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Cell Type
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Tissue
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Developmental Stage
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Disease
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Sex
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Technology
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Cell
893
Nucleus
659
Data Source
0
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
CELLxGENE
8,715 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
Monocyte
+3
Monocyte
Liver
Liver
54-year-old stage
54-year-old stage
Breast cancer
Breast cancer
Female
Female
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Monocyte
Malignant cell
Macrophage
Fibroblast
Tissue
Liver
Developmental stage
54-year-old stage
Disease
Breast cancer
Sex
Female
Technology
Slide-seqv2
Suspension type
Related Links
humantumoratlas.org
dbGaP Study:phs002371
Single Cell Portal
8,711 cells
Explore
Mus musculus
Mus musculus
Astrocyte
+3
Astrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Astrocyte
Obsolete excitatory neuron
Ependymal cell
Brain microvascular endothelial cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD718) (section 196)
Corresponding registered brain section (MD718) (section 197)
CELLxGENE
8,678 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
+13
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
Fibro/adipogenic progenitor cell
Leukocyte
Glandular secretory epithelial cell
Endothelial cell of artery
Perivascular cell
Decidual cell
Stromal cell
Blood vessel endothelial cell
Circulating fibrocyte
Endothelial cell of uterus
Capillary endothelial cell
Epithelial cell
Endothelial cell of venule
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
ArrayExpress BioStudies:E-MTAB-10287
GEO series:GSE260658
GEO series:GSE111976
CELLxGENE
8,653 cells
•
Ulrich et al., 2024
Cellular heterogeneity and dynamics of the human uterus in healthy premenopausal women
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+25
Natural killer 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
Natural killer cell
Myoepithelial cell
Innate lymphoid cell
Fibro/adipogenic progenitor cell
Leukocyte
Regulatory t cell
Glandular secretory epithelial cell
Stromal cell of endometrium
B cell
Cd4-positive, alpha-beta memory t cell
Endothelial cell of lymphatic vessel
Perivascular cell
Macrophage
Memory t cell
Decidual cell
Luminal endometrial multiciliated epithelial cell
Blood vessel endothelial cell
Circulating fibrocyte
Hematopoietic precursor cell
Uterine smooth muscle cell
Ciliated epithelial cell
Epithelial cell
Fibroblast
Endothelial cell of venule
Mast cell
Cd8-positive, alpha-beta memory t cell
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
ArrayExpress BioStudies:E-MTAB-10287
GEO series:GSE111976
GEO series:GSE260658
CELLxGENE
8,647 cells
•
Govek et al., 2022
Combined single-cell RNA-seq profiling and enhancer editing reveals critical spatiotemporal controls over thalamic nuclei formation in the murine embryo
Explore
h5ad
Mus musculus
Mus musculus
Gabaergic neuron
+2
Gabaergic neuron
Diencephalon
Diencephalon
Theiler stage 20
Theiler stage 20
Normal
Normal
Female
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Gabaergic neuron
Neural progenitor cell
Glutamatergic neuron
Tissue
Diencephalon
Developmental stage
Theiler stage 20
Disease
Normal
Sex
Female
Technology
10x 3' v3
Suspension type
Cell
CELLxGENE
8,643 cells
•
Kanemaru et al., 2023
Spatially resolved multiomics of human cardiac niches
Explore
h5ad
Homo sapiens
Homo sapiens
Cd14-low, cd16-positive monocyte
+21
Cd14-low, cd16-positive monocyte
Interventricular septum
Interventricular septum
Seventh decade stage
+2
Seventh decade stage
Normal
Normal
Female
+1
Female
Visium spatial gene expression v1
Visium spatial gene expression v1
Organism
Homo sapiens
Cell type
Cd14-low, cd16-positive monocyte
Naive thymus-derived cd4-positive, alpha-beta t cell
Innate lymphoid cell
Endothelial cell of artery
Regular ventricular cardiac myocyte
Glial cell
Pericyte
Endothelial cell of lymphatic vessel
Neutrophil
Monocyte
Mature nk t cell
Smooth muscle cell
Macrophage
Cd8-positive, alpha-beta t cell
Fibroblast of cardiac tissue
Smooth muscle cell of the pulmonary artery
Cd14-positive monocyte
Dendritic cell, human
Endocardial cell
Vein endothelial cell
Mast cell
Mucosal invariant t cell
Tissue
Interventricular septum
Developmental stage
Seventh decade stage
Fifth decade stage
Sixth decade stage
Disease
Normal
Sex
Female
Male
Technology
Visium spatial gene expression v1
Suspension type
Related Links
heartcellatlas.org
ArrayExpress BioStudies:E-MTAB-12919
ArrayExpress BioStudies:E-MTAB-12975
HumanCellAtlas:925f9a4c-cac0-444a-ad2c-612656ab3a85
ArrayExpress BioStudies:E-MTAB-12916
CELLxGENE
8,613 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Leukocyte
+8
Leukocyte
Heart
Heart
4-week-old stage
+3
4-week-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Leukocyte
Endothelial cell of coronary artery
Smooth muscle cell
Erythrocyte
Fibroblast of cardiac tissue
Cardiac neuron
Endocardial cell
Mast cell
Cardiac muscle cell
Tissue
Heart
Developmental stage
4-week-old stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE132042
CZ BioHub Portal:tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
Github:czbiohub/tabula-muris-senis
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CELLxGENE
8,573 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
+26
Oligodendrocyte
Ventral anterior nucleus of thalamus
Ventral anterior nucleus of thalamus
50-year-old stage
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte
Natural killer cell
Astrocyte
T cell
Medial ganglionic eminence derived interneuron
Pvalb chandelier gabaergic interneuron
Microglial cell
Oligodendrocyte precursor cell
Neuron
Ependymal cell
Pericyte
Committed oligodendrocyte precursor
Monocyte
Eccentric medium spiny neuron
Cerebral cortex neuron
Intratelencephalic-projecting glutamatergic cortical neuron
Vascular associated smooth muscle cell
Sst chodl gabaergic interneuron
Endothelial cell
Amygdala excitatory neuron
Caudal ganglionic eminence derived interneuron
Medium spiny neuron
Thalamic excitatory neuron
Central nervous system macrophage
Midbrain-derived inhibitory neuron
Fibroblast
Lamp5 lhx6 neuron
Tissue
Ventral anterior nucleus of thalamus
Developmental stage
50-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
CELLxGENE
8,556 cells
•
Barnes et al., 2023
Early human lung immune cell development and its role in epithelial cell fate
Explore
h5ad
Homo sapiens
Homo sapiens
Pulmonary alveolar type 2 cell
+3
Pulmonary alveolar type 2 cell
Lung
Lung
Normal
Normal
10x 5' transcription profiling
10x 5' transcription profiling
Cell
Cell
Organism
Homo sapiens
Cell type
Pulmonary alveolar type 2 cell
Respiratory tract epithelial cell
Pulmonary alveolar epithelial cell
Pulmonary neuroendocrine cell
Tissue
Lung
Developmental stage
Disease
Normal
Sex
Technology
10x 5' transcription profiling
Suspension type
Cell
Related Links
fetal-lung-immune.cellgeni.sanger.ac.uk
ArrayExpress BioStudies:E-MTAB-11528
Github:Peng-He-Lab/lung-immune-cell-atlas
CELLxGENE
8,461 cells
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+15
Natural killer 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
Natural killer cell
Meningeal macrophage
Dendritic cell
Innate lymphoid cell
Microglial cell
B cell
Choroid plexus macrophage
Common myeloid progenitor
Monocyte
Platelet
Mucosa-associated lymphoid tissue macrophage
Megakaryocyte
Metamyelocyte
Promyelocyte
Mast cell
Perivascular macrophage
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
Bgee
8,444 cells
•
MacParland et al., 2018
Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations
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
Erythroid lineage cell
+13
Erythroid lineage cell
Caudate lobe of liver
Caudate lobe of liver
Life cycle
Life cycle
Normal
Normal
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Erythroid lineage cell
Hepatocyte
Hepatic stellate cell
Leukocyte
Cholangiocyte
Gamma-delta t cell
Endothelial cell of periportal hepatic sinusoid
Macrophage
Alpha-beta t cell
Endothelial cell of pericentral hepatic sinusoid
Inflammatory macrophage
Mature b cell
Endothelial cell of hepatic portal vein
Plasma cell
Tissue
Caudate lobe of liver
Developmental stage
Life cycle
Disease
Normal
Sex
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP149989
CELLxGENE
8,444 cells
•
MacParland et al., 2018
Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+12
Hepatocyte
Liver
Liver
21-year-old stage
+4
21-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Hepatocyte
Hepatic stellate cell
Innate lymphoid cell
Endothelial cell of hepatic sinusoid
Cholangiocyte
B cell
Gamma-delta t cell
Endothelial cell of periportal hepatic sinusoid
Macrophage
Alpha-beta t cell
Erythrocyte
Inflammatory macrophage
Plasma cell
Tissue
Liver
Developmental stage
21-year-old stage
26-year-old stage
44-year-old stage
65-year-old stage
41-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
baderlab.org
GEO series:GSE115469
Single Cell Expression Atlas Experiment:E-HCAD-9
UCSC Cell Browser:human-liver
HumanCellAtlas:4d6f6c96-2a83-43d8-8fe1-0f53bffd4674
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