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Organism
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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
ASAP
16,551 cells
•
Li et al., 2022
Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Hemocyte
+1
Hemocyte
Body wall
Body wall
Day 5 of adulthood
Day 5 of adulthood
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Organism
Drosophila melanogaster
Cell type
Hemocyte
Indirect flight muscle cell
Tissue
Body wall
Developmental stage
Day 5 of adulthood
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
CELLxGENE
16,540 cells
•
Orozco et al., 2020
Integration of eQTL and a Single-Cell Atlas in the Human Eye Identifies Causal Genes for Age-Related Macular Degeneration
Explore
h5ad
Homo sapiens
Homo sapiens
Off-bipolar cell
+1
Off-bipolar cell
Retina
Retina
77-year-old stage
+3
77-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Off-bipolar cell
On-bipolar cell
Tissue
Retina
Developmental stage
77-year-old stage
79-year-old stage
65-year-old stage
70-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GEO series:GSE135133
BroadInstitute Single-Cell Portal:SCP484/nucseq-from-human-control-eyes-scrnaseq
HumanCellAtlas:e090445c-6971-4212-bc5f-ae4ec3914102
CELLxGENE
16,475 cells
•
Chan et al., 2021
Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmacytoid dendritic cell
+13
Plasmacytoid dendritic cell
Lung
+5
Lung
62-year-old stage
+13
62-year-old stage
Small cell lung carcinoma
Small cell lung carcinoma
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Natural killer cell
Regulatory t cell
B cell
Gamma-delta t cell
Conventional dendritic cell
Neutrophil
Monocyte
Cd4-positive, alpha-beta t cell
Exhausted t cell
Effector cd8-positive, alpha-beta t cell
Plasma cell
Mast cell
Cd8-positive, alpha-beta memory t cell
Tissue
Lung
Adrenal gland
Pleural effusion
Liver
Lymph node
Axilla
Developmental stage
62-year-old stage
64-year-old stage
68-year-old stage
55-year-old stage
75-year-old stage
77-year-old stage
74-year-old stage
72-year-old stage
67-year-old stage
47-year-old stage
81-year-old stage
69-year-old stage
70-year-old stage
71-year-old stage
Disease
Small cell lung carcinoma
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
data.humantumoratlas.org
dbGaP Study:phs002371
CELLxGENE
16,401 cells
•
Serizay et al., 2025
Cyclin switch tailors a cell cycle variant to orchestrate multiciliogenesis
Explore
h5ad
Mus musculus
Mus musculus
Oligodendrocyte
+8
Oligodendrocyte
Multiciliated ependymal cell
Multiciliated ependymal cell
Theiler stage 27
Theiler stage 27
Normal
Normal
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Oligodendrocyte
Neuron associated cell
Neuroblast (sensu vertebrata)
Microglial cell
Oligodendrocyte precursor cell
Multiciliated ependymal cell
Neural crest derived fibroblast
Deuterosomal cell
Radial glial cell
Tissue
Multiciliated ependymal cell
Developmental stage
Theiler stage 27
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE201773
DOI:10.5281/zenodo.14105247
DOI:10.1016/j.celrep.2024.115117
Bgee
16,337 cells
•
Gray et al., 2022
A human breast atlas integrating single-cell proteomics and transcriptomics
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
Natural killer cell
+11
Natural killer cell
Thoracic mammary gland
Thoracic mammary gland
39-year-old stage
+2
39-year-old stage
Normal
Normal
Female
Female
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Natural killer cell
Contractile cell
Basal-myoepithelial cell of mammary gland
T cell
B cell
Endothelial cell of lymphatic vessel
Luminal epithelial cell of mammary gland
Lactocyte
Mammary microvascular endothelial cell
Plasma cell
Fibroblast of mammary gland
Myeloid cell
Tissue
Thoracic mammary gland
Developmental stage
39-year-old stage
36-year-old stage
41-year-old stage
Disease
Normal
Sex
Female
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP329970
CELLxGENE
16,319 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte of the cerebral cortex
Astrocyte of the cerebral cortex
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Astrocyte of the cerebral cortex
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
16,291 cells
Explore
Mus musculus
Mus musculus
Natural killer cell
+11
Natural killer cell
Encephalitis
Encephalitis
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Natural killer cell
Dendritic cell
Choroid plexus macrophage
Cd8-positive, alpha-beta regulatory t cell
Gamma-delta t cell
Pericyte
Neutrophil
Monocyte
Myofibroblast cell
Fibroblast of choroid plexus
Blood vessel endothelial cell
Choroid plexus epithelial cell
Tissue
Developmental stage
Disease
Encephalitis
Sex
Technology
10x 3' v3
Suspension type
Single Cell Portal
16,281 cells
Explore
Mus musculus
Mus musculus
Neuron
Neuron
Normal
Normal
Mixed sex
Mixed sex
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Neuron
Tissue
Developmental stage
Disease
Normal
Sex
Mixed sex
Technology
10x 3' v3
Suspension type
Related Links
Link to Publication
CELLxGENE
16,245 cells
•
Olah et al., 2020
Single cell RNA sequencing of human microglia uncovers a subset associated with Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+5
T cell
Dorsolateral prefrontal cortex
+1
Dorsolateral prefrontal cortex
Adult stage
Adult stage
Alzheimer disease
+1
Alzheimer disease
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Microglial cell
B cell
Neural cell
Monocyte
Erythrocyte
Tissue
Dorsolateral prefrontal cortex
Temporal cortex
Developmental stage
Adult stage
Disease
Alzheimer disease
Temporal lobe epilepsy
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
vmenon.shinyapps.io
Github:vilasmenon/Microglia_Olah_et_al_2020
synapse.org:#!Synapse:syn21438358
CELLxGENE
16,234 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
Kidney loop of henle thick ascending limb epithelial cell
+9
Kidney loop of henle thick ascending limb epithelial cell
Renal medulla
Renal medulla
72-year-old stage
72-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney interstitial fibroblast
Leukocyte
Kidney proximal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Macrophage
Blood vessel smooth muscle cell
Endothelial cell
Kidney collecting duct intercalated cell
Kidney distal convoluted tubule epithelial cell
Tissue
Renal medulla
Developmental stage
72-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
GEO series:GSE190094
Github:marshalljamie/Kidney-Slide-seq
Github:MacoskoLab/slideseq-tools
grekalab.org
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
CELLxGENE
16,227 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
L6b glutamatergic cortical neuron
L6b glutamatergic cortical neuron
Middle temporal gyrus
Middle temporal gyrus
43-year-old stage
+23
43-year-old stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L6b glutamatergic cortical neuron
Tissue
Middle temporal gyrus
Developmental stage
43-year-old stage
68-year-old stage
88-year-old stage
86-year-old stage
82-year-old stage
83-year-old stage
60-year-old stage
75-year-old stage
80-year-old stage
77-year-old stage
Adult stage
89-year-old stage
78-year-old stage
72-year-old stage
80 year-old and over stage
81-year-old stage
87-year-old stage
84-year-old stage
65-year-old stage
85-year-old stage
50-year-old stage
29-year-old stage
69-year-old stage
70-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
16,119 cells
•
Ulrich et al., 2024
Cellular heterogeneity and dynamics of the human uterus in healthy premenopausal women
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of artery
+3
Endothelial cell of artery
Myometrium
+1
Myometrium
32-year-old stage
+7
32-year-old stage
Normal
Normal
Female
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of artery
Endothelial cell of uterus
Capillary endothelial cell
Endothelial cell of venule
Tissue
Myometrium
Endometrium
Developmental stage
32-year-old stage
31-year-old stage
28-year-old stage
26-year-old stage
Young adult stage
23-year-old stage
29-year-old stage
37-year-old stage
Disease
Normal
Sex
Female
Technology
10x 3' v2
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE260658
ArrayExpress BioStudies:E-MTAB-10287
GEO series:GSE111976
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