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Cell
871
Nucleus
653
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Asap
43
Bgee
40
Cellxgene
2,045
Single cell portal
176
Sort
Most cells
Fewest cells
2304
datasets
CELLxGENE
59,505 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+10
Fibroblast
Substantia nigra
Substantia nigra
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
Fibroblast
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Vascular associated smooth muscle cell
Pericyte
Leukocyte
Ependymal cell
Central nervous system macrophage
Neuron
Endothelial cell
Tissue
Substantia nigra
Developmental stage
42-year-old stage
50-year-old stage
29-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
59,341 cells
•
Litviňuková et al., 2020
Cells of the adult human heart
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
Fibroblast
Heart left ventricle
+5
Heart left ventricle
Sixth decade stage
+3
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
+1
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Tissue
Heart left ventricle
Apex of heart
Left cardiac atrium
Interventricular septum
Right cardiac atrium
Heart right ventricle
Developmental stage
Sixth decade stage
Eighth decade stage
Fifth decade stage
Seventh decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Cell
Related Links
UCSC Cell Browser:heart-cell-atlas
ENA Project:ERP123138
support.10xgenomics.com
HumanCellAtlas:ad98d3cd-26fb-4ee3-99c9-8a2ab085e737
Teichmann lab
Github:cartal/HCA_Heart
heartcellatlas.org
UCSC Genome Browser:hgTrackUi?db=hg38&g=heartCellAtlas&position=default
Single Cell Portal
59,286 cells
Explore
Homo sapiens
Homo sapiens
Cytotoxic t cell
+6
Cytotoxic t cell
Disease
+1
Disease
Seq-well
Seq-well
Organism
Homo sapiens
Cell type
Cytotoxic t cell
Plasmablast
Dendritic cell
B cell
Natural killer cell
Monocyte
T cell
Tissue
Developmental stage
Disease
Disease
Hiv infectious disease
Sex
Technology
Seq-well
Suspension type
CELLxGENE
59,217 cells
•
Reichart et al., 2022
Pathogenic variants damage cell composition and single cell transcription in cardiomyopathies
Explore
h5ad
Homo sapiens
Homo sapiens
Myeloid cell
Myeloid cell
Heart left ventricle
+3
Heart left ventricle
Third decade stage
+7
Third decade stage
Non-compaction cardiomyopathy
+3
Non-compaction cardiomyopathy
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Myeloid cell
Tissue
Heart left ventricle
Apex of heart
Interventricular septum
Heart right ventricle
Developmental stage
Third decade stage
Postnatal stage
Sixth decade stage
Fourth decade stage
Eighth decade stage
Fifth decade stage
Pediatric stage
Seventh decade stage
Disease
Non-compaction cardiomyopathy
Arrhythmogenic right ventricular cardiomyopathy
Dilated cardiomyopathy
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
Github:heiniglab/DCM_heart_cell_atlas
Zenodo record:6962685#.YuyuihxBzKE
EGA Study:EGAS00001006374
CELLxGENE
58,417 cells
•
Khouri-Farah et al., 2025
Gene expression patterns of the developing human face at single cell resolution reveal cell type contributions to normal facial variation and disease risk
Explore
h5ad
Homo sapiens
Homo sapiens
Mesenchymal cell
+1
Mesenchymal cell
Pharyngeal arch system
Pharyngeal arch system
Carnegie stage 20
+5
Carnegie stage 20
Normal
Normal
Female
+1
Female
10x multiome
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Mesenchymal cell
Osteoblast
Tissue
Pharyngeal arch system
Developmental stage
Carnegie stage 20
Carnegie stage 12
Carnegie stage 14
Carnegie stage 13
Carnegie stage 17
Carnegie stage 16
Disease
Normal
Sex
Female
Male
Technology
10x multiome
Suspension type
Nucleus
Related Links
DOI:10.5281/zenodo.14343226
Github:cotneylab/craniofacial_snrna
DOI:10.25550/8D-2JQ0
DOI:10.25550/7N-54BY
CELLxGENE
58,265 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Sst gabaergic interneuron
Sst gabaergic interneuron
Middle temporal gyrus
Middle temporal gyrus
Adult stage
+23
Adult stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Sst gabaergic interneuron
Tissue
Middle temporal gyrus
Developmental stage
Adult stage
78-year-old stage
80 year-old and over stage
72-year-old stage
83-year-old stage
85-year-old stage
81-year-old stage
82-year-old stage
86-year-old stage
70-year-old stage
75-year-old stage
50-year-old stage
89-year-old stage
68-year-old stage
29-year-old stage
77-year-old stage
69-year-old stage
88-year-old stage
87-year-old stage
60-year-old stage
80-year-old stage
84-year-old stage
43-year-old stage
65-year-old stage
Disease
Dementia
Normal
Sex
Female
Male
Technology
10x multiome
10x 3' v3
Suspension type
Nucleus
Related Links
Alzheimer's Disease Research Center
Adult Changes in Thought Study
Allen Brain Map:seattle-alzheimers-disease
AD knowledge portal:syn26223298
AWS Open Data:allen-sea-ad-atlas
BRaIN-lab
CELLxGENE
58,096 cells
•
Krienen et al., 2023
A marmoset brain cell census reveals regional specialization of cellular identities
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Medium spiny neuron
Medium spiny neuron
Nucleus accumbens
+2
Nucleus accumbens
Prime adult stage
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Medium spiny neuron
Tissue
Nucleus accumbens
Putamen
Caudate nucleus
Developmental stage
Prime adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
submit.brainimagelibrary.org
NeMo archive:dat-1je0mn3
Single Cell Portal
58,090 cells
Explore
Rattus norvegicus
Rattus norvegicus
Smooth muscle cell
+10
Smooth muscle cell
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Rattus norvegicus
Cell type
Smooth muscle cell
Oligodendrocyte
B cell
Erythroid lineage cell
Leukocyte
Adipocyte
Mesenchymal stem cell of adipose tissue
Monocyte
Mesothelial cell
T cell
Endothelial cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Related Links
GEO series:GSE244451
Github:naultran/BAT_taPVAT_snRNAseq
CELLxGENE
58,054 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 endothelial cell
+2
Cardiac endothelial cell
Heart left ventricle
+1
Heart left ventricle
27-year-old stage
+22
27-year-old stage
Myocarditis
+1
Myocarditis
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Cardiac endothelial cell
Smooth muscle cell
Pericyte
Tissue
Heart left ventricle
Apex of heart
Developmental stage
27-year-old stage
26-year-old stage
19-year-old stage
Third decade stage
21-year-old stage
61-year-old stage
Sixth decade stage
49-year-old stage
52-year-old stage
70-year-old stage
38-year-old stage
Eighth decade stage
30-year-old stage
55-year-old stage
64-year-old stage
29-year-old stage
32-year-old stage
28-year-old stage
Fifth decade stage
31-year-old stage
25-year-old stage
24-year-old stage
Seventh decade stage
Disease
Myocarditis
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Nucleus
Related Links
ENA Project:PRJEB39602
EGA dataset:EGAD00001009292
DOI:10.1126/science.abo1984
DOI:10.1038/s41586-020-2797-4
EGA Study:EGAS50000000769
CELLxGENE
57,918 cells
•
Watanabe et al., 2022
Anomalous Epithelial Variations and Ectopic Inflammatory Response in Chronic Obstructive Pulmonary Disease
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+20
Fibroblast
Lung parenchyma
Lung parenchyma
62-year-old stage
+14
62-year-old stage
Normal
+1
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast
Mast cell
Vein endothelial cell
Smooth muscle cell
Neutrophil
Plasma cell
B cell
Capillary endothelial cell
Club cell
Pulmonary alveolar type 2 cell
Leukocyte
Cd8-positive, alpha-beta t cell
Pulmonary alveolar type 1 cell
Endothelial cell of lymphatic vessel
Natural killer cell
Macrophage
Conventional dendritic cell
Monocyte
Cd4-positive, alpha-beta t cell
Lung multiciliated epithelial cell
Endothelial cell
Tissue
Lung parenchyma
Developmental stage
62-year-old stage
72-year-old stage
81-year-old stage
61-year-old stage
58-year-old stage
51-year-old stage
79-year-old stage
64-year-old stage
77-year-old stage
33-year-old stage
76-year-old stage
56-year-old stage
67-year-old stage
65-year-old stage
71-year-old stage
Disease
Normal
Chronic obstructive pulmonary disease
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE173896
CELLxGENE
57,855 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
Oligodendrocyte
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Oligodendrocyte
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 Atlases:rnaseq/human-mtg-10x_sea-ad
Allen Brain Map:classes/multimodal-characterization
NeMo archive:dat-p3eei0g
Github:AllenInstitute/human_variation
CELLxGENE
57,723 cells
•
Chen et al., 2021
Differential pre-malignant programs and microenvironment chart distinct paths to malignancy in human colorectal polyps
Explore
h5ad
Homo sapiens
Homo sapiens
Transit amplifying cell
+8
Transit amplifying cell
Ascending colon
+6
Ascending colon
62-year-old stage
+18
62-year-old stage
Colon sessile serrated adenoma/polyp
+5
Colon sessile serrated adenoma/polyp
Female
+1
Female
Trudrop
Trudrop
Cell
Cell
Organism
Homo sapiens
Cell type
Transit amplifying cell
Neoplastic cell
Intestinal enteroendocrine cell
Tuft cell
Goblet cell
Abnormal cell
Gut absorptive cell
Intestinal epithelial cell
Intestinal crypt stem cell of colon
Tissue
Ascending colon
Sigmoid colon
Transverse colon
Hepatic flexure of colon
Descending colon
Hepatic cecum
Rectum
Developmental stage
62-year-old stage
74-year-old stage
72-year-old stage
53-year-old stage
57-year-old stage
52-year-old stage
70-year-old stage
55-year-old stage
58-year-old stage
51-year-old stage
64-year-old stage
68-year-old stage
66-year-old stage
63-year-old stage
60-year-old stage
56-year-old stage
46-year-old stage
67-year-old stage
71-year-old stage
Disease
Colon sessile serrated adenoma/polyp
Tubulovillous adenoma
Tubular adenoma
Colorectal cancer
Hyperplastic polyp
Normal
Sex
Female
Male
Technology
Trudrop
Suspension type
Cell
Related Links
HumanCellAtlas:50154d1e-2308-44bf-9608-10c7afaa560b
dbGaP Study:phs002371
humantumoratlas.org
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