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Disease
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Technology
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Cell
893
Nucleus
659
Data Source
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Asap
43
Bgee
40
Cellxgene
2,077
Single cell portal
179
Sort
Most cells
Fewest cells
2339
datasets
CELLxGENE
13,691 cells
•
Kamath et al., 2022
Single-cell genomic profiling of human dopamine neurons identifies a population that selectively degenerates in Parkinson’s disease
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte precursor cell
Oligodendrocyte precursor cell
Substantia nigra pars compacta
Substantia nigra pars compacta
49-year-old stage
+12
49-year-old stage
Parkinson disease
+2
Parkinson disease
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte precursor cell
Tissue
Substantia nigra pars compacta
Developmental stage
49-year-old stage
91-year-old stage
82-year-old stage
83-year-old stage
75-year-old stage
92-year-old stage
74-year-old stage
76-year-old stage
89-year-old stage
78-year-old stage
79-year-old stage
90-year-old stage
70-year-old stage
Disease
Parkinson disease
Lewy body dementia
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
macoskolab.com
GEO series:GSE178265
HumanCellAtlas:c412be53-cf95-47c7-980c-c0a0caa2d3a0
BroadInstitute Single-Cell Portal:SCP1768
CELLxGENE
13,635 cells
•
Andrews et al., 2024
Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Explore
h5ad
Homo sapiens
Homo sapiens
Erythroid lineage cell
+5
Erythroid lineage cell
Caudate lobe of liver
Caudate lobe of liver
Young adult stage
+2
Young adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Erythroid lineage cell
Hepatocyte
Centrilobular region hepatocyte
Erythroblast
Midzonal region hepatocyte
Periportal region hepatocyte
Tissue
Caudate lobe of liver
Developmental stage
Young adult stage
Prime adult stage
Late adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 5' v1
Suspension type
Cell
Related Links
nature.com
GEO series:GSE115469
GEO series:GSE243977
GEO series:GSE247128
GEO series:GSE245620
GEO series:GSE240429
CELLxGENE
13,623 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
+25
Oligodendrocyte
Nucleus of medulla oblongata
Nucleus of medulla oblongata
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
Oligodendrocyte
Natural killer cell
Astrocyte
Purkinje cell
Bergmann glial cell
T cell
Medial ganglionic eminence derived interneuron
Microglial cell
Oligodendrocyte precursor cell
Neuron
Ependymal cell
Pericyte
Committed oligodendrocyte precursor
Monocyte
Cerebellar inhibitory gabaergic interneuron
Cerebellar granule cell
Intratelencephalic-projecting glutamatergic cortical neuron
Vascular associated smooth muscle cell
Endothelial cell
Caudal ganglionic eminence derived interneuron
Choroid plexus epithelial cell
Central nervous system macrophage
Midbrain-derived inhibitory neuron
Fibroblast
Lamp5 lhx6 neuron
Unipolar brush cell
Tissue
Nucleus of medulla oblongata
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
13,607 cells
•
Yan et al., 2020
Cell Atlas of The Human Fovea and Peripheral Retina
Explore
h5ad
Homo sapiens
Homo sapiens
Glycinergic amacrine cell
+1
Glycinergic amacrine cell
Fovea centralis
+1
Fovea centralis
64-year-old stage
+6
64-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
+1
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Glycinergic amacrine cell
Gabaergic amacrine cell
Tissue
Fovea centralis
Peripheral region of retina
Developmental stage
64-year-old stage
60-year-old stage
74-year-old stage
78-year-old stage
65-year-old stage
53-year-old stage
69-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
10x 3' v3
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
13,544 cells
•
Fink et al., 2022
Single-cell and spatial mapping Identify cell types and signaling Networks in the human ureter
Explore
h5ad
Homo sapiens
Homo sapiens
Intermediate cell of urothelium
+2
Intermediate cell of urothelium
Ureter
Ureter
68-year-old stage
+8
68-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Intermediate cell of urothelium
Umbrella cell of urothelium
Basal cell of urothelium
Tissue
Ureter
Developmental stage
68-year-old stage
82-year-old stage
75-year-old stage
74-year-old stage
81-year-old stage
79-year-old stage
65-year-old stage
85-year-old stage
69-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE184111
GEO series:GSE184112
UCSC Cell Browser:adult-ureter
Zenodo record:6762182
Github:2019surbhi/tinglab_ureter_analysis
CELLxGENE
13,417 cells
•
Almanzar et al., 2020
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Explore
h5ad
Mus musculus
Mus musculus
Microglial cell
+1
Microglial cell
Brain
Brain
20-month-old stage and over
+2
20-month-old stage and over
Normal
Normal
Female
+1
Female
Smart-seq2
Smart-seq2
Cell
Cell
Organism
Mus musculus
Cell type
Microglial cell
Macrophage
Tissue
Brain
Developmental stage
20-month-old stage and over
18-month-old stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
Suspension type
Cell
Related Links
GEO series:GSE132042
FigShare Dataset:Processed_files_to_use_with_scanpy_/8273102/2
CZ BioHub Portal:tabula-muris-senis
protocols.io:smartseq2-for-htp-generation-of-facs-sorted-single-2uwgexe
Github:czbiohub/tabula-muris-senis
CELLxGENE
13,382 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
+22
Oligodendrocyte
Nucleus of dorsal thalamus
Nucleus of dorsal thalamus
50-year-old stage
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte
Natural killer cell
Astrocyte
T cell
Medial ganglionic eminence derived interneuron
Microglial cell
Oligodendrocyte precursor cell
B cell
Neuron
Ependymal cell
Pericyte
Committed oligodendrocyte precursor
Monocyte
Intratelencephalic-projecting glutamatergic cortical neuron
Vascular associated smooth muscle cell
Endothelial cell
Caudal ganglionic eminence derived interneuron
Thalamic excitatory neuron
Choroid plexus epithelial cell
Central nervous system macrophage
Midbrain-derived inhibitory neuron
Fibroblast
Lamp5 lhx6 neuron
Tissue
Nucleus of dorsal thalamus
Developmental stage
50-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
Single Cell Portal
13,363 cells
Explore
Mus musculus
Mus musculus
Pituitary gland cell
Pituitary gland cell
Pituitary hormone deficiency, combined, 2
+1
Pituitary hormone deficiency, combined, 2
10x 3' v3
10x 3' v3
Organism
Mus musculus
Cell type
Pituitary gland cell
Tissue
Developmental stage
Disease
Pituitary hormone deficiency, combined, 2
Normal
Sex
Technology
10x 3' v3
Suspension type
CELLxGENE
13,318 cells
•
de Morree et al., 2025
A molecular cell atlas of mouse lemur, an emerging model primate
Explore
h5ad
Microcebus murinus
Microcebus murinus
Natural killer cell
+32
Natural killer cell
Gonadal fat pad
+4
Gonadal fat pad
Post-juvenile adult stage
Post-juvenile adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Microcebus murinus
Cell type
Natural killer cell
Dendritic cell
Erythroid lineage cell
T cell
B cell
Endothelial cell of artery
Pericyte
Reticular cell
Conventional dendritic cell
Endothelial cell of lymphatic vessel
Neutrophil
Pancreatic acinar cell
Non-myelinating schwann cell
Monocyte
Mature nk t cell
Smooth muscle cell
Cd4-positive, alpha-beta t cell
Myofibroblast cell
Macrophage
Cd8-positive, alpha-beta t cell
Vascular associated smooth muscle cell
Adipocyte
Tendon cell
Endothelial cell
Capillary endothelial cell
Urothelial cell
Basophil
Vein endothelial cell
Epithelial cell
Fibroblast
Granulosa cell
Plasma cell
Mesothelial cell
Tissue
Gonadal fat pad
Subcutaneous adipose tissue
Adipose tissue
Brown adipose tissue
Mesenteric fat pad
Developmental stage
Post-juvenile adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
tabula-microcebus.sf.czbiohub.org
UCSC Cell Browser:tabula-microcebus
app.globus.org
CELLxGENE
13,173 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Oligodendrocyte
+21
Oligodendrocyte
Median tuberal portion
Median tuberal portion
50-year-old stage
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Oligodendrocyte
Natural killer cell
Astrocyte
T cell
Medial ganglionic eminence derived interneuron
Pvalb chandelier gabaergic interneuron
Microglial cell
Oligodendrocyte precursor cell
B cell
Neuron
Ependymal cell
Pericyte
Committed oligodendrocyte precursor
Monocyte
Endothelial cell
Amygdala excitatory neuron
Caudal ganglionic eminence derived interneuron
Central nervous system macrophage
Midbrain-derived inhibitory neuron
Fibroblast
Lamp5 lhx6 neuron
Mammillary body neuron
Tissue
Median tuberal portion
Developmental stage
50-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
13,167 cells
•
Klughammer et al., 2024
A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features
Explore
h5ad
Homo sapiens
Homo sapiens
Hepatocyte
+8
Hepatocyte
Liver
Liver
55-year-old stage
55-year-old stage
Breast cancer
Breast cancer
Female
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Hepatocyte
T cell
B cell
Monocyte
Malignant cell
Mature nk t cell
Macrophage
Endothelial cell
Fibroblast
Tissue
Liver
Developmental stage
55-year-old stage
Disease
Breast cancer
Sex
Female
Technology
10x 3' v2
Suspension type
Cell
Related Links
humantumoratlas.org
dbGaP Study:phs002371
CELLxGENE
13,165 cells
•
Triana et al., 2021
Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states
Explore
h5ad
Homo sapiens
Homo sapiens
Plasmacytoid dendritic cell
+34
Plasmacytoid dendritic cell
Bone marrow
Bone marrow
26-year-old stage
26-year-old stage
Normal
Normal
Male
Male
Bd rhapsody whole transcriptome analysis
Bd rhapsody whole transcriptome analysis
Cell
Cell
Organism
Homo sapiens
Cell type
Plasmacytoid dendritic cell
Natural killer cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Erythroid lineage cell
Precursor b cell
Late promyelocyte
Effector memory cd8-positive, alpha-beta t cell
Erythroid progenitor cell
Cd4-positive, alpha-beta memory t cell
Non-classical monocyte
Naive b cell
Gamma-delta t cell
Conventional dendritic cell
Central memory cd8-positive, alpha-beta t cell
Classical monocyte
Pro-b cell
Small pre-b-ii cell
Naive thymus-derived cd8-positive, alpha-beta t cell
Lymphoid lineage restricted progenitor cell
Fraction a pre-pro b cell
Immature b cell
Class switched memory b cell
Pre-natural killer cell
Common dendritic progenitor
Unswitched memory b cell
Basophil mast progenitor cell
Cd16-negative, cd56-bright natural killer cell, human
Early promyelocyte
Hematopoietic multipotent progenitor cell
Megakaryocyte-erythroid progenitor cell
Plasma cell
Cd8-positive, alpha-beta memory t cell
Megakaryocyte progenitor cell
Myelocyte
Cd16-positive, cd56-dim natural killer cell, human
Tissue
Bone marrow
Developmental stage
26-year-old stage
Disease
Normal
Sex
Male
Technology
Bd rhapsody whole transcriptome analysis
Suspension type
Cell
Related Links
EGA Study:EGAS00001005593
EMBL GitLab:triana/nrn
figshare.com
figshare.com
abseqapp.shiny.embl.de
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