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Technology
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Cell
896
Nucleus
659
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Asap
43
Bgee
40
Cellxgene
2,080
Single cell portal
183
Sort
Most cells
Fewest cells
2346
datasets
CELLxGENE
20,000 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
Igg plasmablast
+5
Igg plasmablast
Blood
Blood
37-year-old stage
+32
37-year-old stage
Covid-19
+1
Covid-19
Female
+1
Female
Seq-well
+2
Seq-well
Cell
Cell
Organism
Homo sapiens
Cell type
Igg plasmablast
Memory b cell
Plasmablast
Iga plasmablast
Transitional stage b cell
Naive b cell
Tissue
Blood
Developmental stage
37-year-old stage
75-year-old stage
Sixth decade stage
53-year-old stage
61-year-old stage
54-year-old stage
68-year-old stage
48-year-old stage
39-year-old stage
29-year-old stage
38-year-old stage
Fifth decade stage
84-year-old stage
82-year-old stage
Third decade stage
80 year-old and over stage
49-year-old stage
Seventh decade stage
59-year-old stage
Adult stage
67-year-old stage
62-year-old stage
70-year-old stage
46-year-old stage
60-year-old stage
78-year-old stage
36-year-old stage
Fourth decade stage
63-year-old stage
Eighth decade stage
47-year-old stage
73-year-old stage
27-year-old stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
Seq-well
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
cincinnatichildrens.org
toppcell.cchmc.org
CELLxGENE
19,985 cells
•
Muto et al., 2021
Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney
Explore
h5ad
Homo sapiens
Homo sapiens
Podocyte
+12
Podocyte
Cortex of kidney
Cortex of kidney
61-year-old stage
+4
61-year-old stage
Normal
Normal
Female
+1
Female
10x 5' v1
10x 5' v1
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Podocyte
Renal principal cell
Parietal epithelial cell
Renal beta-intercalated cell
Leukocyte
Kidney capillary endothelial cell
Epithelial cell of proximal tubule
Renal alpha-intercalated cell
Kidney distal convoluted tubule epithelial cell
Kidney connecting tubule epithelial cell
Kidney loop of henle thick ascending limb epithelial cell
Mesangial cell
Fibroblast
Tissue
Cortex of kidney
Developmental stage
61-year-old stage
52-year-old stage
54-year-old stage
50-year-old stage
62-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 5' v1
Suspension type
Nucleus
Related Links
genome.ucsc.edu
UCSC Cell Browser:human-kidney-atac
HumanCellAtlas:2af52a13-65cb-4973-b513-39be38f2df3f
Github:p4rkerw/Muto_Wilson_NComm_2020
Kidney Online Transcriptomics
GEO series:GSE151302
protocols.io:nuclei-isolation-from-human-kidney-for-single-nucl-nahdab6
CELLxGENE
19,886 cells
•
Marshall et al., 2022
High-resolution Slide-seqV2 spatial transcriptomics enables discovery of disease-specific cell neighborhoods and pathways
Explore
h5ad
Mus musculus
Mus musculus
Podocyte
+12
Podocyte
Kidney
Kidney
6-month-old stage
6-month-old stage
Autosomal dominant polycystic kidney disease
Autosomal dominant polycystic kidney disease
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Podocyte
Endothelial cell
Kidney interstitial fibroblast
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Macula densa epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
6-month-old stage
Disease
Autosomal dominant polycystic kidney disease
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
Single Cell Portal
19,858 cells
Explore
Homo sapiens
Homo sapiens
Cd4-positive helper t cell
Cd4-positive helper t cell
Normal
Normal
10x scatac-seq
10x scatac-seq
Organism
Homo sapiens
Cell type
Cd4-positive helper t cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x scatac-seq
Suspension type
CELLxGENE
19,847 cells
•
Zwick et al., 2024
Epithelial zonation along the mouse and human small intestine defines five discrete metabolic domains
Explore
h5ad
Mus musculus
Mus musculus
Transit amplifying cell of small intestine
+6
Transit amplifying cell of small intestine
Small intestine
Small intestine
3-month-old stage
3-month-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Mus musculus
Cell type
Transit amplifying cell of small intestine
Stem cell
Enterocyte of epithelium of small intestine
Small intestine goblet cell
Paneth cell of epithelium of small intestine
Enteroendocrine cell of small intestine
Tuft cell of small intestine
Tissue
Small intestine
Developmental stage
3-month-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE201859
CELLxGENE
19,781 cells
•
Sampath Kumar et al., 2023
Spatiotemporal transcriptomic maps of whole mouse embryos at the onset of organogenesis
Explore
h5ad
Mus musculus
Mus musculus
Cardiac valve cell
+13
Cardiac valve cell
Embryo
Embryo
Theiler stage 14
Theiler stage 14
Normal
Normal
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Cardiac valve cell
Spinal cord interneuron
Premigratory neural crest cell
Paraxial cell
Notochordal cell
Neuroplacodal cell
Hemangioblast
Mesodermal cell
Gut endothelial cell
Primitive red blood cell
Splanchnic mesodermal cell
Surface ectodermal cell
Midbrain dopaminergic neuron
Endodermal cell
Tissue
Embryo
Developmental stage
Theiler stage 14
Disease
Normal
Sex
Technology
Slide-seqv2
Suspension type
Related Links
Chen Lab
GEO series:GSE197353
figshare.com
FigShare Dataset:E9_0_Embryo_h5ad/21695879/1
FigShare Dataset:E8_5_Embryo2_h5ad/21695849/1
CELLxGENE
19,768 cells
•
Cowan et al., 2020
Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+17
T cell
Fovea centralis
Fovea centralis
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Natural killer cell
Retinal ganglion cell
Retinal pigment epithelial cell
Off-bipolar cell
Rod bipolar cell
Endothelial cell of vascular tree
Microglial cell
Retinal cone cell
Retinal rod cell
Retina horizontal cell
Amacrine cell
B cell
Pericyte
Mueller cell
Monocyte
Astrocyte
Fibroblast
Tissue
Fovea centralis
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
EGA Study:EGAS00001004561
DOI:10.17632/sm67hr5bpm.1
HumanCellAtlas:1dddae6e-3753-48af-b20e-fa22abad125d
CELLxGENE
19,722 cells
•
Kuppe et al., 2022
Spatial multi-omic map of human myocardial infarction
Explore
h5ad
Homo sapiens
Homo sapiens
Cardiac endothelial cell
+7
Cardiac endothelial cell
Heart left ventricle
Heart left ventricle
61-year-old stage
+2
61-year-old stage
Myocardial infarction
Myocardial infarction
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Cardiac endothelial cell
Lymphoid lineage restricted progenitor cell
Immature innate lymphoid cell
Neuronal receptor cell
Pericyte
Cardiac muscle myoblast
Smooth muscle myoblast
Fibroblast of cardiac tissue
Tissue
Heart left ventricle
Developmental stage
61-year-old stage
29-year-old stage
46-year-old stage
Disease
Myocardial infarction
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Zenodo record:6578553#.YvQwPezMI1w
Zenodo record:6580069#.YvQwROzMI1w
Github:saezlab/visium_heart
kramannlab.com
Zenodo record:6578047#.YvQwPezMI1w
Zenodo record:6578617#.YvQwQuzMI1w
HumanCellAtlas:e9f36305-d857-44a3-93f0-df4e6007dc97
Github:KramannLab/visium_heart
EGA Study:EGAS00001006330
CELLxGENE
19,711 cells
•
Johansen et al., 2023
Interindividual variation in human cortical cell type abundance and expression
Explore
h5ad
Homo sapiens
Homo sapiens
Pvalb gabaergic interneuron
Pvalb gabaergic interneuron
Neocortex
Neocortex
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Pvalb gabaergic interneuron
Tissue
Neocortex
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
knowledge.brain-map.org
NeMo archive:dat-p3eei0g
Github:AllenInstitute/human_variation
Allen Brain Map Atlases:rnaseq/human-mtg-10x_sea-ad
Allen Brain Map:classes/multimodal-characterization
CELLxGENE
19,694 cells
•
Lukowski et al., 2019
A single‐cell transcriptome atlas of the adult human retina
Explore
h5ad
Homo sapiens
Homo sapiens
Retinal ganglion cell
+7
Retinal ganglion cell
Retina
Retina
42-year-old stage
+2
42-year-old stage
Cataract
+1
Cataract
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Retinal ganglion cell
Off-bipolar cell
On-bipolar cell
Microglial cell
Retinal cone cell
Retinal rod cell
Amacrine cell
Mueller cell
Tissue
Retina
Developmental stage
42-year-old stage
53-year-old stage
80-year-old stage
Disease
Cataract
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
UCSC Cell Browser:adult-retina
HumanCellAtlas:8185730f-4113-40d3-9cc3-929271784c2b
Single Cell Expression Atlas Experiment:E-MTAB-7316
ArrayExpress BioStudies:E-MTAB-7316
Single Cell Portal
19,603 cells
Explore
Homo sapiens
Homo sapiens
Epithelial cell
Epithelial cell
Adenocarcinoma
Adenocarcinoma
Starmap
Starmap
Organism
Homo sapiens
Cell type
Epithelial cell
Tissue
Developmental stage
Disease
Adenocarcinoma
Sex
Technology
Starmap
Suspension type
CELLxGENE
19,601 cells
•
Wu et al., 2021
A single-cell and spatially resolved atlas of human breast cancers
Explore
h5ad
Homo sapiens
Homo sapiens
Endothelial cell of lymphatic vessel
+3
Endothelial cell of lymphatic vessel
Breast
Breast
42-year-old stage
+19
42-year-old stage
Invasive ductal breast carcinoma
+2
Invasive ductal breast carcinoma
Female
Female
10x 5' v1
+2
10x 5' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Endothelial cell of lymphatic vessel
Endothelial cell
Fibroblast of breast
Pericyte
Tissue
Breast
Developmental stage
42-year-old stage
43-year-old stage
85-year-old stage
61-year-old stage
88-year-old stage
52-year-old stage
54-year-old stage
55-year-old stage
82-year-old stage
50-year-old stage
57-year-old stage
49-year-old stage
35-year-old stage
58-year-old stage
67-year-old stage
41-year-old stage
60-year-old stage
63-year-old stage
47-year-old stage
73-year-old stage
Disease
Invasive ductal breast carcinoma
Invasive lobular breast carcinoma
Breast carcinoma
Sex
Female
Technology
10x 5' v1
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
Github:Swarbricklab-code/BrCa_cell_atlas
GEO series:GSE176078
EGA Study:EGAS00001005173
Zenodo record:4739739
BroadInstitute Single-Cell Portal:SCP1039/a-single-cell-and-spatially-resolved-atlas-of-human-breast-cancers
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