate lymphoid cell
B cell
Neutrophil
Macrophage
Cd8-positive, alpha-beta t cell
Plasma cell
Cd4-positive helper t cell
Tissue
Parotid gland
Submandibular gland
Minor salivary gland
Developmental stage
62-year-old stage
34-year-old stage
Fourth decade stage
56-year-old stage
24-year-old stage
28-year-old stage
48-year-old stage
39-year-old stage
26-year-old stage
Sixth decade stage
53-year-old stage
40-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Github:Loci-lab/Oral-Craniofacial-Atlas
CELLxGENE
6,339 cells
•
Jones et al., 2024
Cellular atlas of the human ovary using morphologically guided spatial transcriptomics and single-cell sequencing
Explore
h5ad
Homo sapiens
Homo sapiens
Leukocyte
+3
Leukocyte
Ovary
Ovary
31-year-old stage
31-year-old stage
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Leukocyte
Pericyte
Stromal cell of ovary
Endothelial cell
Tissue
Ovary
Developmental stage
31-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE260685
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