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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
20,470 cells
•
Nascimento et al., 2023
Protracted neuronal recruitment in the temporal lobes of young children
Explore
h5ad
Homo sapiens
Homo sapiens
Obsolete chandelier cell
+8
Obsolete chandelier cell
Entorhinal cortex
+1
Entorhinal cortex
13-year-old stage
+10
13-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Obsolete chandelier cell
Lamp5 gabaergic interneuron
Vip gabaergic interneuron
Forebrain neuroblast
Pvalb gabaergic interneuron
Caudal ganglionic eminence derived interneuron
Sncg gabaergic interneuron
Sst chodl gabaergic interneuron
Sst gabaergic interneuron
Tissue
Entorhinal cortex
Ganglionic eminence
Developmental stage
13-year-old stage
21st week post-fertilization stage
2-year-old stage
50-year-old stage
51-year-old stage
2-month-old stage
3-year-old stage
1-month-old stage
Newborn stage (0-28 days)
79-year-old stage
27-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
GEO series:GSE199762
dbGaP Study:phs003509
CELLxGENE
20,424 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
+13
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 granular 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
GEO series:GSE190094
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
CELLxGENE
20,407 cells
•
Ivanova et al., 2023
mRNA COVID-19 vaccine elicits potent adaptive immune response without the acute inflammation of SARS-CoV-2 infection
Explore
h5ad
Homo sapiens
Homo sapiens
B-2 b cell
+3
B-2 b cell
Blood
Blood
Sixth decade stage
+3
Sixth decade stage
Covid-19
+1
Covid-19
Female
+1
Female
10x 5' v2
+1
10x 5' v2
Cell
Cell
Organism
Homo sapiens
Cell type
B-2 b cell
Cd38-negative naive b cell
Unswitched memory b cell
Plasmablast
Tissue
Blood
Developmental stage
Sixth decade stage
Fifth decade stage
Seventh decade stage
Fourth decade stage
Disease
Covid-19
Normal
Sex
Female
Male
Technology
10x 5' v2
10x 5' v1
Suspension type
Cell
Related Links
GEO series:GSE247917
CELLxGENE
20,321 cells
•
Kedlian et al., 2024
Human skeletal muscle aging atlas
Explore
h5ad
Homo sapiens
Homo sapiens
T cell
+20
T cell
Intercostal muscle
Intercostal muscle
Sixth decade stage
+5
Sixth decade stage
Normal
Normal
Female
+1
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
T cell
Natural killer cell
Mast cell
Cd8-positive, alpha-beta t cell
Plasmacytoid dendritic cell
Cd14-positive, cd16-low monocyte
Mature neutrophil
Macrophage
Cd4-positive, cd25-positive, alpha-beta regulatory t cell
Memory b cell
Cd16-positive, cd56-dim natural killer cell, human
Plasma cell
Cd4-positive, alpha-beta t cell
Eosinophil
Cd14-low, cd16-positive monocyte
B cell
Naive t cell
Naive b cell
Conventional dendritic cell
Cd16-negative, cd56-bright natural killer cell, human
Immature neutrophil
Tissue
Intercostal muscle
Developmental stage
Sixth decade stage
Third decade stage
Seventh decade stage
Fourth decade stage
Eighth decade stage
Young adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
muscleageingcellatlas.org
ArrayExpress BioStudies:E-MTAB-13874
CELLxGENE
20,320 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
Normal
Normal
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 granular cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Kidney
Developmental stage
6-month-old stage
Disease
Normal
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
CELLxGENE
20,245 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
Podocyte
+12
Podocyte
Cortex of kidney
Cortex of kidney
62-year-old stage
62-year-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
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 granular cell
Kidney collecting duct principal cell
Kidney loop of henle thick ascending limb epithelial cell
Mesangial cell
Kidney proximal convoluted tubule epithelial cell
Tissue
Cortex of kidney
Developmental stage
62-year-old stage
Disease
Normal
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:marshalljamie/Kidney-Slide-seq
Github:MacoskoLab/slideseq-tools
grekalab.org
GEO series:GSE190094
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
CELLxGENE
20,162 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Midbrain-derived inhibitory neuron
+24
Midbrain-derived inhibitory neuron
Subthalamic nucleus
Subthalamic nucleus
42-year-old stage
+1
42-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Midbrain-derived inhibitory neuron
T cell
Central nervous system macrophage
Natural killer cell
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Committed oligodendrocyte precursor
Dentate gyrus granule cell
Hippocampal ca1-3 neuron
Lamp5 lhx6 neuron
Medial ganglionic eminence derived interneuron
Microglial cell
Thalamic excitatory neuron
B cell
Pericyte
Cerebral cortex neuron
Neuron
Monocyte
Intratelencephalic-projecting glutamatergic cortical neuron
Caudal ganglionic eminence derived interneuron
Vascular associated smooth muscle cell
Astrocyte
Fibroblast
Mammillary body neuron
Tissue
Subthalamic nucleus
Developmental stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
Github:linnarsson-lab/adult-human-brain
Github:linnarsson-lab/auto-annotation-ah
NeMo archive:biccn/grant/u01_lein/linnarsson/transcriptome/sncell/10x_v3/human/raw
CELLxGENE
20,091 cells
•
Menon et al., 2019
Single-cell transcriptomic atlas of the human retina identifies cell types associated with age-related macular degeneration
Explore
h5ad
Homo sapiens
Homo sapiens
Retinal ganglion cell
+8
Retinal ganglion cell
Peripheral region of retina
+1
Peripheral region of retina
71-year-old stage
+2
71-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Retinal ganglion cell
Retinal bipolar neuron
Microglial cell
Retinal cone cell
Retinal rod cell
Retina horizontal cell
Amacrine cell
Macroglial cell
Retinal blood vessel endothelial cell
Tissue
Peripheral region of retina
Macula lutea
Developmental stage
71-year-old stage
68-year-old stage
86-year-old stage
Disease
Normal
Sex
Male
Technology
10x 3' v3
Suspension type
Cell
Related Links
GEO series:GSE137537
UCSC Cell Browser:retina-mac-degen
Single Cell Expression Atlas Experiment:E-GEOD-137537
HumanCellAtlas:07d5987e-7f9e-4f34-b0fb-a185a35504f5
CELLxGENE
20,055 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
+13
Podocyte
Kidney
Kidney
13-week-old stage
13-week-old stage
Normal
Normal
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 granular 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
13-week-old stage
Disease
Normal
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
CELLxGENE
20,027 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Midbrain-derived inhibitory neuron
+26
Midbrain-derived inhibitory neuron
Hypothalamus
Hypothalamus
42-year-old stage
+1
42-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Midbrain-derived inhibitory neuron
T cell
Oligodendrocyte precursor cell
Endothelial cell
Oligodendrocyte
Amygdala excitatory neuron
Committed oligodendrocyte precursor
Cerebellar granule cell
Lamp5 lhx6 neuron
Eccentric medium spiny neuron
Pvalb chandelier gabaergic interneuron
Medial ganglionic eminence derived interneuron
Cerebellar inhibitory gabaergic interneuron
Ependymal cell
Microglial cell
Thalamic excitatory neuron
Pericyte
Neuron
Monocyte
Intratelencephalic-projecting glutamatergic cortical neuron
Caudal ganglionic eminence derived interneuron
Vascular associated smooth muscle cell
Sst chodl gabaergic interneuron
Astrocyte
Fibroblast
Medium spiny neuron
Mammillary body neuron
Tissue
Hypothalamus
Developmental stage
42-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
20,021 cells
•
Liu et al., 2022
Spatial maps of T cell receptors and transcriptomes reveal distinct immune niches and interactions in the adaptive immune response
Explore
h5ad
Homo sapiens
Homo sapiens
Cd8-positive, alpha-beta t cell
+5
Cd8-positive, alpha-beta t cell
Kidney
Kidney
61-year-old stage
61-year-old stage
Renal cell carcinoma
Renal cell carcinoma
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Homo sapiens
Cell type
Cd8-positive, alpha-beta t cell
Cd4-positive helper t cell
Epithelial cell
Myeloid cell
Malignant cell
Fibroblast
Tissue
Kidney
Developmental stage
61-year-old stage
Disease
Renal cell carcinoma
Sex
Male
Technology
Slide-seqv2
Suspension type
Related Links
Github:soph-liu/Slide-TCR-seq
BroadInstitute Single-Cell Portal:SCP1348/slide-tcr-seq-data
Bgee
20,009 cells
•
Lukowski et al., 2019
A single‐cell transcriptome atlas of the adult human retina
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
Retinal ganglion cell
+7
Retinal ganglion cell
Retinal neural layer
Retinal neural layer
42-year-old stage
+2
42-year-old stage
Normal
Normal
Female
+1
Female
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Retinal ganglion cell
Retinal bipolar neuron
Microglial cell
Retinal cone cell
Retinal rod cell
Obsolete somatic cell
Amacrine cell
Mueller cell
Tissue
Retinal neural layer
Developmental stage
42-year-old stage
53-year-old stage
80-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x genomics v2
Suspension type
Related Links
ebi.ac.uk
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