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Nucleus
679
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ASAP
79
Bgee
40
CELLxGENE
2,213
Single Cell Portal
183
Sort
Most cells
Fewest cells
2515
datasets
CELLxGENE
9,354 cells
•
Gong et al., 2025
Multi-omic profiling reveals age-related immune dynamics in healthy adults
Explore
h5ad
Homo sapiens
Homo sapiens
Erythrocyte
+4
Erythrocyte
Blood
Blood
66-year-old stage
+50
66-year-old stage
Cytomegalovirus infection
+1
Cytomegalovirus infection
Female
+1
Female
10x gene expression flex
10x gene expression flex
Cell
Cell
Organism
Homo sapiens
Cell type
Erythrocyte
Platelet
Basophil mast progenitor cell
Common myeloid progenitor
Common lymphoid progenitor
Tissue
Blood
Developmental stage
66-year-old stage
69-year-old stage
75-year-old stage
65-year-old stage
42-year-old stage
89-year-old stage
43-year-old stage
87-year-old stage
71-year-old stage
85-year-old stage
53-year-old stage
61-year-old stage
88-year-old stage
52-year-old stage
54-year-old stage
68-year-old stage
48-year-old stage
44-year-old stage
56-year-old stage
55-year-old stage
84-year-old stage
82-year-old stage
50-year-old stage
80-year-old stage
51-year-old stage
57-year-old stage
72-year-old stage
81-year-old stage
74-year-old stage
80 year-old and over stage
49-year-old stage
58-year-old stage
59-year-old stage
67-year-old stage
77-year-old stage
64-year-old stage
45-year-old stage
62-year-old stage
86-year-old stage
41-year-old stage
70-year-old stage
46-year-old stage
60-year-old stage
78-year-old stage
63-year-old stage
47-year-old stage
76-year-old stage
79-year-old stage
73-year-old stage
83-year-old stage
40-year-old stage
Disease
Cytomegalovirus infection
Normal
Sex
Female
Male
Technology
10x gene expression flex
Suspension type
Cell
Related Links
Dynamics of Human Immune Health and Age
GSE275067
Dynamics of IHA Collection
CELLxGENE
9,337 cells
•
Szabo et al., 2021
Longitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19
Explore
h5ad
Homo sapiens
Homo sapiens
Neutrophil
+6
Neutrophil
Blood
Blood
49-year-old stage
49-year-old stage
Covid-19
Covid-19
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neutrophil
Mature nk t cell
Platelet
Myeloid cell
Plasma cell
B cell
Dendritic cell
Tissue
Blood
Developmental stage
49-year-old stage
Disease
Covid-19
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
data.mendeley.com
github.com
covid19cellatlas.org
CELLxGENE
9,286 cells
Explore
h5ad
Homo sapiens
Homo sapiens
Glioblast (sensu vertebrata)
+15
Glioblast (sensu vertebrata)
Forebrain meninges
+2
Forebrain meninges
13th week post-fertilization stage
+8
13th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Glioblast (sensu vertebrata)
Oligodendrocyte precursor cell
Retinal ganglion cell
Epithelial cell
Forebrain neuroblast
Forebrain radial glial cell
Neuroblast (sensu vertebrata)
Radial glial cell
Pinealocyte
Interneuron
Choroid plexus epithelial cell
Spinal cord radial glial cell
Neuron
Retinal cell
Neuronal-restricted precursor
Neural progenitor cell
Tissue
Forebrain meninges
Brain meninx
Meninx
Developmental stage
13th week post-fertilization stage
12th week post-fertilization stage
Carnegie stage 20
9th week post-fertilization stage
Carnegie stage 23
10th week post-fertilization stage
Carnegie stage 21
Carnegie stage 16
Carnegie stage 18
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
github.com
CELLxGENE
9,275 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Immature t cell
+5
Immature t cell
Thymus
Thymus
3-month-old stage
+2
3-month-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Mus musculus
Cell type
Immature t cell
Dn3 thymocyte
Thymocyte
Dn4 thymocyte
Professional antigen presenting cell
Double negative thymocyte
Tissue
Thymus
Developmental stage
3-month-old stage
20-month-old stage and over
18-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GSE132042
Processed files
Tabula Muris Senis
SmartSeq2 for HTP Generation of FACS Sorted Single Cell Libraries V.1
github.com
CELLxGENE
9,263 cells
•
Matuck et al., 2026
An integrated single-cell and spatial proteotranscriptomics atlas of fibroblast-driven immunoregulation within the human adult oral cavity
Explore
h5ad
Homo sapiens
Homo sapiens
Neutrophil
+17
Neutrophil
Hard palate
+1
Hard palate
34-year-old stage
+2
34-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Neutrophil
Merkel cell
Blood vessel endothelial cell
Natural killer cell
Endothelial cell of lymphatic vessel
Mast cell
Cd8-positive, alpha-beta t cell
Cd4-positive helper t cell
Schwann cell
Melanocyte
Macrophage
Mural cell
Keratinocyte
Plasma cell
Langerhans cell
B cell
Fibroblast
Dendritic cell
Tissue
Hard palate
Soft palate
Developmental stage
34-year-old stage
Seventh decade stage
32-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
github.com
CELLxGENE
9,257 cells
•
Bakken et al., 2021
Comparative cellular analysis of motor cortex in human, marmoset and mouse
Explore
h5ad
Callithrix jacchus
Callithrix jacchus
Gabaergic neuron
Gabaergic neuron
Primary motor cortex
Primary motor cortex
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Callithrix jacchus
Cell type
Gabaergic neuron
Tissue
Primary motor cortex
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Nuclei Isolation from Adult Human Brain Tissue for 10x
Human Tissue Slicing and Dissections for Nuclear Isolations
NeMo Analytics - individual species
Nuclei Isolation from Adult_Human_Brain_Tissue
github.com
Cytosplore Viewer
NeMo Analytics - integrated species
github.com
Preparation of frozen nuclei for single-nucleus RNA
github.com
NeMO Archive
Extraction of Nuclei from Brain Tissue
CELLxGENE
9,249 cells
•
Bakken et al., 2021
Comparative cellular analysis of motor cortex in human, marmoset and mouse
Explore
h5ad
Mus musculus
Mus musculus
Gabaergic neuron
Gabaergic neuron
Primary motor cortex
Primary motor cortex
Prime adult stage
Prime adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Mus musculus
Cell type
Gabaergic neuron
Tissue
Primary motor cortex
Developmental stage
Prime adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Nuclei Isolation from Adult Human Brain Tissue for 10x
Human Tissue Slicing and Dissections for Nuclear Isolations
NeMo Analytics - individual species
Nuclei Isolation from Adult_Human_Brain_Tissue
github.com
Cytosplore Viewer
NeMo Analytics - integrated species
github.com
Preparation of frozen nuclei for single-nucleus RNA
github.com
NeMO Archive
Extraction of Nuclei from Brain Tissue
CELLxGENE
9,203 cells
•
Gabitto et al., 2024
Integrated multimodal cell atlas of Alzheimer’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Caudal ganglionic eminence derived interneuron
Caudal ganglionic eminence derived interneuron
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
Caudal ganglionic eminence derived interneuron
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
UW Alzheimer's Disease Research Center
Adult Changes in Thought Study
UW BioRepository and Integrated Neuropathology
SEA-AD Homepage
AD Knowledge Portal
DOWNLOAD OFFICIAL DATASET
CELLxGENE
9,156 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Fibroblast
Fibroblast
Subthalamic nucleus
+87
Subthalamic nucleus
42-year-old stage
+3
42-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Fibroblast
Tissue
Subthalamic nucleus
Medial geniculate body
Brodmann (1909) area 25
Lateral amygdaloid nucleus
Anterior nuclear group
Corticomedial nuclear complex
Pontine reticular formation
Temporal fusiform gyrus
Brodmann (1909) area 19
Centromedian nucleus of thalamus
Intralaminar nuclear group
Medial dorsal nucleus of thalamus
Parabrachial nucleus
Primary visual cortex
Claustrum of brain
Inferior temporal gyrus
Rostral ca3
Nucleus of medulla oblongata
Red nucleus
Subicular complex
Pontine tegmentum
Pontine nuclear group
Globus pallidus
Midbrain nucleus
Piriform cortex
Hippocampal field
Lateral nuclear group of thalamus
Brodmann (1909) area 13
Middle temporal gyrus
Central amygdaloid nucleus
Ventral anterior nucleus of thalamus
Septal nuclear complex
Brodmann (1909) area 35
Cerebellar nuclear complex
Median tuberal portion
Extrastriate cortex
Epithalamus
Dorsal tegmental nucleus
Brodmann (1909) area 38
Lateral entorhinal cortex
Supraoptic nucleus
Brodmann (1909) area 32
Medial entorhinal cortex
Midbrain tectum
Inferior olivary complex
Brodmann (1909) area 40
Inferior frontal gyrus
Substantia nigra
Agranular insular cortex
Brodmann (1909) area 43
Nucleus accumbens
Cerebrocerebellum
Gray matter of midbrain
Substantia innominata
Anterior cortical amygdaloid nucleus
Primary somatosensory cortex
Brodmann (1909) area 14
Anterior olfactory nucleus
Accessory basal amygdaloid nucleus
Pulvinar nucleus
Primary auditory cortex
Hypothalamus
Brodmann (1909) area 23
Primary motor cortex
Brodmann (1909) area 24
Brodmann (1909) area 46
Medial zone of hypothalamus
Posterior parahippocampal gyrus
Basolateral amygdaloid nuclear complex
Perirhinal cortex
Granular insular cortex
Cerebellar vermis
Spinal cord
Retrosplenial region
Cuneus cortex
Dentate gyrus of hippocampal formation
Lateral posterior nucleus of thalamus
Mammillary body
Superior temporal gyrus
Body of caudate nucleus
Uncal ca1
Bed nucleus of stria terminalis
Superior parietal cortex
Lateral geniculate body
Putamen
Pretectal region
Nucleus of dorsal thalamus
Preoptic area
Developmental stage
42-year-old stage
29-year-old stage
50-year-old stage
60-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
data.nemoarchive.org
github (analysis and figures)
github (auto-annotations)
Single Cell Portal
9,149 cells
Explore
Mus musculus
Mus musculus
Endothelial cell of lymphatic vessel
Endothelial cell of lymphatic vessel
Normal
Normal
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Endothelial cell of lymphatic vessel
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v3
Suspension type
Related Links
Publication
CELLxGENE
9,110 cells
•
Duran et al., 2025
A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments
Explore
h5ad
Danio rerio
Danio rerio
Podocyte
+5
Podocyte
Corpuscles of stannius
+5
Corpuscles of stannius
Pharyngula:prim-15
+9
Pharyngula:prim-15
Normal
Normal
Sci-rna-seq3
Sci-rna-seq3
Nucleus
Nucleus
Organism
Danio rerio
Cell type
Podocyte
Mesodermal cell
Endocrine cell
Epithelial cell of distal tubule
Multiciliated epithelial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Corpuscles of stannius
Distal tubule
Pronephric glomerulus
Multicellular anatomical structure
Pronephros
Proximal convoluted tubule
Developmental stage
Pharyngula:prim-15
Hatching:long-pec
Larval:protruding-mouth
Pharyngula:prim-25
Segmentation:26+ somites
Segmentation:14-19 somites
Hatching:pec-fin
Segmentation:20-25 somites
Pharyngula:high-pec
Pharyngula:prim-5
Disease
Normal
Sex
Technology
Sci-rna-seq3
Suspension type
Nucleus
Related Links
GSE295164
Processed Data
Saunders el al. (2023) Nature
CELLxGENE
9,096 cells
•
He et al., 2022
A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates
Explore
h5ad
Homo sapiens
Homo sapiens
Club cell
+10
Club cell
Lung
Lung
Carnegie stage 19
+7
Carnegie stage 19
Normal
Normal
Female
+1
Female
10x 5' v1
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Club cell
Lung secretory cell
Neuroendocrine cell
Pulmonary neuroendocrine cell
Basal cell
Respiratory tract epithelial cell
Pulmonary alveolar type 1 cell
Glandular secretory epithelial cell
Squamous epithelial cell
Epithelial cell of lung
Pulmonary alveolar type 2 cell
Tissue
Lung
Developmental stage
Carnegie stage 19
15th week post-fertilization stage
20th week post-fertilization stage
9th week post-fertilization stage
18th week post-fertilization stage
22nd week post-fertilization stage
Carnegie stage 16
11th week post-fertilization stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
Suspension type
Cell
Related Links
scRNA / GEX / VDJ (E-MTAB-11278)
Organoid (E-MTAB-11267)
Visium (E-MTAB-11265)
ATAC-seq (E-MTAB-11266)
fetal-lung.cellgeni.sanger.ac.uk
genome.ucsc.edu
github.com
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