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Disease
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Technology
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Cell
890
Nucleus
655
Data Source
0
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Asap
43
Bgee
40
Cellxgene
2,066
Single cell portal
179
Sort
Most cells
Fewest cells
2328
datasets
CELLxGENE
30,888 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
30,789 cells
•
Kumar et al., 2023
A spatially resolved single-cell genomic atlas of the adult human breast
Explore
h5ad
Homo sapiens
Homo sapiens
Inflammatory macrophage
+10
Inflammatory macrophage
Breast
Breast
Prime adult stage
+1
Prime adult stage
Normal
Normal
Female
Female
10x 3' v3
+1
10x 3' v3
Cell
Cell
Organism
Homo sapiens
Cell type
Inflammatory macrophage
Classical monocyte
Non-classical monocyte
Macrophage
Mast cell
Alternatively activated macrophage
Neutrophil
Myeloid dendritic cell
Conventional dendritic cell
Plasmacytoid dendritic cell
Myeloid cell
Tissue
Breast
Developmental stage
Prime adult stage
Adult stage
Disease
Normal
Sex
Female
Technology
10x 3' v3
10x 3' v2
Suspension type
Cell
Related Links
Github:navinlabcode/HumanBreastCellAtlas
breastatlas.org
GEO series:GSE195665
HumanCellAtlas:1ffa2223-28a6-4133-a5a4-badd00faf4bc
CELLxGENE
30,482 cells
•
Emont et al., 2022
A single-cell atlas of human and mouse white adipose tissue
Explore
h5ad
Homo sapiens
Homo sapiens
Mesothelial cell
Mesothelial cell
Omental fat pad
Omental fat pad
36-year-old stage
+7
36-year-old stage
Normal
Normal
Female
+1
Female
10x 3' v3
10x 3' v3
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Mesothelial cell
Tissue
Omental fat pad
Developmental stage
36-year-old stage
68-year-old stage
35-year-old stage
53-year-old stage
73-year-old stage
24-year-old stage
29-year-old stage
41-year-old stage
Disease
Normal
Sex
Female
Male
Technology
10x 3' v3
Suspension type
Nucleus
Related Links
BroadInstitute Single-Cell Portal:SCP1376
gitlab.com
GEO series:GSE176067
GEO series:GSE176171
dbGaP Study:phs002766
Single Cell Portal
30,251 cells
Explore
Mus musculus
Mus musculus
Astrocyte
+3
Astrocyte
Normal
Normal
10x 3' v2
10x 3' v2
Organism
Mus musculus
Cell type
Astrocyte
Oligodendrocyte
Obsolete excitatory neuron
Brain microvascular endothelial cell
Tissue
Developmental stage
Disease
Normal
Sex
Technology
10x 3' v2
Suspension type
Related Links
Corresponding registered brain section (MD720) (section 247)
Corresponding registered brain section (MD720) (section 248)
Corresponding registered brain section (MD720) (section 249)
Corresponding registered brain section (MD720) (section 250)
Corresponding registered brain section (MD720) (section 251)
Corresponding registered brain section (MD720) (section 252)
CELLxGENE
30,206 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
+9
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
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
Endothelial 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
30,182 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
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
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
30,132 cells
•
Siletti et al., 2023
Transcriptomic diversity of cell types across the adult human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Astrocyte
+10
Astrocyte
Nucleus accumbens
Nucleus accumbens
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
Nucleus accumbens
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
30,084 cells
•
The Tabula Sapiens Consortium* et al., 2022
The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans
Explore
h5ad
Homo sapiens
Homo sapiens
Myofibroblast cell
+28
Myofibroblast cell
Sigmoid colon
+2
Sigmoid colon
60-year-old stage
+4
60-year-old stage
Normal
Normal
Female
+1
Female
Smart-seq2
+1
Smart-seq2
Cell
Cell
Organism
Homo sapiens
Cell type
Myofibroblast cell
Best4+ enterocyte
Paneth cell of colon
Enterochromaffin-like cell
Innate lymphoid cell
Cd4-positive, alpha-beta t cell
Naive thymus-derived cd4-positive, alpha-beta t cell
Enterocyte of epithelium of large intestine
Mast cell
Neutrophil
Monocyte
Myeloid dendritic cell
Type l enteroendocrine cell
Tuft cell of colon
Colon macrophage
Fibroblast
Transit amplifying cell of colon
Myeloid leukocyte
B cell
Cd8-positive, alpha-beta t cell
Enteroglial cell
Plasma cell
Regulatory t cell
Mature nk t cell
Colon endothelial cell
Intestinal crypt stem cell of colon
Large intestine goblet cell
Natural killer cell
Gamma-delta t cell
Tissue
Sigmoid colon
Ascending colon
Large intestine
Developmental stage
60-year-old stage
37-year-old stage
59-year-old stage
56-year-old stage
61-year-old stage
Disease
Normal
Sex
Female
Male
Technology
Smart-seq2
10x 3' v3
Suspension type
Cell
Related Links
AWS Open Data:tabula-sapiens
CZ BioHub Portal:tabula-sapiens-portal
HumanCellAtlas:10201832-7c73-4033-9b65-3ef13d81656a
UCSC Cell Browser:tabula-sapiens
DOI:10.1101/2024.12.03.626516
UCSC Genome Browser:hgTrackUi?hgsid=1437536541_FfasmBrAlAiA7oFphu1csVv0KHgc&db=hg38&c=chrX&g=tabulaSapiens
CELLxGENE
30,027 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
L2/3-6 intratelencephalic projecting glutamatergic neuron
+5
L2/3-6 intratelencephalic projecting glutamatergic neuron
Middle temporal gyrus
+14
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snm3c-seq
Snm3c-seq
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L2/3-6 intratelencephalic projecting glutamatergic neuron
L6 corticothalamic-projecting glutamatergic cortical neuron
Near-projecting glutamatergic cortical neuron
L6b glutamatergic cortical neuron
L5 extratelencephalic projecting glutamatergic cortical neuron
Amygdala excitatory neuron
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Bed nucleus of stria terminalis
Substantia innominata
Agranular insular cortex
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Primary motor cortex
Amygdala
Primary visual cortex
Piriform cortex
Nucleus accumbens
Septal nuclear complex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snm3c-seq
Suspension type
Nucleus
Related Links
GEO series:GSE215353
NeMo archive:dat-jx4eu3g
CELLxGENE
30,027 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
L2/3-6 intratelencephalic projecting glutamatergic neuron
+5
L2/3-6 intratelencephalic projecting glutamatergic neuron
Middle temporal gyrus
+14
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snm3c-seq
Snm3c-seq
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
L2/3-6 intratelencephalic projecting glutamatergic neuron
L6 corticothalamic-projecting glutamatergic cortical neuron
Near-projecting glutamatergic cortical neuron
L6b glutamatergic cortical neuron
L5 extratelencephalic projecting glutamatergic cortical neuron
Amygdala excitatory neuron
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Bed nucleus of stria terminalis
Substantia innominata
Agranular insular cortex
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Primary motor cortex
Amygdala
Primary visual cortex
Piriform cortex
Nucleus accumbens
Septal nuclear complex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snm3c-seq
Suspension type
Nucleus
Related Links
GEO series:GSE215353
NeMo archive:dat-jx4eu3g
CELLxGENE
30,022 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Direct pathway medium spiny neuron
+8
Direct pathway medium spiny neuron
Middle temporal gyrus
+16
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snm3c-seq
Snm3c-seq
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Direct pathway medium spiny neuron
Sncg gabaergic interneuron
Sst gabaergic interneuron
Lamp5 gabaergic interneuron
Indirect pathway medium spiny neuron
Central nervous system neuron
Vip gabaergic interneuron
Pvalb gabaergic interneuron
Pvalb chandelier gabaergic interneuron
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Bed nucleus of stria terminalis
Substantia innominata
Body of caudate nucleus
Agranular insular cortex
Globus pallidus
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Primary motor cortex
Amygdala
Primary visual cortex
Piriform cortex
Nucleus accumbens
Septal nuclear complex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snm3c-seq
Suspension type
Nucleus
Related Links
GEO series:GSE215353
NeMo archive:dat-jx4eu3g
CELLxGENE
30,022 cells
•
Tian et al., 2023
Single-cell DNA methylation and 3D genome architecture in the human brain
Explore
h5ad
Homo sapiens
Homo sapiens
Direct pathway medium spiny neuron
+8
Direct pathway medium spiny neuron
Middle temporal gyrus
+16
Middle temporal gyrus
58-year-old stage
+2
58-year-old stage
Normal
Normal
Male
Male
Snm3c-seq
Snm3c-seq
Nucleus
Nucleus
Organism
Homo sapiens
Cell type
Direct pathway medium spiny neuron
Sncg gabaergic interneuron
Sst gabaergic interneuron
Lamp5 gabaergic interneuron
Indirect pathway medium spiny neuron
Central nervous system neuron
Vip gabaergic interneuron
Pvalb gabaergic interneuron
Pvalb chandelier gabaergic interneuron
Tissue
Middle temporal gyrus
Putamen
Brodmann (1909) area 24
Bed nucleus of stria terminalis
Substantia innominata
Body of caudate nucleus
Agranular insular cortex
Globus pallidus
Corticomedial nuclear complex
Brodmann (1909) area 46
Lateral entorhinal cortex
Primary motor cortex
Amygdala
Primary visual cortex
Piriform cortex
Nucleus accumbens
Septal nuclear complex
Developmental stage
58-year-old stage
42-year-old stage
29-year-old stage
Disease
Normal
Sex
Male
Technology
Snm3c-seq
Suspension type
Nucleus
Related Links
GEO series:GSE215353
NeMo archive:dat-jx4eu3g
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