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Cell
871
Nucleus
653
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Asap
43
Bgee
40
Cellxgene
2,045
Single cell portal
176
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Most cells
Fewest cells
2304
datasets
CELLxGENE
57,422 cells
•
van Zyl et al., 2022
Cell atlas of the human ocular anterior segment: Tissue-specific and shared cell types
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+7
Fibroblast
Iris
Iris
Adult stage
+4
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Schwann cell
Melanocyte
Blood vessel endothelial cell
Pigmented epithelial cell
Lymphocyte
Smooth muscle cell of sphincter of pupil
Macrophage
Tissue
Iris
Developmental stage
Adult stage
30-year-old stage
66-year-old stage
65-year-old stage
47-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GEO series:GSE199013
HumanCellAtlas:16e99159-78bc-44aa-b479-55a5e903bf50
BroadInstitute Single-Cell Portal:SCP1841/cell-atlas-of-the-human-ocular-anterior-segment-tissue-specific-and-shared-cell-types
CELLxGENE
57,414 cells
•
Krienen et al., 2023
A marmoset brain cell census reveals regional specialization of cellular identities
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Microglial cell
Microglial cell
Primary motor cortex
+31
Primary motor cortex
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Microglial cell
Tissue
Primary motor cortex
Anterior hypothalamic region
Primary visual cortex
Nucleus accumbens
Dorsolateral prefrontal cortex
Primary somatosensory cortex
Lateral nuclear group of thalamus
Medial dorsal nucleus of thalamus
Putamen
Lateral geniculate body
Brodmann (1909) area 25
Posterior hypothalamic region
Ventral lateral nucleus of thalamus
Amygdala
Temporal cortex
Basal forebrain
Temporal lobe
Ventral thalamus
Secondary visual cortex
Dorsal thalamus
Brainstem
Primary auditory cortex
Medial amygdaloid nucleus
Hippocampal formation
Brodmann (1909) area 23
Lateral amygdaloid nucleus
Prefrontal cortex
Parietal cortex
Central amygdaloid nucleus
Caudate nucleus
Thalamic complex
Cerebellum lobule
Developmental stage
Prime adult stage
Late adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
NeMo archive:dat-1je0mn3
submit.brainimagelibrary.org
Single Cell Portal
57,056 cells
Explore
Mus musculus
Mus musculus
Astrocyte
+5
Astrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Astrocyte
Brain microvascular endothelial cell
Oligodendrocyte
Obsolete excitatory neuron
Obsolete inhibitory neuron
Microglial cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD721) (section 247)
Corresponding registered brain section (MD721) (section 248)
Corresponding registered brain section (MD721) (section 249)
Corresponding registered brain section (MD721) (section 250)
Corresponding registered brain section (MD721) (section 251)
Corresponding registered brain section (MD721) (section 252)
CELLxGENE
57,019 cells
•
Madissoon et al., 2019
scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+19
Fibroblast
Lung parenchyma
Lung parenchyma
Sixth decade stage
+3
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Fibroblast
Pulmonary alveolar epithelial cell
Mast cell
Plasma cell
Dendritic cell
B cell
Regulatory t cell
Blood vessel endothelial cell
Plasmacytoid dendritic cell
Muscle cell
Endothelial cell of lymphatic vessel
Lung macrophage
Natural killer cell
Conventional dendritic cell
Monocyte
Mononuclear leukocyte
Cd4-positive, alpha-beta t cell
T cell
Lung multiciliated epithelial cell
Cd8-positive, alpha-beta cytotoxic t cell
Tissue
Lung parenchyma
Developmental stage
Sixth decade stage
Eighth decade stage
Fifth decade stage
Seventh decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
protocols.io:cgap-macs-live-dead-separation-dm6gp71jgzpn/v1
tissuestabilitycellatlas.org
HumanCellAtlas:c4077b3c-5c98-4d26-a614-246d12c2e5d7
protocols.io:cgap-human-lung-dissociation-tissue-stability-stud-5jyl8noe7l2w/v1
Github:elo073/TissStab
ncbi.nlm.nih.gov
protocols.io:cgap-freezing-human-tissue-in-isopentane-n2bvjk1ngk5w/v1
Single Cell Expression Atlas Experiment:E-HCAD-1
UCSC Cell Browser:tissue-stability
protocols.io:cgap-human-spleen-dissociation-tissue-stability-st-ewov1yb92vr2/v1
protocols.io:cgap-human-oesophagus-epithelium-dissociation-tiss-eq2lydbxqlx9/v1
Bgee
56,902 cells
•
Davie et al., 2018
A Single-Cell Transcriptome Atlas of the Aging Drosophila Brain
Explore
h5ad
Drosophila melanogaster
Drosophila melanogaster
Peptidergic neuron
+59
Peptidergic neuron
Brain
Brain
Day 1 of adulthood
+7
Day 1 of adulthood
Normal
Normal
Mixed sex
Mixed sex
10x genomics v2
+1
10x genomics v2
Organism
Drosophila melanogaster
Cell type
Peptidergic neuron
Adult brain cell body glial cell
Adult ensheathing glial cell
Medulla intrinsic neuron mi1
Adult insulin secreting cell of pars intercerebralis
Itp neuron
Lamina monopolar neuron l2
Transmedullary neuron tm5c
Proximal medullary amacrine neuron pm3
Adult plasmatocyte
Transmedullary y neuron tmy14
Transmedullary neuron
Proximal medullary amacrine neuron pm4
Subperineurial glial cell
Adult capability neuron
Medulla tangential neuron mt3
Adult mushroom body output neuron
Adult ccap neuron
Adult kenyon cell
Lamina wide-field 1 neuron
Adult serotonergic neuron
Adult octopaminergic neuron
Adult dopaminergic pam neuron
Photoreceptor cell
Centrifugal neuron c3
Adult dopaminergic neuron
Obsolete neurosecretory neuron
Pacemaker neuron
Central nervous system neuron
Transmedullary neuron tm9
Lamina wide-field 2 neuron
Transmedullary neuron tm5
Adult optic lobe neuron
Adult brain perineurial glial cell
Adult antennal lobe projection neuron adpn
Lnv neuron
Adult neuron
Neural cell
Dn1 neuron
Medulla tangential neuron mt1
Astrocyte-like glial cell
Adult gamma kenyon cell
Sugar-sensing neuron of the adult brain
Lamina monopolar neuron
Adult optic chiasma glial cell
Medulla tangential neuron mt2
Lamina monopolar neuron l1
Cchamide-1 neuron
Distal medullary amacrine neuron
Distal medullary amacrine neuron dm9
Adult peptidergic neuron
Adult myoinhibitory peptide neuron
Adult corazonin neuron
Adult tyraminergic neuron
Centrifugal neuron c2
Adult hugin neuron
Adult olfactory projection neuron
Lamina monopolar neuron l3
Proximal medullary amacrine neuron
Medial antennal lobe tract projection neuron
Tissue
Brain
Developmental stage
Day 1 of adulthood
Day 50 of adulthood
Day 15 of adulthood
Day 6 of adulthood
Day 9 of adulthood
Day 0 of adulthood
Day 3 of adulthood
Day 30 of adulthood
Disease
Normal
Sex
Mixed sex
Technology
10x genomics v2
Illumina
Suspension type
Related Links
SRA Project:SRP125768
CELLxGENE
56,507 cells
•
Liang et al., 2023
A multi-omics atlas of the human retina at single-cell resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Amacrine cell
Amacrine cell
Peripheral region of retina
+2
Peripheral region of retina
78-year-old stage
+4
78-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Amacrine cell
Tissue
Peripheral region of retina
Fovea centralis
Macula lutea proper
Developmental stage
78-year-old stage
73-year-old stage
83-year-old stage
84-year-old stage
65-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
UCSC Cell Browser:retina-atac
HumanCellAtlas:9c20a245-f2c0-43ae-82c9-2232ec6b594f
GEO series:GSE226108
CELLxGENE
56,367 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
+10
Fibroblast
Dentate gyrus of hippocampal formation
Dentate gyrus of hippocampal formation
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
Dentate gyrus of hippocampal formation
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
55,968 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Lamp5 gabaergic interneuron
Lamp5 gabaergic interneuron
Dorsolateral prefrontal cortex
Dorsolateral prefrontal cortex
78-year-old stage
+20
78-year-old stage
Dementia
+1
Dementia
Female
+1
Female
10x multiome
+1
10x multiome
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Lamp5 gabaergic interneuron
Tissue
Dorsolateral prefrontal cortex
Developmental 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
42-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
80-year-old stage
84-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
BRaIN-lab
Allen Brain Map:seattle-alzheimers-disease
AWS Open Data:allen-sea-ad-atlas
AD knowledge portal:syn26223298
CELLxGENE
55,515 cells
•
Chiou et al., 2023
A single-cell multi-omic atlas spanning the adult rhesus macaque brain
Explore
h5ad
Macaca mulatta
Macaca mulatta
Oligodendrocyte precursor cell
Oligodendrocyte precursor cell
Primary motor cortex
+26
Primary motor cortex
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
+1
Female
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Macaca mulatta
Cell type
Oligodendrocyte precursor cell
Tissue
Primary motor cortex
Perirhinal cortex
Inferior temporal gyrus
Midbrain
Cerebrocerebellum
Primary visual cortex
Nucleus accumbens
Dorsolateral prefrontal cortex
Primary somatosensory cortex
Medial dorsal nucleus of thalamus
Lateral geniculate body
Ventral lateral nucleus of thalamus
Amygdala
Brodmann (1909) area 19
Inferior parietal cortex
Primary auditory cortex
Cerebellar vermis
Pons
Entorhinal cortex
Hippocampal formation
Anterior cingulate cortex
Prefrontal cortex
Superior parietal cortex
Superior temporal sulcus
Corpus callosum
Medulla oblongata
Head of caudate nucleus
Developmental stage
Prime adult stage
Juvenile stage
Disease
Normal
Sex
Female
Male
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
DOI:10.17504/protocols.io.9yih7ue
NeMo archive:dat-rtmm5q2
Zenodo record:7925943
Zenodo record:7925933
Zenodo record:7925925
CELLxGENE
55,348 cells
•
Jin et al., 2021
An interactive single cell web portal identifies gene and cell networks in COVID-19 host responses
Explore
h5ad
Homo sapiens
Homo sapiens
Classical monocyte
Classical monocyte
Blood
Blood
54-year-old stage
+32
54-year-old stage
Covid-19
+1
Covid-19
Female
+1
Female
10x 3' v3
+2
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Classical monocyte
Tissue
Blood
Developmental stage
54-year-old stage
Adult stage
39-year-old stage
62-year-old stage
27-year-old stage
78-year-old stage
80 year-old and over stage
73-year-old stage
53-year-old stage
Third decade stage
61-year-old stage
Sixth decade stage
82-year-old stage
49-year-old stage
36-year-old stage
Fourth decade stage
48-year-old stage
70-year-old stage
38-year-old stage
59-year-old stage
Eighth decade stage
75-year-old stage
68-year-old stage
29-year-old stage
Fifth decade stage
63-year-old stage
60-year-old stage
84-year-old stage
37-year-old stage
46-year-old stage
67-year-old stage
Seventh decade stage
47-year-old stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
10x 3' v3
Seq-well
10x 3' v2
Suspension type
Cell
Related Links
cincinnatichildrens.org
toppcell.cchmc.org
CELLxGENE
54,934 cells
•
Domínguez Conde et al., 2022
Cross-tissue immune cell analysis reveals tissue-specific features in humans
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmablast
+7
Plasmablast
Sigmoid colon
+16
Sigmoid colon
Sixth decade stage
+2
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+2
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmablast
Germinal center b cell
Pro-b cell
Memory b cell
Plasma cell
Precursor b cell
Lymphocyte
Naive b cell
Tissue
Sigmoid colon
Lung
Transverse colon
Caecum
Mesenteric lymph node
Liver
Lamina propria
Jejunal epithelium
Ileum
Blood
Bone marrow
Omentum
Spleen
Thymus
Skeletal muscle tissue
Duodenum
Thoracic lymph node
Developmental stage
Sixth decade stage
Eighth decade stage
Seventh decade stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 5' v2
10x 5' v1
Suspension type
Cell
Related Links
pan-immune.cells.ucsc.edu
celltypist.org
BroadInstitute Single-Cell Portal:SCP1845
HumanCellAtlas:04e4292c-f62f-4098-ae9b-fd69ae002a90
ArrayExpress BioStudies:E-MTAB-11536
Bgee
54,837 cells
•
Article
Explore
h5ad
Mus musculus
Mus musculus
Fibroblast
+45
Fibroblast
Trachea
+11
Trachea
3-month-old stage
3-month-old stage
Normal
Normal
Male
+1
Male
10x genomics v2
10x genomics v2
Organism
Mus musculus
Cell type
Fibroblast
Tracheal epithelial cell
Kidney collecting duct cell
Keratinocyte
Luminal cell of lactiferous duct
Mast cell
Cardiac endothelial cell
Splenic macrophage
Granulocyte
Mesenchymal stem cell
Endocardial cell
Fraction a pre-pro b cell
Smooth muscle cell
Chondroblast
Stromal cell
Cardiac muscle cell
Basal cell of epidermis
Dendritic cell
Kidney tubule cell
B cell
Mesenchymal cell
Obsolete somatic cell
Club cell
Hepatocyte
Hematopoietic stem cell
Basal cell of epithelium of trachea
Pulmonary alveolar type 2 cell
Basal cell of urothelium
Leukocyte
Lung macrophage
Natural killer cell
Macrophage
Ciliated epithelial cell
Neuroendocrine cell
Lung endothelial cell
Skeletal muscle satellite cell
Fenestrated endothelial cell
Erythrocyte
Ciliated cell
Monocyte
Basal cell
Mesothelial cell
Fibroblast of cardiac tissue
T cell
Endothelial cell
Bladder cell
Tissue
Trachea
Lung
Liver
Limb muscle
Bone marrow
Tongue
Urinary bladder
Spleen
Adult mammalian kidney
Thymus
Heart
Mammary gland
Developmental stage
3-month-old stage
Disease
Normal
Sex
Male
Female
Technology
10x genomics v2
Suspension type
Related Links
SRA Project:SRP131661
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