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Technology
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Cell
890
Nucleus
655
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Asap
43
Bgee
40
Cellxgene
2,066
Single cell portal
179
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Most cells
Fewest cells
2328
datasets
CELLxGENE
34,933 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+10
Astrocyte
Bed nucleus of stria terminalis
Bed nucleus of stria terminalis
50-year-old stage
+2
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Leukocyte
Vascular associated smooth muscle cell
Fibroblast
Ependymal cell
Pericyte
Endothelial cell
Neuron
Central nervous system macrophage
Tissue
Bed nucleus of stria terminalis
Developmental stage
50-year-old 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
34,919 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+9
Astrocyte
Brodmann (1909) area 13
Brodmann (1909) area 13
50-year-old stage
+2
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Leukocyte
Vascular associated smooth muscle cell
Fibroblast
Pericyte
Endothelial cell
Neuron
Central nervous system macrophage
Tissue
Brodmann (1909) area 13
Developmental stage
50-year-old 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
34,844 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
Kidney loop of henle thick ascending limb epithelial cell
+13
Kidney loop of henle thick ascending limb epithelial cell
Kidney
Kidney
13-week-old stage
13-week-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney granular cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney interstitial fibroblast
Kidney collecting duct principal cell
Macula densa epithelial cell
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Podocyte
Endothelial 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
34,833 cells
•
Xu et al., 2022
Smoking modulates different secretory subpopulations expressing SARS-CoV-2 entry genes in the nasal and bronchial airways
Explore
h5ad
Homo sapiens
Homo sapiens
Club cell
+10
Club cell
Nasal cavity epithelium
Nasal cavity epithelium
66-year-old stage
+6
66-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Club cell
Ionocyte
Glandular secretory epithelial cell
Respiratory tract multiciliated cell
Respiratory tract epithelial cell
Nasal mucosa goblet cell
Keratinizing barrier epithelial cell
T cell
Respiratory basal cell
Keratinocyte
Professional antigen presenting cell
Tissue
Nasal cavity epithelium
Developmental stage
66-year-old stage
64-year-old stage
65-year-old stage
63-year-old stage
59-year-old stage
34-year-old stage
30-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v2
Suspension type
Cell
Related Links
GEO series:GSE210695
CELLxGENE
34,772 cells
•
Smillie et al., 2019
Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis
Explore
h5ad
Homo sapiens
Homo sapiens
Cd8-positive, alpha-beta thymocyte
+22
Cd8-positive, alpha-beta thymocyte
Caecum epithelium
+2
Caecum epithelium
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v1
+1
10x 3' v1
Cell
Cell
Organism
Homo sapiens
Cell type
Cd8-positive, alpha-beta thymocyte
Follicular b cell
Innate lymphoid cell
Cd4-positive, alpha-beta memory t cell
Cd4-positive, alpha-beta t cell
Intestinal crypt stem cell
Macrophage
Cd8-alpha-beta-positive, alpha-beta intraepithelial t cell
Mast cell
Enteroendocrine cell
Fibroblast
Transit amplifying cell of colon
Intestinal tuft cell
B cell
Activated cd4-positive, alpha-beta t cell
Dendritic cell
Plasma cell
Regulatory t cell
T cell
Enterocyte
Natural killer cell
M cell of gut
Goblet cell
Tissue
Caecum epithelium
Colonic epithelium
Mucosa of transverse colon
Developmental stage
Adult stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v1
10x 3' v2
Suspension type
Cell
Related Links
BroadInstitute Single-Cell Portal:SCP259
UCSC Cell Browser:human-colon
HumanCellAtlas:cd61771b-661a-4e19-b269-6e5d95350de6
CELLxGENE
34,723 cells
•
Cowan et al., 2020
Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution
Explore
h5ad
Homo sapiens
Homo sapiens
Retinal rod cell
+19
Retinal rod cell
Retina
+1
Retina
Adult stage
Adult stage
Normal
Normal
Female
+1
Female
10x 3' v2
10x 3' v2
Cell
Cell
Organism
Homo sapiens
Cell type
Retinal rod cell
Astrocyte
Retinal cone cell
Off-bipolar cell
Mast cell
Endothelial cell of vascular tree
On-bipolar cell
Monocyte
Microglial cell
Fibroblast
Pericyte
Mueller cell
T cell
Amacrine cell
Retinal pigment epithelial cell
Retinal ganglion cell
Retina horizontal cell
Natural killer cell
Melanocyte
Rod bipolar cell
Tissue
Retina
Pigment epithelium of eye
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
34,722 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Vascular leptomeningeal cell
+6
Vascular leptomeningeal cell
Middle temporal gyrus
+43
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snmc-seq2
Snmc-seq2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Vascular leptomeningeal cell
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Cell
Macroglial cell
Endothelial cell
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Posterior parahippocampal gyrus
Brodmann (1909) area 38
Secondary visual cortex
Brodmann (1909) area 19
Inferior temporal gyrus
Hippocampal formation
Dentate gyrus of hippocampal formation
Bed nucleus of stria terminalis
Primary somatosensory cortex
Substantia innominata
Body of caudate nucleus
Cerebellum
Insula
Central nucleus of inferior colliculus
Central amygdaloid nucleus
Granular insular cortex
Agranular insular cortex
Globus pallidus
Basolateral amygdaloid nuclear complex
Anterior cingulate cortex
Subiculum
Primary auditory cortex
Medial entorhinal cortex
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Brodmann (1909) area 25
Parietal cortex
Primary motor cortex
Pulvinar nucleus
Amygdala
Primary visual cortex
Hippocampal field
Piriform cortex
Claustrum of brain
Pontine nuclear group
Medial dorsal nucleus of thalamus
Nucleus accumbens
Septal nuclear complex
Prefrontal cortex
Cuneus cortex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snmc-seq2
Suspension type
Nucleus
Related Links
GEO series:GSE215353
NeMo archive:dat-jx4eu3g
CELLxGENE
34,722 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Vascular leptomeningeal cell
+6
Vascular leptomeningeal cell
Middle temporal gyrus
+43
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snmc-seq2
Snmc-seq2
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Vascular leptomeningeal cell
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Cell
Macroglial cell
Endothelial cell
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Posterior parahippocampal gyrus
Brodmann (1909) area 38
Secondary visual cortex
Brodmann (1909) area 19
Inferior temporal gyrus
Hippocampal formation
Dentate gyrus of hippocampal formation
Bed nucleus of stria terminalis
Primary somatosensory cortex
Substantia innominata
Body of caudate nucleus
Cerebellum
Insula
Central nucleus of inferior colliculus
Central amygdaloid nucleus
Granular insular cortex
Agranular insular cortex
Globus pallidus
Basolateral amygdaloid nuclear complex
Anterior cingulate cortex
Subiculum
Primary auditory cortex
Medial entorhinal cortex
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Brodmann (1909) area 25
Parietal cortex
Primary motor cortex
Pulvinar nucleus
Amygdala
Primary visual cortex
Hippocampal field
Piriform cortex
Claustrum of brain
Pontine nuclear group
Medial dorsal nucleus of thalamus
Nucleus accumbens
Septal nuclear complex
Prefrontal cortex
Cuneus cortex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snmc-seq2
Suspension type
Nucleus
Related Links
NeMo archive:dat-jx4eu3g
GEO series:GSE215353
Bgee
34,662 cells
•
Stewart et al., 2019
Spatiotemporal immune zonation of the human kidney
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
Kidney loop of henle thick ascending limb epithelial cell
+43
Kidney loop of henle thick ascending limb epithelial cell
Metanephros
+1
Metanephros
13th week post-fertilization stage
+7
13th week post-fertilization stage
Normal
Normal
Female
+1
Female
10x genomics v2
10x genomics v2
Organism
Homo sapiens
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Myofibroblast cell
Type i nk t cell
Obsolete somatic cell
Mesenchymal stem cell
Classical monocyte
Innate lymphoid cell
Kidney connecting tubule epithelial cell
Cd4-positive, alpha-beta t cell
Kidney tubule cell
Non-classical monocyte
Macrophage
Epithelial fate stem cell
Stromal cell
Mast cell
Epithelial cell
Erythroid lineage cell
Neutrophil
Monocyte
Megakaryocyte
Renal beta-intercalated cell
Renal principal cell
Kidney resident macrophage
Epithelial cell of proximal tubule
Conventional dendritic cell
Fibroblast
Renal intercalated cell
Podocyte
Tissue-resident macrophage
Endothelial cell
Mesenchymal cell
Kidney loop of henle epithelial cell
Kidney pelvis urothelial cell
B cell
Cd8-positive, alpha-beta t cell
Dendritic cell
Peritubular capillary endothelial cell
Plasmacytoid dendritic cell
Renal alpha-intercalated cell
Glomerular endothelial cell
Embryonic fibroblast
Neuron
Vasa recta cell
Natural killer cell
Tissue
Metanephros
Adult mammalian kidney
Developmental stage
13th week post-fertilization stage
10th week post-fertilization stage
Carnegie stage 22
17th week post-fertilization stage
53-year-old stage
14th week post-fertilization stage
72-year-old stage
Carnegie stage 23
Disease
Normal
Sex
Female
Male
Technology
10x genomics v2
Suspension type
Related Links
ncbi.nlm.nih.gov
CELLxGENE
34,638 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
Kidney loop of henle thick ascending limb epithelial cell
+13
Kidney loop of henle thick ascending limb epithelial cell
Kidney
Kidney
6-month-old stage
6-month-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney granular cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney interstitial fibroblast
Kidney collecting duct principal cell
Macula densa epithelial cell
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Podocyte
Endothelial 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
34,416 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+9
Astrocyte
Putamen
Putamen
50-year-old stage
+2
50-year-old stage
Normal
Normal
Male
Male
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Astrocyte
Oligodendrocyte precursor cell
Oligodendrocyte
Leukocyte
Vascular associated smooth muscle cell
Fibroblast
Pericyte
Endothelial cell
Neuron
Central nervous system macrophage
Tissue
Putamen
Developmental stage
50-year-old 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
34,355 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
Kidney loop of henle thick ascending limb epithelial cell
+12
Kidney loop of henle thick ascending limb epithelial cell
Kidney
Kidney
6-month-old stage
6-month-old stage
Normal
Normal
Male
Male
Slide-seqv2
Slide-seqv2
Organism
Mus musculus
Cell type
Kidney loop of henle thick ascending limb epithelial cell
Kidney granular cell
Leukocyte
Macrophage
Kidney distal convoluted tubule epithelial cell
Kidney interstitial fibroblast
Kidney collecting duct principal cell
Blood vessel smooth muscle cell
Kidney collecting duct intercalated cell
Podocyte
Endothelial 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
GEO series:GSE190094
Github:marshalljamie/Kidney-Slide-seq
protocols.io:library-generation-using-slide-seqv2-bpgzmjx6
Github:MacoskoLab/slideseq-tools
grekalab.org
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