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Technology
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Cell
893
Nucleus
659
Data Source
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
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
Pulmonary alveolar type 2 cell
+10
Pulmonary alveolar type 2 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
Pulmonary alveolar type 2 cell
T cell
B cell
Pericyte
Fibroblast of lung
Smooth muscle cell
Myofibroblast cell
Macrophage
Stromal cell
Endothelial cell
Pulmonary alveolar type 1 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
Natural killer cell
+18
Natural killer 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
Natural killer cell
Dendritic cell
T cell
B cell
Endothelial cell of artery
Conventional dendritic cell
Endothelial cell of lymphatic vessel
Neutrophil
Monocyte
Mature nk t cell
Cd4-positive, alpha-beta t cell
Macrophage
Cd8-positive, alpha-beta t cell
Vascular associated smooth muscle cell
Stromal cell
Capillary endothelial cell
Vein endothelial cell
Fibroblast
Plasma 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
Reticulocyte
+8
Reticulocyte
Lung
Lung
9th week post-fertilization stage
+7
9th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 5' v1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Reticulocyte
Endothelial cell of artery
Endothelial cell of lymphatic vessel
Erythroblast
Primitive red blood cell
Erythrocyte
Endothelial cell
Capillary endothelial cell
Vein endothelial cell
Tissue
Lung
Developmental stage
9th week post-fertilization stage
11th week post-fertilization stage
Carnegie stage 16
15th week post-fertilization stage
20th week post-fertilization stage
Carnegie stage 19
18th week post-fertilization stage
22nd 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
ArrayExpress BioStudies:E-MTAB-11266
Sanger Dataset:fetal-lung
genome.ucsc.edu
ArrayExpress BioStudies:E-MTAB-11278
Github:Peng-He-Lab/Human_fetal_lung_cell_atlas_2022
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
Monocyte
Malignant cell
Macrophage
Endothelial cell
Fibroblast
Mast cell
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
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
5,440 cells
•
McGlade et al., 2021
Cell‐type specific analysis of physiological action of estrogen in mouse oviducts
Explore
h5ad
Mus musculus
Mus musculus
Fallopian tube secretory epithelial cell
+6
Fallopian tube secretory epithelial cell
Oviduct
Oviduct
2-month-old stage
2-month-old stage
Normal
Normal
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Fallopian tube secretory epithelial cell
Fallopian tube multiciliated epithelial cell
Lymphocyte
Smooth muscle cell
Macrophage
Endothelial cell
Fibroblast
Tissue
Oviduct
Developmental stage
2-month-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE164291
Github:winuthayanon/estrus
CELLxGENE
5,399 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
L2/3-6 intratelencephalic projecting glutamatergic neuron
L2/3-6 intratelencephalic projecting glutamatergic neuron
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
L2/3-6 intratelencephalic projecting glutamatergic neuron
Tissue
Neocortex
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
knowledge.brain-map.org
Allen Brain Map:classes/multimodal-characterization
NeMo archive:dat-p3eei0g
Github:AllenInstitute/human_variation
Allen Brain Map Atlases:rnaseq/human-mtg-10x_sea-ad
Single Cell Portal
5,341 cells
Explore
Mus musculus
Mus musculus
Astrocyte
+4
Astrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Astrocyte
Obsolete excitatory neuron
Oligodendrocyte precursor cell
Brain microvascular endothelial cell
Obsolete inhibitory neuron
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD717) (section 214)
Corresponding registered brain section (MD717) (section 215)
Corresponding registered brain section (MD717) (section 216)
Corresponding registered brain section (MD717) (section 217)
Corresponding registered brain section (MD717) (section 218)
Corresponding registered brain section (MD717) (section 219)
CELLxGENE
5,331 cells
•
Leng et al., 2021
Molecular characterization of selectively vulnerable neurons in Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Gabaergic neuron
Gabaergic neuron
Entorhinal cortex
Entorhinal cortex
82-year-old stage
+7
82-year-old stage
Alzheimer disease
+1
Alzheimer disease
Male
Male
10x 3' v2
10x 3' v2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Gabaergic neuron
Tissue
Entorhinal cortex
Developmental stage
82-year-old stage
60-year-old stage
77-year-old stage
72-year-old stage
80 year-old and over stage
87-year-old stage
50-year-old stage
71-year-old stage
Disease
Alzheimer disease
Normal
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
5,295 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
figshare.com
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
Chen Lab
GEO series:GSE197353
CELLxGENE
5,286 cells
•
Ulrich et al., 2024
Cellular heterogeneity and dynamics of the human uterus in healthy premenopausal women
Explore
h5ad
Homo sapiens
Homo sapiens
Myoepithelial cell
+16
Myoepithelial cell
Myometrium
+1
Myometrium
32-year-old stage
+2
32-year-old stage
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Myoepithelial cell
Leukocyte
Glandular secretory epithelial cell
Stromal cell of endometrium
Cd4-positive, alpha-beta memory t cell
Perivascular cell
Memory t cell
Decidual cell
Luminal endometrial multiciliated epithelial cell
Stromal cell
Circulating fibrocyte
Endothelial cell of uterus
Hematopoietic precursor cell
Uterine smooth muscle cell
Ciliated epithelial cell
Epithelial cell
Fibroblast
Tissue
Myometrium
Endometrium
Developmental stage
32-year-old stage
31-year-old stage
28-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE260658
ArrayExpress BioStudies:E-MTAB-10287
GEO series:GSE111976
Bgee
5,264 cells
•
Murat et al., 2022
The molecular evolution of spermatogenesis across mammals
Explore
scRNA-Seq droplet-based processed expression values per cell population in Mus musculus (tsv.gz)
scRNA-Seq droplet-based H5AD data per cell in Mus musculus (h5ad)
Mus musculus
Mus musculus
Sertoli cell
+5
Sertoli cell
Testis
Testis
9-week-old stage
9-week-old stage
Normal
Normal
Male
Male
10x genomics v2
10x genomics v2
Organism
Mus musculus
Cell type
Sertoli cell
Obsolete somatic cell
Late spermatid
Spermatocyte
Spermatogonium
Early spermatid
Tissue
Testis
Developmental stage
9-week-old stage
Disease
Normal
Sex
Male
Technology
10x genomics v2
Suspension type
Related Links
ebi.ac.uk
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