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Tissue
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Disease
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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
15,243 cells
•
Wiedemann et al., 2023
Differential cell composition and split epidermal differentiation in human palm, sole, and hip skin
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+5
Endothelial cell
Skin of body
+2
Skin of body
65-year-old stage
+3
65-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell
Melanocyte
Leukocyte
Skin fibroblast
Keratinocyte
Pericyte
Tissue
Skin of body
Dermis
Skin epidermis
Developmental stage
65-year-old stage
39-year-old stage
56-year-old stage
40-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
skingenes.org
GEO series:GSE202352
HumanCellAtlas:da74b507-60ee-4dd1-bd02-807bb051a337
CELLxGENE
15,216 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+8
Endothelial cell
Renal medulla
Renal medulla
62-year-old stage
62-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Tissue
Renal medulla
Developmental stage
62-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
CELLxGENE
15,196 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell
+8
Endothelial cell
Renal medulla
Renal medulla
54-year-old stage
54-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Tissue
Renal medulla
Developmental stage
54-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
CELLxGENE
15,177 cells
•
Tran et al., 2021
Single-nucleus transcriptome analysis reveals cell-type-specific molecular signatures across reward circuitry in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+11
T cell
Amygdala
Amygdala
52-year-old stage
+4
52-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
T cell
Glutamatergic neuron
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Tac3-positive striatal interneuron
Microglial cell
Gabaergic interneuron
Mural cell
Pvalb gabaergic interneuron
Astrocyte
Sst gabaergic interneuron
Tissue
Amygdala
Developmental stage
52-year-old stage
54-year-old stage
68-year-old stage
51-year-old stage
59-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
research.libd.org
Github:LieberInstitute/10xPilot_snRNAseq-human
CELLxGENE
15,161 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Mus musculus
Mus musculus
Podocyte
+10
Podocyte
Kidney
Kidney
13-week-old stage
13-week-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Podocyte
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
13-week-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
CELLxGENE
15,139 cells
•
Choksi et al., 2024
An alternative cell cycle coordinates multiciliated cell differentiation
Explore
h5ad
Mus musculus
Mus musculus
Tracheal epithelial cell
Tracheal epithelial cell
Tracheal epithelial cell
Tracheal epithelial cell
Mature stage
Mature stage
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Tracheal epithelial cell
Tissue
Tracheal epithelial cell
Developmental stage
Mature stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE228110
Github:lb15/multiciliation_cycle
Zenodo record:10896100
Zenodo record:10896066
Zenodo record:10896071
CELLxGENE
15,129 cells
•
Qiu et al., 2024
A single-cell time-lapse of mouse prenatal development from gastrula to birth
Explore
h5ad
Mus musculus
Mus musculus
Megakaryocyte
Megakaryocyte
Embryo
Embryo
Theiler stage 22
+15
Theiler stage 22
Normal
Normal
Female
+1
Female
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Megakaryocyte
Tissue
Embryo
Developmental stage
Theiler stage 22
Theiler stage 27
Theiler stage 24
Theiler stage 18
Theiler stage 25
Theiler stage 14
Theiler stage 16
Theiler stage 17
Theiler stage 15
Theiler stage 19
Theiler stage 26
Theiler stage 13
Theiler stage 20
Theiler stage 12
Theiler stage 21
Theiler stage 23
Disease
Normal
Sex
Female
Male
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
GEO series:GSE186069
GEO series:GSE228590
Ontogeny of Mouse, Graphed
ASAP
15,111 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Mechanosensory neuron of leg chordotonal organ
+7
Mechanosensory neuron of leg chordotonal organ
Leg
Leg
Day 5 of adulthood
+1
Day 5 of adulthood
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Mechanosensory neuron of leg chordotonal organ
Gustatory receptor neuron
Hemocyte
Epithelial cell
Muscle cell
Mechanosensory neuron
Sensory neuron
Ascending mechanosensory neuron of leg chordotonal organ
Tissue
Leg
Developmental stage
Day 5 of adulthood
Day 2 of adulthood
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Related Links
ArrayExpress BioStudies:E-MTAB-10519
CELLxGENE
14,990 cells
•
Liu et al., 2022
Spatial maps of T cell receptors and transcriptomes reveal distinct immune niches and interactions in the adaptive immune response
Explore
h5ad
Homo sapiens
Homo sapiens
Cd8-positive, alpha-beta t cell
+8
Cd8-positive, alpha-beta t cell
Lung
Lung
61-year-old stage
61-year-old stage
Renal cell carcinoma
Renal cell carcinoma
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Cd8-positive, alpha-beta t cell
Cd4-positive helper t cell
Epithelial cell
Regulatory t cell
Myeloid cell
Plasma cell
Malignant cell
B cell
Fibroblast
Tissue
Lung
Developmental stage
61-year-old stage
Disease
Renal cell carcinoma
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:soph-liu/Slide-TCR-seq
BroadInstitute Single-Cell Portal:SCP1348/slide-tcr-seq-data
CELLxGENE
14,979 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Midbrain-derived inhibitory neuron
+24
Midbrain-derived inhibitory neuron
Preoptic area
Preoptic area
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
Midbrain-derived inhibitory neuron
T cell
Central nervous system macrophage
Natural killer cell
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Amygdala excitatory neuron
Committed oligodendrocyte precursor
Lamp5 lhx6 neuron
Eccentric medium spiny neuron
Pvalb chandelier gabaergic interneuron
Medial ganglionic eminence derived interneuron
Ependymal cell
Microglial cell
Pericyte
Cerebral cortex neuron
Near-projecting glutamatergic cortical neuron
Neuron
Intratelencephalic-projecting glutamatergic cortical neuron
Caudal ganglionic eminence derived interneuron
Sst chodl gabaergic interneuron
Astrocyte
Fibroblast
Medium spiny neuron
Tissue
Preoptic area
Developmental stage
50-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
CELLxGENE
14,970 cells
•
Nowicki-Osuch et al., 2023
Single-Cell RNA Sequencing Unifies Developmental Programs of Esophageal and Gastric Intestinal Metaplasia
Explore
h5ad
Homo sapiens
Homo sapiens
Natural killer cell
+5
Natural killer cell
Duodenum
+8
Duodenum
66-year-old stage
+24
66-year-old stage
Barrett esophagus
+3
Barrett esophagus
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Natural killer cell
Gamma-delta t cell
Cd4-positive helper t cell
Natural t-regulatory cell
Activated cd8-positive, alpha-beta t cell
Memory t cell
Tissue
Duodenum
Ileum
Colon
Submucosal esophageal gland
Body of stomach
Cardia of stomach
Rectum
Esophagogastric junction
Lower esophagus
Developmental stage
66-year-old stage
69-year-old stage
34-year-old stage
42-year-old stage
43-year-old stage
53-year-old stage
68-year-old stage
48-year-old stage
29-year-old stage
56-year-old stage
55-year-old stage
50-year-old stage
51-year-old stage
57-year-old stage
74-year-old stage
80 year-old and over stage
58-year-old stage
67-year-old stage
77-year-old stage
45-year-old stage
62-year-old stage
41-year-old stage
63-year-old stage
83-year-old stage
27-year-old stage
Disease
Barrett esophagus
Normal
Gastric intestinal metaplasia
Gastritis
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
EGA dataset:EGAD00001010074
Github:karolno/BE-GIM_Comparison
CELLxGENE
14,961 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Mus musculus
Mus musculus
Podocyte
+11
Podocyte
Kidney
Kidney
13-week-old stage
13-week-old stage
Diabetic kidney disease
Diabetic kidney disease
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Podocyte
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
13-week-old stage
Disease
Diabetic kidney disease
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
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