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Cell
896
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
CELLxGENE
26,134 cells
•
Lengyel et al., 2022
A molecular atlas of the human postmenopausal fallopian tube and ovary from single-cell RNA and ATAC sequencing
Explore
h5ad
Homo sapiens
Homo sapiens
Stromal cell
+5
Stromal cell
Ovary
Ovary
65-year-old stage
+4
65-year-old stage
Normal
Normal
Female
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Stromal cell
Endothelial cell of lymphatic vessel
Endothelial cell
Leukocyte
Smooth muscle cell
Pericyte
Tissue
Ovary
Developmental stage
65-year-old stage
72-year-old stage
58-year-old stage
62-year-old stage
70-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
Drop-seq
Suspension type
Cell
Related Links
EGA Study:EGAS00001006780
CELLxGENE
26,129 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
L2/3-6 intratelencephalic projecting glutamatergic neuron
L2/3-6 intratelencephalic projecting glutamatergic neuron
Middle temporal gyrus
Middle temporal gyrus
69-year-old stage
+23
69-year-old stage
Normal
+1
Normal
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L2/3-6 intratelencephalic projecting glutamatergic neuron
Tissue
Middle temporal gyrus
Developmental stage
69-year-old stage
75-year-old stage
65-year-old stage
89-year-old stage
43-year-old stage
87-year-old stage
85-year-old stage
88-year-old stage
68-year-old stage
29-year-old stage
84-year-old stage
82-year-old stage
50-year-old stage
80-year-old stage
72-year-old stage
81-year-old stage
80 year-old and over stage
Adult stage
77-year-old stage
86-year-old stage
70-year-old stage
60-year-old stage
78-year-old stage
83-year-old stage
Disease
Normal
Dementia
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
Adult Changes in Thought Study
Allen Brain Map:seattle-alzheimers-disease
AWS Open Data:allen-sea-ad-atlas
Alzheimer's Disease Research Center
BRaIN-lab
AD knowledge portal:syn26223298
CELLxGENE
26,095 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
+25
Midbrain-derived inhibitory neuron
Dorsal tegmental nucleus
Dorsal tegmental nucleus
42-year-old stage
+2
42-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
Committed oligodendrocyte precursor
Cerebellar granule cell
Lamp5 lhx6 neuron
Pvalb chandelier gabaergic interneuron
Cerebellar inhibitory gabaergic interneuron
Ependymal cell
Microglial cell
Bergmann glial cell
B cell
Pericyte
Neuron
Monocyte
Intratelencephalic-projecting glutamatergic cortical neuron
Caudal ganglionic eminence derived interneuron
Vascular associated smooth muscle cell
Astrocyte
Unipolar brush cell
Fibroblast
Mammillary body neuron
Tissue
Dorsal tegmental nucleus
Developmental stage
42-year-old stage
29-year-old stage
50-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:linnarsson-lab/adult-human-brain
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
Github:linnarsson-lab/auto-annotation-ah
CELLxGENE
26,086 cells
•
Moorman et al., 2025
Author Correction: Progressive plasticity during colorectal cancer metastasis
Explore
h5ad
Homo sapiens
Homo sapiens
Malignant cell
Malignant cell
Lung
+9
Lung
37-year-old stage
+22
37-year-old stage
Colorectal cancer
Colorectal cancer
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Malignant cell
Tissue
Lung
Caecum
Peritoneum
Liver
Hepatic flexure of colon
Rectum
Transverse colon
Chest wall
Descending colon
Sigmoid colon
Developmental stage
37-year-old stage
75-year-old stage
65-year-old stage
53-year-old stage
52-year-old stage
68-year-old stage
48-year-old stage
39-year-old stage
44-year-old stage
55-year-old stage
50-year-old stage
74-year-old stage
49-year-old stage
35-year-old stage
64-year-old stage
45-year-old stage
62-year-old stage
41-year-old stage
70-year-old stage
60-year-old stage
78-year-old stage
73-year-old stage
40-year-old stage
Disease
Colorectal cancer
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
Github:dpeerlab/progressive-plasticity-crc-metastasis.git
CELLxGENE
26,027 cells
•
Maatz et al., 2025
The cellular and molecular cardiac tissue responses in human inflammatory cardiomyopathies after SARS-CoV-2 infection and COVID-19 vaccination
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac ventricle fibroblast
Cardiac ventricle fibroblast
Apex of heart
+1
Apex of heart
21-year-old stage
+22
21-year-old stage
Myocarditis
+1
Myocarditis
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Cardiac ventricle fibroblast
Tissue
Apex of heart
Heart left ventricle
Developmental stage
21-year-old stage
26-year-old stage
Sixth decade stage
61-year-old stage
52-year-old stage
30-year-old stage
29-year-old stage
38-year-old stage
Fifth decade stage
55-year-old stage
28-year-old stage
Third decade stage
49-year-old stage
24-year-old stage
Seventh decade stage
25-year-old stage
32-year-old stage
64-year-old stage
70-year-old stage
31-year-old stage
19-year-old stage
Eighth decade stage
27-year-old stage
Disease
Myocarditis
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
EGA Study:EGAS50000000769
ENA Project:PRJEB39602
EGA dataset:EGAD00001009292
DOI:10.1126/science.abo1984
DOI:10.1038/s41586-020-2797-4
CELLxGENE
26,027 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
+5
Cd8-positive, alpha-beta t cell
Lymph node
Lymph node
Adult stage
Adult stage
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Cd8-positive, alpha-beta t cell
Cd4-positive helper t cell
Regulatory t cell
Myeloid cell
B cell
Dendritic cell
Tissue
Lymph node
Developmental stage
Adult stage
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
BroadInstitute Single-Cell Portal:SCP1348/slide-tcr-seq-data
Github:soph-liu/Slide-TCR-seq
CELLxGENE
25,957 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
+13
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 granular cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Macula densa 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
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
CELLxGENE
25,908 cells
•
Yan et al., 2020
Cell Atlas of The Human Fovea and Peripheral Retina
Explore
h5ad
Homo sapiens
Homo sapiens
Off-bipolar cell
+1
Off-bipolar cell
Peripheral region of retina
+1
Peripheral region of retina
69-year-old stage
+6
69-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Off-bipolar cell
On-bipolar cell
Tissue
Peripheral region of retina
Fovea centralis
Developmental stage
69-year-old stage
65-year-old stage
53-year-old stage
74-year-old stage
64-year-old stage
60-year-old stage
78-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE148077
HumanCellAtlas:30dc3964-1135-4b56-b393-ce2dcbc6e379
BroadInstitute Single-Cell Portal:SCP839/cell-atlas-of-the-human-fovea-and-peripheral-retina
CELLxGENE
25,875 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
+26
Midbrain-derived inhibitory neuron
Pretectal region
Pretectal region
42-year-old stage
+1
42-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
Cerebellar granule cell
Lamp5 lhx6 neuron
Pvalb chandelier gabaergic interneuron
Medial ganglionic eminence derived interneuron
Cerebellar inhibitory gabaergic interneuron
Ependymal cell
Microglial cell
Thalamic excitatory neuron
Pericyte
Cerebral cortex neuron
Neuron
Monocyte
Intratelencephalic-projecting glutamatergic cortical neuron
Caudal ganglionic eminence derived interneuron
Vascular associated smooth muscle cell
Astrocyte
Fibroblast
Medium spiny neuron
Tissue
Pretectal region
Developmental stage
42-year-old stage
29-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
25,871 cells
•
Emont et al., 2022
A single-cell atlas of human and mouse white adipose tissue
Explore
h5ad
Homo sapiens
Homo sapiens
Adipocyte
Adipocyte
Subcutaneous adipose tissue
+1
Subcutaneous adipose tissue
53-year-old stage
+10
53-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Adipocyte
Tissue
Subcutaneous adipose tissue
Omental fat pad
Developmental stage
53-year-old stage
68-year-old stage
29-year-old stage
51-year-old stage
57-year-old stage
24-year-old stage
35-year-old stage
58-year-old stage
41-year-old stage
36-year-old stage
73-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
gitlab.com
GEO series:GSE176067
GEO series:GSE176171
BroadInstitute Single-Cell Portal:SCP1376
dbGaP Study:phs002766
CELLxGENE
25,832 cells
•
The Tabula Sapiens Consortium* et al., 2022
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+21
T cell
Heart right ventricle
+4
Heart right ventricle
61-year-old stage
+5
61-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Neutrophil
Cardiac endothelial cell
Natural killer cell
Erythrocyte
Mature nk t cell
Mast cell
Cd8-positive, alpha-beta t cell
Platelet
Smooth muscle cell
Plasmacytoid dendritic cell
Macrophage
Ventricular cardiac muscle cell
Plasma cell
Cd4-positive, alpha-beta t cell
Mesothelial cell
B cell
Pericyte
Neuron
Regular atrial cardiac myocyte
Monocyte
Fibroblast of cardiac tissue
Tissue
Heart right ventricle
Right cardiac atrium
Cardiac ventricle
Cardiac atrium
Heart
Developmental stage
61-year-old stage
56-year-old stage
74-year-old stage
59-year-old stage
45-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
10x 3' v3
Suspension type
Cell
Related Links
AWS Open Data:tabula-sapiens
CZ BioHub Portal:tabula-sapiens-portal
HumanCellAtlas:10201832-7c73-4033-9b65-3ef13d81656a
UCSC Cell Browser:tabula-sapiens
DOI:10.1101/2024.12.03.626516
UCSC Genome Browser:hgTrackUi?hgsid=1437536541_FfasmBrAlAiA7oFphu1csVv0KHgc&db=hg38&c=chrX&g=tabulaSapiens
CELLxGENE
25,817 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
+12
Podocyte
Kidney
Kidney
6-month-old stage
6-month-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
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney granular 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
6-month-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
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